-- dump date 20140619_012621 -- class Genbank::misc_feature -- table misc_feature_note -- id note 640511000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 640511000002 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 640511000003 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 640511000004 Walker A motif; other site 640511000005 ATP binding site [chemical binding]; other site 640511000006 Walker B motif; other site 640511000007 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 640511000008 arginine finger; other site 640511000009 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 640511000010 DnaA box-binding interface [nucleotide binding]; other site 640511000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 640511000012 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 640511000013 putative DNA binding surface [nucleotide binding]; other site 640511000014 dimer interface [polypeptide binding]; other site 640511000015 beta-clamp/clamp loader binding surface; other site 640511000016 beta-clamp/translesion DNA polymerase binding surface; other site 640511000017 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 640511000018 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511000019 ATP binding site [chemical binding]; other site 640511000020 Mg2+ binding site [ion binding]; other site 640511000021 G-X-G motif; other site 640511000022 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 640511000023 anchoring element; other site 640511000024 dimer interface [polypeptide binding]; other site 640511000025 ATP binding site [chemical binding]; other site 640511000026 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 640511000027 active site 640511000028 putative metal-binding site [ion binding]; other site 640511000029 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 640511000030 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 640511000031 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 640511000032 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 640511000033 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 640511000034 Heavy-metal-associated domain; Region: HMA; pfam00403 640511000035 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 640511000036 Soluble P-type ATPase [General function prediction only]; Region: COG4087 640511000037 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 640511000038 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 640511000039 DNA binding residues [nucleotide binding] 640511000040 dimer interface [polypeptide binding]; other site 640511000041 putative metal binding site [ion binding]; other site 640511000042 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 640511000043 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 640511000044 ATP binding site [chemical binding]; other site 640511000045 Mg++ binding site [ion binding]; other site 640511000046 motif III; other site 640511000047 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 640511000048 nucleotide binding region [chemical binding]; other site 640511000049 ATP-binding site [chemical binding]; other site 640511000050 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 640511000051 putative RNA binding site [nucleotide binding]; other site 640511000052 putative aminotransferase; Provisional; Region: PRK12414 640511000053 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 640511000054 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511000055 homodimer interface [polypeptide binding]; other site 640511000056 catalytic residue [active] 640511000057 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 640511000058 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 640511000059 substrate binding pocket [chemical binding]; other site 640511000060 membrane-bound complex binding site; other site 640511000061 hinge residues; other site 640511000062 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 640511000063 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511000064 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640511000065 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511000066 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 640511000067 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640511000068 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640511000069 metal binding site [ion binding]; metal-binding site 640511000070 active site 640511000071 I-site; other site 640511000072 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 640511000073 CoenzymeA binding site [chemical binding]; other site 640511000074 subunit interaction site [polypeptide binding]; other site 640511000075 PHB binding site; other site 640511000076 Patatin-like phospholipase; Region: Patatin; pfam01734 640511000077 active site 640511000078 nucleophile elbow; other site 640511000079 Putative D-3-Phosphoglycerate Dehydrogenases; Region: PGDH_like_1; cd12169 640511000080 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 640511000081 dimerization interface [polypeptide binding]; other site 640511000082 NAD binding site [chemical binding]; other site 640511000083 ligand binding site [chemical binding]; other site 640511000084 catalytic site [active] 640511000085 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 640511000086 active site 640511000087 substrate-binding site [chemical binding]; other site 640511000088 metal-binding site [ion binding] 640511000089 GTP binding site [chemical binding]; other site 640511000090 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511000091 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511000092 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 640511000093 putative effector binding pocket; other site 640511000094 dimerization interface [polypeptide binding]; other site 640511000095 DNA topoisomerase III; Validated; Region: PRK08173 640511000096 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 640511000097 active site 640511000098 putative interdomain interaction site [polypeptide binding]; other site 640511000099 putative metal-binding site [ion binding]; other site 640511000100 putative nucleotide binding site [chemical binding]; other site 640511000101 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 640511000102 domain I; other site 640511000103 DNA binding groove [nucleotide binding] 640511000104 phosphate binding site [ion binding]; other site 640511000105 domain II; other site 640511000106 domain III; other site 640511000107 nucleotide binding site [chemical binding]; other site 640511000108 catalytic site [active] 640511000109 domain IV; other site 640511000110 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 640511000111 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 640511000112 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 640511000113 catalytic residues [active] 640511000114 DNA protecting protein DprA; Region: dprA; TIGR00732 640511000115 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 640511000116 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 640511000117 active site 640511000118 catalytic residues [active] 640511000119 metal binding site [ion binding]; metal-binding site 640511000120 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 640511000121 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 640511000122 putative active site [active] 640511000123 substrate binding site [chemical binding]; other site 640511000124 putative cosubstrate binding site; other site 640511000125 catalytic site [active] 640511000126 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 640511000127 substrate binding site [chemical binding]; other site 640511000128 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 640511000129 M48 family peptidase; Provisional; Region: PRK03001 640511000130 16S rRNA methyltransferase B; Provisional; Region: PRK10901 640511000131 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 640511000132 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 640511000133 S-adenosylmethionine binding site [chemical binding]; other site 640511000134 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 640511000135 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 640511000136 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 640511000137 dimerization interface [polypeptide binding]; other site 640511000138 PAS domain; Region: PAS; smart00091 640511000139 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 640511000140 dimer interface [polypeptide binding]; other site 640511000141 phosphorylation site [posttranslational modification] 640511000142 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511000143 ATP binding site [chemical binding]; other site 640511000144 Mg2+ binding site [ion binding]; other site 640511000145 G-X-G motif; other site 640511000146 Response regulator receiver domain; Region: Response_reg; pfam00072 640511000147 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511000148 active site 640511000149 phosphorylation site [posttranslational modification] 640511000150 intermolecular recognition site; other site 640511000151 dimerization interface [polypeptide binding]; other site 640511000152 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 640511000153 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 640511000154 Ligand Binding Site [chemical binding]; other site 640511000155 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 640511000156 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 640511000157 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 640511000158 active site 640511000159 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 640511000160 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 640511000161 Sel1-like repeats; Region: SEL1; smart00671 640511000162 Sel1-like repeats; Region: SEL1; smart00671 640511000163 Sel1-like repeats; Region: SEL1; smart00671 640511000164 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 640511000165 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 640511000166 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 640511000167 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 640511000168 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreD; COG2891 640511000169 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 640511000170 rod shape-determining protein MreC; Region: MreC; pfam04085 640511000171 rod shape-determining protein MreB; Provisional; Region: PRK13927 640511000172 MreB and similar proteins; Region: MreB_like; cd10225 640511000173 nucleotide binding site [chemical binding]; other site 640511000174 Mg binding site [ion binding]; other site 640511000175 putative protofilament interaction site [polypeptide binding]; other site 640511000176 RodZ interaction site [polypeptide binding]; other site 640511000177 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 640511000178 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 640511000179 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 640511000180 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 640511000181 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 640511000182 GatB domain; Region: GatB_Yqey; smart00845 640511000183 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 640511000184 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 640511000185 putative active site [active] 640511000186 putative catalytic site [active] 640511000187 putative DNA binding site [nucleotide binding]; other site 640511000188 putative phosphate binding site [ion binding]; other site 640511000189 metal binding site A [ion binding]; metal-binding site 640511000190 putative AP binding site [nucleotide binding]; other site 640511000191 putative metal binding site B [ion binding]; other site 640511000192 Peptidase family M48; Region: Peptidase_M48; cl12018 640511000193 muropeptide transporter; Reviewed; Region: ampG; PRK11902 640511000194 AmpG-like permease; Region: 2A0125; TIGR00901 640511000195 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 640511000196 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 640511000197 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 640511000198 division inhibitor protein; Provisional; Region: slmA; PRK09480 640511000199 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640511000200 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 640511000201 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 640511000202 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 640511000203 feedback inhibition sensing region; other site 640511000204 homohexameric interface [polypeptide binding]; other site 640511000205 nucleotide binding site [chemical binding]; other site 640511000206 N-acetyl-L-glutamate binding site [chemical binding]; other site 640511000207 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640511000208 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 640511000209 dimer interface [polypeptide binding]; other site 640511000210 phosphorylation site [posttranslational modification] 640511000211 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511000212 ATP binding site [chemical binding]; other site 640511000213 Mg2+ binding site [ion binding]; other site 640511000214 G-X-G motif; other site 640511000215 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 640511000216 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511000217 active site 640511000218 phosphorylation site [posttranslational modification] 640511000219 intermolecular recognition site; other site 640511000220 dimerization interface [polypeptide binding]; other site 640511000221 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 640511000222 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 640511000223 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 640511000224 Walker A motif; other site 640511000225 ATP binding site [chemical binding]; other site 640511000226 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 640511000227 Walker B motif; other site 640511000228 arginine finger; other site 640511000229 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 640511000230 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 640511000231 active site 640511000232 HslU subunit interaction site [polypeptide binding]; other site 640511000233 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 640511000234 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 640511000235 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 640511000236 P-loop, Walker A motif; other site 640511000237 Base recognition motif; other site 640511000238 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 640511000239 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 640511000240 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 640511000241 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 640511000242 putative RNA binding site [nucleotide binding]; other site 640511000243 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 640511000244 S-adenosylmethionine binding site [chemical binding]; other site 640511000245 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 640511000246 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 640511000247 active site 640511000248 Int/Topo IB signature motif; other site 640511000249 Protein of unknown function, DUF484; Region: DUF484; cl17449 640511000250 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 640511000251 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 640511000252 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 640511000253 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 640511000254 putative acyl-acceptor binding pocket; other site 640511000255 S-adenosylmethionine synthetase; Validated; Region: PRK05250 640511000256 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 640511000257 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 640511000258 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 640511000259 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 640511000260 Protein of unknown function (DUF3185); Region: DUF3185; pfam11381 640511000261 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 640511000262 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 640511000263 active site 640511000264 catalytic tetrad [active] 640511000265 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 640511000266 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511000267 putative substrate translocation pore; other site 640511000268 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640511000269 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 640511000270 HlyD family secretion protein; Region: HlyD_3; pfam13437 640511000271 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 640511000272 serine/threonine protein kinase; Provisional; Region: PRK11768 640511000273 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 640511000274 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 640511000275 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 640511000276 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 640511000277 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 640511000278 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 640511000279 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 640511000280 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 640511000281 XdhC Rossmann domain; Region: XdhC_C; pfam13478 640511000282 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 640511000283 putative hydrophobic ligand binding site [chemical binding]; other site 640511000284 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 640511000285 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 640511000286 metal ion-dependent adhesion site (MIDAS); other site 640511000287 MoxR-like ATPases [General function prediction only]; Region: COG0714 640511000288 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 640511000289 Walker A motif; other site 640511000290 ATP binding site [chemical binding]; other site 640511000291 Walker B motif; other site 640511000292 arginine finger; other site 640511000293 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 640511000294 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 640511000295 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 640511000296 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 640511000297 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640511000298 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 640511000299 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 640511000300 catalytic loop [active] 640511000301 iron binding site [ion binding]; other site 640511000302 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 640511000303 amino acid transporter; Region: 2A0306; TIGR00909 640511000304 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 640511000305 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640511000306 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511000307 active site 640511000308 phosphorylation site [posttranslational modification] 640511000309 intermolecular recognition site; other site 640511000310 dimerization interface [polypeptide binding]; other site 640511000311 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 640511000312 DNA binding residues [nucleotide binding] 640511000313 dimerization interface [polypeptide binding]; other site 640511000314 Histidine kinase; Region: HisKA_3; pfam07730 640511000315 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511000316 ATP binding site [chemical binding]; other site 640511000317 Mg2+ binding site [ion binding]; other site 640511000318 G-X-G motif; other site 640511000319 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 640511000320 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 640511000321 FAD binding pocket [chemical binding]; other site 640511000322 FAD binding motif [chemical binding]; other site 640511000323 phosphate binding motif [ion binding]; other site 640511000324 beta-alpha-beta structure motif; other site 640511000325 NAD binding pocket [chemical binding]; other site 640511000326 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 640511000327 putative phosphate binding site [ion binding]; other site 640511000328 putative catalytic site [active] 640511000329 putative phosphate binding site [ion binding]; other site 640511000330 putative metal binding site [ion binding]; other site 640511000331 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 640511000332 Walker A motif; other site 640511000333 ATP binding site [chemical binding]; other site 640511000334 Walker B motif; other site 640511000335 arginine finger; other site 640511000336 hydroxyglutarate oxidase; Provisional; Region: PRK11728 640511000337 FAD dependent oxidoreductase; Region: DAO; pfam01266 640511000338 High potential iron-sulfur protein; Region: HIPIP; pfam01355 640511000339 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 640511000340 Amidase; Region: Amidase; cl11426 640511000341 Dienelactone hydrolase family; Region: DLH; pfam01738 640511000342 Nitronate monooxygenase; Region: NMO; pfam03060 640511000343 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 640511000344 FMN binding site [chemical binding]; other site 640511000345 substrate binding site [chemical binding]; other site 640511000346 putative catalytic residue [active] 640511000347 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 640511000348 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 640511000349 dimerization interface [polypeptide binding]; other site 640511000350 ligand binding site [chemical binding]; other site 640511000351 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 640511000352 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 640511000353 H-NS histone family; Region: Histone_HNS; pfam00816 640511000354 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 640511000355 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 640511000356 Cation efflux family; Region: Cation_efflux; pfam01545 640511000357 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 640511000358 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 640511000359 putative DNA binding site [nucleotide binding]; other site 640511000360 putative Zn2+ binding site [ion binding]; other site 640511000361 AsnC family; Region: AsnC_trans_reg; pfam01037 640511000362 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 640511000363 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 640511000364 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 640511000365 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 640511000366 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 640511000367 Helix-turn-helix domain; Region: HTH_28; pfam13518 640511000368 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 640511000369 Helix-turn-helix domain; Region: HTH_28; pfam13518 640511000370 putative transposase OrfB; Reviewed; Region: PHA02517 640511000371 HTH-like domain; Region: HTH_21; pfam13276 640511000372 Integrase core domain; Region: rve; pfam00665 640511000373 Integrase core domain; Region: rve_2; pfam13333 640511000374 Predicted methyltransferases [General function prediction only]; Region: COG0313 640511000375 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 640511000376 putative SAM binding site [chemical binding]; other site 640511000377 putative homodimer interface [polypeptide binding]; other site 640511000378 hypothetical protein; Provisional; Region: PRK14673 640511000379 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 640511000380 dimer interface [polypeptide binding]; other site 640511000381 active site 640511000382 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 640511000383 BON domain; Region: BON; pfam04972 640511000384 Cytochrome c; Region: Cytochrom_C; cl11414 640511000385 INT_SG2, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 2, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinases and phage-related integrases. Some have N-terminal domains, which show little sequence...; Region: INT_SG2_C; cd01184 640511000386 Int/Topo IB signature motif; other site 640511000387 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 640511000388 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 640511000389 ATP binding site [chemical binding]; other site 640511000390 putative Mg++ binding site [ion binding]; other site 640511000391 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 640511000392 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 640511000393 nucleotide binding region [chemical binding]; other site 640511000394 ATP-binding site [chemical binding]; other site 640511000395 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 640511000396 Adenine-specific DNA methylase containing a Zn-ribbon [DNA replication, recombination, and repair]; Region: COG1743 640511000397 Protein of unknown function (DUF1156); Region: DUF1156; pfam06634 640511000398 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1483 640511000399 Protein of unknown function (DUF499); Region: DUF499; pfam04465 640511000400 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 640511000401 TPR repeat; Region: TPR_11; pfam13414 640511000402 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 640511000403 TPR motif; other site 640511000404 binding surface 640511000405 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 640511000406 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 640511000407 Walker A motif; other site 640511000408 ATP binding site [chemical binding]; other site 640511000409 Walker B motif; other site 640511000410 arginine finger; other site 640511000411 rod shape-determining protein MreB; Provisional; Region: PRK13930 640511000412 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 640511000413 nucleotide binding site [chemical binding]; other site 640511000414 putative NEF/HSP70 interaction site [polypeptide binding]; other site 640511000415 SBD interface [polypeptide binding]; other site 640511000416 TIR domain; Region: TIR_2; pfam13676 640511000417 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 640511000418 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 640511000419 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 640511000420 Transposase; Region: HTH_Tnp_1; cl17663 640511000421 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 640511000422 IS2 transposase TnpB; Reviewed; Region: PRK09409 640511000423 HTH-like domain; Region: HTH_21; pfam13276 640511000424 Integrase core domain; Region: rve; pfam00665 640511000425 Integrase core domain; Region: rve_3; pfam13683 640511000426 Transposase domain (DUF772); Region: DUF772; pfam05598 640511000427 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 640511000428 Helix-turn-helix domain; Region: HTH_17; pfam12728 640511000429 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 640511000430 Restriction endonuclease; Region: Mrr_cat; pfam04471 640511000431 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 640511000432 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 640511000433 active site 640511000434 DNA binding site [nucleotide binding] 640511000435 Int/Topo IB signature motif; other site 640511000436 Phage terminase, small subunit; Region: Terminase_4; cl01525 640511000437 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; pfam05930 640511000438 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 640511000439 iron-sulfur cluster [ion binding]; other site 640511000440 [2Fe-2S] cluster binding site [ion binding]; other site 640511000441 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 640511000442 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640511000443 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640511000444 metal binding site [ion binding]; metal-binding site 640511000445 active site 640511000446 I-site; other site 640511000447 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 640511000448 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 640511000449 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 640511000450 CutC family; Region: CutC; cl01218 640511000451 2-oxoacid ferredoxin oxidoreductase; Provisional; Region: PRK13030 640511000452 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 640511000453 dimer interface [polypeptide binding]; other site 640511000454 PYR/PP interface [polypeptide binding]; other site 640511000455 TPP binding site [chemical binding]; other site 640511000456 substrate binding site [chemical binding]; other site 640511000457 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 640511000458 TPP-binding site [chemical binding]; other site 640511000459 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 640511000460 Inward rectifier potassium channel; Region: IRK; pfam01007 640511000461 Protein of unknown function (DUF3828); Region: DUF3828; pfam12883 640511000462 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 640511000463 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 640511000464 putative substrate binding site [chemical binding]; other site 640511000465 putative ATP binding site [chemical binding]; other site 640511000466 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; cd00249 640511000467 dimerization interface [polypeptide binding]; other site 640511000468 putative active cleft [active] 640511000469 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640511000470 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640511000471 DNA binding site [nucleotide binding] 640511000472 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 640511000473 ligand binding site [chemical binding]; other site 640511000474 dimerization interface [polypeptide binding]; other site 640511000475 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 640511000476 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 640511000477 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640511000478 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 640511000479 trimer interface [polypeptide binding]; other site 640511000480 eyelet of channel; other site 640511000481 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511000482 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511000483 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 640511000484 putative effector binding pocket; other site 640511000485 dimerization interface [polypeptide binding]; other site 640511000486 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 640511000487 B12 binding site [chemical binding]; other site 640511000488 cobalt ligand [ion binding]; other site 640511000489 Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]; Region: ArgK; COG1703 640511000490 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 640511000491 Walker A; other site 640511000492 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM)-like family; contains proteins similar to MCM, and the large subunit of Streptomyces coenzyme B12-dependent isobutyryl-CoA mutase (ICM). MCM catalyzes the isomerization of...; Region: MM_CoA_mutase; cl00817 640511000493 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 640511000494 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 640511000495 FMN binding site [chemical binding]; other site 640511000496 substrate binding site [chemical binding]; other site 640511000497 putative catalytic residue [active] 640511000498 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 640511000499 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 640511000500 putative DNA binding site [nucleotide binding]; other site 640511000501 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 640511000502 putative Zn2+ binding site [ion binding]; other site 640511000503 AsnC family; Region: AsnC_trans_reg; pfam01037 640511000504 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 640511000505 EamA-like transporter family; Region: EamA; pfam00892 640511000506 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 640511000507 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 640511000508 (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 640511000509 active site 640511000510 catalytic site [active] 640511000511 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 640511000512 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 640511000513 putative deacylase active site [active] 640511000514 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 640511000515 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 640511000516 active site 640511000517 catalytic residues [active] 640511000518 metal binding site [ion binding]; metal-binding site 640511000519 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 640511000520 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 640511000521 putative ligand binding site [chemical binding]; other site 640511000522 NAD binding site [chemical binding]; other site 640511000523 dimerization interface [polypeptide binding]; other site 640511000524 catalytic site [active] 640511000525 Serine hydrolase; Region: Ser_hydrolase; pfam06821 640511000526 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640511000527 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 640511000528 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 640511000529 biotin synthase; Region: bioB; TIGR00433 640511000530 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 640511000531 FeS/SAM binding site; other site 640511000532 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 640511000533 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 640511000534 AAA domain; Region: AAA_26; pfam13500 640511000535 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 640511000536 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 640511000537 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640511000538 catalytic residue [active] 640511000539 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06943 640511000540 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 640511000541 inhibitor-cofactor binding pocket; inhibition site 640511000542 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511000543 catalytic residue [active] 640511000544 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 640511000545 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 640511000546 hypothetical protein; Provisional; Region: PRK01842 640511000547 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 640511000548 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640511000549 active site 640511000550 short chain dehydrogenase; Provisional; Region: PRK08219 640511000551 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 640511000552 NADP binding site [chemical binding]; other site 640511000553 homodimer interface [polypeptide binding]; other site 640511000554 active site 640511000555 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 640511000556 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 640511000557 dimer interface [polypeptide binding]; other site 640511000558 active site 640511000559 bifunctional isocitrate dehydrogenase kinase/phosphatase protein; Validated; Region: aceK; PRK02946 640511000560 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 640511000561 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 640511000562 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 640511000563 DNA binding residues [nucleotide binding] 640511000564 putative dimer interface [polypeptide binding]; other site 640511000565 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 640511000566 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 640511000567 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 640511000568 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 640511000569 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 640511000570 peptide binding site [polypeptide binding]; other site 640511000571 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 640511000572 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 640511000573 cobalamin binding residues [chemical binding]; other site 640511000574 putative BtuC binding residues; other site 640511000575 dimer interface [polypeptide binding]; other site 640511000576 short chain dehydrogenase; Provisional; Region: PRK07024 640511000577 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511000578 NAD(P) binding site [chemical binding]; other site 640511000579 active site 640511000580 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 640511000581 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 640511000582 catalytic residues [active] 640511000583 hinge region; other site 640511000584 alpha helical domain; other site 640511000585 Sporulation related domain; Region: SPOR; pfam05036 640511000586 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 640511000587 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 640511000588 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 640511000589 active site 640511000590 HIGH motif; other site 640511000591 KMSK motif region; other site 640511000592 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 640511000593 tRNA binding surface [nucleotide binding]; other site 640511000594 anticodon binding site; other site 640511000595 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 640511000596 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 640511000597 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 640511000598 substrate binding pocket [chemical binding]; other site 640511000599 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 640511000600 B12 binding site [chemical binding]; other site 640511000601 cobalt ligand [ion binding]; other site 640511000602 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 640511000603 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 640511000604 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 640511000605 Protein of unknown function (DUF3567); Region: DUF3567; pfam12091 640511000606 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 640511000607 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 640511000608 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 640511000609 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640511000610 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 640511000611 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 640511000612 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 640511000613 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 640511000614 putative ligand binding site [chemical binding]; other site 640511000615 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 640511000616 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 640511000617 substrate binding site [chemical binding]; other site 640511000618 oxyanion hole (OAH) forming residues; other site 640511000619 trimer interface [polypeptide binding]; other site 640511000620 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 640511000621 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 640511000622 dinuclear metal binding motif [ion binding]; other site 640511000623 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 640511000624 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 640511000625 active site 640511000626 nucleotide binding site [chemical binding]; other site 640511000627 HIGH motif; other site 640511000628 KMSKS motif; other site 640511000629 pantothenate kinase; Reviewed; Region: PRK13328 640511000630 biotin--protein ligase; Provisional; Region: PRK06955 640511000631 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 640511000632 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 640511000633 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 640511000634 Permease; Region: Permease; pfam02405 640511000635 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 640511000636 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 640511000637 Walker A/P-loop; other site 640511000638 ATP binding site [chemical binding]; other site 640511000639 Q-loop/lid; other site 640511000640 ABC transporter signature motif; other site 640511000641 Walker B; other site 640511000642 D-loop; other site 640511000643 H-loop/switch region; other site 640511000644 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 640511000645 mce related protein; Region: MCE; pfam02470 640511000646 Protein of unknown function (DUF330); Region: DUF330; cl01135 640511000647 Predicted integral membrane protein [Function unknown]; Region: COG5652 640511000648 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 640511000649 dimer interface [polypeptide binding]; other site 640511000650 [2Fe-2S] cluster binding site [ion binding]; other site 640511000651 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 640511000652 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 640511000653 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 640511000654 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 640511000655 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 640511000656 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 640511000657 homodimer interface [polypeptide binding]; other site 640511000658 substrate-cofactor binding pocket; other site 640511000659 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511000660 catalytic residue [active] 640511000661 Protein of unknown function (DUF493); Region: DUF493; cl01102 640511000662 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640511000663 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511000664 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 640511000665 dimerization interface [polypeptide binding]; other site 640511000666 substrate binding pocket [chemical binding]; other site 640511000667 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 640511000668 lipoate-protein ligase B; Provisional; Region: PRK14343 640511000669 lipoyl synthase; Provisional; Region: PRK05481 640511000670 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 640511000671 FeS/SAM binding site; other site 640511000672 putative transposase OrfB; Reviewed; Region: PHA02517 640511000673 HTH-like domain; Region: HTH_21; pfam13276 640511000674 Integrase core domain; Region: rve; pfam00665 640511000675 Integrase core domain; Region: rve_2; pfam13333 640511000676 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 640511000677 Helix-turn-helix domain; Region: HTH_28; pfam13518 640511000678 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 640511000679 Helix-turn-helix domain; Region: HTH_28; pfam13518 640511000680 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 640511000681 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 640511000682 putative active site [active] 640511000683 catalytic site [active] 640511000684 putative metal binding site [ion binding]; other site 640511000685 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 640511000686 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 640511000687 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 640511000688 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 640511000689 dimer interface [polypeptide binding]; other site 640511000690 phosphorylation site [posttranslational modification] 640511000691 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511000692 ATP binding site [chemical binding]; other site 640511000693 Mg2+ binding site [ion binding]; other site 640511000694 G-X-G motif; other site 640511000695 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 640511000696 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511000697 active site 640511000698 phosphorylation site [posttranslational modification] 640511000699 intermolecular recognition site; other site 640511000700 dimerization interface [polypeptide binding]; other site 640511000701 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 640511000702 Walker A motif; other site 640511000703 ATP binding site [chemical binding]; other site 640511000704 Walker B motif; other site 640511000705 arginine finger; other site 640511000706 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 640511000707 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 640511000708 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 640511000709 catalytic residues [active] 640511000710 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 640511000711 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 640511000712 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 640511000713 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 640511000714 Membrane fusogenic activity; Region: BMFP; pfam04380 640511000715 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 640511000716 Nitrogen regulatory protein P-II; Region: P-II; smart00938 640511000717 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 640511000718 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 640511000719 Glutamate-cysteine ligase; Region: GshA; pfam08886 640511000720 glutathione synthetase; Provisional; Region: PRK05246 640511000721 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 640511000722 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 640511000723 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 640511000724 active pocket/dimerization site; other site 640511000725 active site 640511000726 phosphorylation site [posttranslational modification] 640511000727 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 640511000728 dimerization domain swap beta strand [polypeptide binding]; other site 640511000729 regulatory protein interface [polypeptide binding]; other site 640511000730 active site 640511000731 regulatory phosphorylation site [posttranslational modification]; other site 640511000732 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 640511000733 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 640511000734 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 640511000735 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 640511000736 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 640511000737 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 640511000738 ATP binding site [chemical binding]; other site 640511000739 substrate interface [chemical binding]; other site 640511000740 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 640511000741 C-terminal peptidase (prc); Region: prc; TIGR00225 640511000742 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 640511000743 protein binding site [polypeptide binding]; other site 640511000744 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 640511000745 Catalytic dyad [active] 640511000746 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 640511000747 catalytic core [active] 640511000748 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 640511000749 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 640511000750 active site residue [active] 640511000751 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 640511000752 GSH binding site [chemical binding]; other site 640511000753 catalytic residues [active] 640511000754 preprotein translocase subunit SecB; Validated; Region: PRK05751 640511000755 SecA binding site; other site 640511000756 Preprotein binding site; other site 640511000757 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 640511000758 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 640511000759 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 640511000760 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 640511000761 putative ADP-ribose binding site [chemical binding]; other site 640511000762 putative active site [active] 640511000763 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 640511000764 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 640511000765 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 640511000766 active site 640511000767 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 640511000768 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 640511000769 S-adenosylmethionine binding site [chemical binding]; other site 640511000770 Integral membrane protein (DUF2244); Region: DUF2244; pfam10003 640511000771 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 640511000772 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 640511000773 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 640511000774 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640511000775 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 640511000776 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640511000777 ligand binding site [chemical binding]; other site 640511000778 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 640511000779 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 640511000780 Subunit I/III interface [polypeptide binding]; other site 640511000781 D-pathway; other site 640511000782 Subunit I/VIIc interface [polypeptide binding]; other site 640511000783 Subunit I/IV interface [polypeptide binding]; other site 640511000784 Subunit I/II interface [polypeptide binding]; other site 640511000785 Low-spin heme (heme a) binding site [chemical binding]; other site 640511000786 Subunit I/VIIa interface [polypeptide binding]; other site 640511000787 Subunit I/VIa interface [polypeptide binding]; other site 640511000788 Dimer interface; other site 640511000789 Putative water exit pathway; other site 640511000790 Binuclear center (heme a3/CuB) [ion binding]; other site 640511000791 K-pathway; other site 640511000792 Subunit I/Vb interface [polypeptide binding]; other site 640511000793 Putative proton exit pathway; other site 640511000794 Subunit I/VIb interface; other site 640511000795 Subunit I/VIc interface [polypeptide binding]; other site 640511000796 Electron transfer pathway; other site 640511000797 Subunit I/VIIIb interface [polypeptide binding]; other site 640511000798 Subunit I/VIIb interface [polypeptide binding]; other site 640511000799 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 640511000800 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 640511000801 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 640511000802 Subunit III/VIIa interface [polypeptide binding]; other site 640511000803 Phospholipid binding site [chemical binding]; other site 640511000804 Subunit I/III interface [polypeptide binding]; other site 640511000805 Subunit III/VIb interface [polypeptide binding]; other site 640511000806 Subunit III/VIa interface; other site 640511000807 Subunit III/Vb interface [polypeptide binding]; other site 640511000808 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 640511000809 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 640511000810 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 640511000811 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 640511000812 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 640511000813 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 640511000814 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 640511000815 UbiA prenyltransferase family; Region: UbiA; pfam01040 640511000816 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 640511000817 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 640511000818 Cu(I) binding site [ion binding]; other site 640511000819 YCII-related domain; Region: YCII; cl00999 640511000820 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 640511000821 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 640511000822 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640511000823 MarR family; Region: MarR; pfam01047 640511000824 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640511000825 Coenzyme A binding pocket [chemical binding]; other site 640511000826 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 640511000827 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511000828 DNA-binding site [nucleotide binding]; DNA binding site 640511000829 UTRA domain; Region: UTRA; pfam07702 640511000830 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 640511000831 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 640511000832 active site 640511000833 dimer interface [polypeptide binding]; other site 640511000834 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 640511000835 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 640511000836 dimer interface [polypeptide binding]; other site 640511000837 active site 640511000838 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 640511000839 dimer interface [polypeptide binding]; other site 640511000840 active site 640511000841 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 640511000842 HPr interaction site; other site 640511000843 glycerol kinase (GK) interaction site [polypeptide binding]; other site 640511000844 active site 640511000845 phosphorylation site [posttranslational modification] 640511000846 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 640511000847 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 640511000848 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 640511000849 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 640511000850 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 640511000851 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 640511000852 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 640511000853 active site turn [active] 640511000854 phosphorylation site [posttranslational modification] 640511000855 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; cl00164 640511000856 active site turn [active] 640511000857 phosphorylation site [posttranslational modification] 640511000858 Membrane bound YbgT-like protein; Region: YbgT_YccB; pfam08173 640511000859 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 640511000860 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 640511000861 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 640511000862 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 640511000863 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 640511000864 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 640511000865 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640511000866 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 640511000867 DNA binding residues [nucleotide binding] 640511000868 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 640511000869 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 640511000870 SnoaL-like domain; Region: SnoaL_3; pfam13474 640511000871 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 640511000872 active site 640511000873 catalytic residues [active] 640511000874 metal binding site [ion binding]; metal-binding site 640511000875 glycosyl transferase family protein; Provisional; Region: PRK08136 640511000876 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 640511000877 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 640511000878 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 640511000879 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 640511000880 maleylacetoacetate isomerase; Region: maiA; TIGR01262 640511000881 C-terminal domain interface [polypeptide binding]; other site 640511000882 GSH binding site (G-site) [chemical binding]; other site 640511000883 putative dimer interface [polypeptide binding]; other site 640511000884 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 640511000885 dimer interface [polypeptide binding]; other site 640511000886 N-terminal domain interface [polypeptide binding]; other site 640511000887 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 640511000888 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 640511000889 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 640511000890 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 640511000891 P loop; other site 640511000892 GTP binding site [chemical binding]; other site 640511000893 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 640511000894 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 640511000895 S-adenosylmethionine binding site [chemical binding]; other site 640511000896 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 640511000897 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 640511000898 active site 640511000899 (T/H)XGH motif; other site 640511000900 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 640511000901 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 640511000902 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 640511000903 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 640511000904 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511000905 homodimer interface [polypeptide binding]; other site 640511000906 catalytic residue [active] 640511000907 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 640511000908 putative active site [active] 640511000909 catalytic residue [active] 640511000910 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 640511000911 ribosomal protein L25, Ctc-form; Region: ctc_TL5; TIGR00731 640511000912 5S rRNA interface [nucleotide binding]; other site 640511000913 CTC domain interface [polypeptide binding]; other site 640511000914 L16 interface [polypeptide binding]; other site 640511000915 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 640511000916 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 640511000917 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 640511000918 active site 640511000919 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 640511000920 N-terminal domain of glycoside hydrolase family 94 and related domains; Region: GH94N_like; cl17067 640511000921 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 640511000922 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 640511000923 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 640511000924 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 640511000925 TPR motif; other site 640511000926 binding surface 640511000927 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 640511000928 binding surface 640511000929 TPR motif; other site 640511000930 TPR repeat; Region: TPR_11; pfam13414 640511000931 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 640511000932 TPR motif; other site 640511000933 binding surface 640511000934 TPR repeat; Region: TPR_11; pfam13414 640511000935 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 640511000936 binding surface 640511000937 TPR motif; other site 640511000938 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 640511000939 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 640511000940 DNA binding site [nucleotide binding] 640511000941 catalytic residue [active] 640511000942 H2TH interface [polypeptide binding]; other site 640511000943 putative catalytic residues [active] 640511000944 turnover-facilitating residue; other site 640511000945 intercalation triad [nucleotide binding]; other site 640511000946 8OG recognition residue [nucleotide binding]; other site 640511000947 putative reading head residues; other site 640511000948 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 640511000949 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 640511000950 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 640511000951 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 640511000952 minor groove reading motif; other site 640511000953 helix-hairpin-helix signature motif; other site 640511000954 substrate binding pocket [chemical binding]; other site 640511000955 active site 640511000956 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 640511000957 DNA binding and oxoG recognition site [nucleotide binding] 640511000958 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 640511000959 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 640511000960 HPr kinase/phosphorylase; Provisional; Region: PRK05428 640511000961 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 640511000962 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 640511000963 Hpr binding site; other site 640511000964 active site 640511000965 homohexamer subunit interaction site [polypeptide binding]; other site 640511000966 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 640511000967 active site 640511000968 phosphorylation site [posttranslational modification] 640511000969 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 640511000970 30S subunit binding site; other site 640511000971 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 640511000972 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 640511000973 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 640511000974 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 640511000975 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 640511000976 Walker A/P-loop; other site 640511000977 ATP binding site [chemical binding]; other site 640511000978 Q-loop/lid; other site 640511000979 ABC transporter signature motif; other site 640511000980 Walker B; other site 640511000981 D-loop; other site 640511000982 H-loop/switch region; other site 640511000983 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 640511000984 OstA-like protein; Region: OstA; pfam03968 640511000985 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 640511000986 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 640511000987 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 640511000988 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 640511000989 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 640511000990 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 640511000991 putative active site [active] 640511000992 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 640511000993 putative cation:proton antiport protein; Provisional; Region: PRK10669 640511000994 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 640511000995 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 640511000996 TrkA-N domain; Region: TrkA_N; pfam02254 640511000997 TrkA-C domain; Region: TrkA_C; pfam02080 640511000998 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 640511000999 active site 640511001000 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 640511001001 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belong to this superfamily requires a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_hydrolase_3; cd03676 640511001002 nudix motif; other site 640511001003 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 640511001004 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 640511001005 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 640511001006 putative active site [active] 640511001007 putative substrate binding site [chemical binding]; other site 640511001008 putative cosubstrate binding site; other site 640511001009 catalytic site [active] 640511001010 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 640511001011 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 640511001012 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 640511001013 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 640511001014 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 640511001015 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 640511001016 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 640511001017 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 640511001018 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511001019 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640511001020 putative substrate translocation pore; other site 640511001021 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 640511001022 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 640511001023 dimer interface [polypeptide binding]; other site 640511001024 ssDNA binding site [nucleotide binding]; other site 640511001025 tetramer (dimer of dimers) interface [polypeptide binding]; other site 640511001026 Tar ligand binding domain homologue; Region: TarH; pfam02203 640511001027 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 640511001028 dimerization interface [polypeptide binding]; other site 640511001029 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640511001030 dimer interface [polypeptide binding]; other site 640511001031 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 640511001032 putative CheW interface [polypeptide binding]; other site 640511001033 Cytochrome c553 [Energy production and conversion]; Region: COG2863 640511001034 Cytochrome c; Region: Cytochrom_C; pfam00034 640511001035 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 640511001036 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 640511001037 D-pathway; other site 640511001038 Low-spin heme binding site [chemical binding]; other site 640511001039 Putative water exit pathway; other site 640511001040 Binuclear center (active site) [active] 640511001041 K-pathway; other site 640511001042 Putative proton exit pathway; other site 640511001043 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 640511001044 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640511001045 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640511001046 Cytochrome c; Region: Cytochrom_C; pfam00034 640511001047 Cytochrome c; Region: Cytochrom_C; cl11414 640511001048 Cytochrome c; Region: Cytochrom_C; cl11414 640511001049 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511001050 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511001051 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 640511001052 dimerization interface [polypeptide binding]; other site 640511001053 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511001054 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640511001055 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511001056 active site 640511001057 phosphorylation site [posttranslational modification] 640511001058 intermolecular recognition site; other site 640511001059 dimerization interface [polypeptide binding]; other site 640511001060 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 640511001061 DNA binding residues [nucleotide binding] 640511001062 dimerization interface [polypeptide binding]; other site 640511001063 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640511001064 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511001065 active site 640511001066 phosphorylation site [posttranslational modification] 640511001067 intermolecular recognition site; other site 640511001068 dimerization interface [polypeptide binding]; other site 640511001069 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 640511001070 DNA binding residues [nucleotide binding] 640511001071 dimerization interface [polypeptide binding]; other site 640511001072 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640511001073 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511001074 active site 640511001075 phosphorylation site [posttranslational modification] 640511001076 intermolecular recognition site; other site 640511001077 dimerization interface [polypeptide binding]; other site 640511001078 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 640511001079 DNA binding residues [nucleotide binding] 640511001080 dimerization interface [polypeptide binding]; other site 640511001081 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cl00200 640511001082 amphipathic channel; other site 640511001083 Asn-Pro-Ala signature motifs; other site 640511001084 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 640511001085 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 640511001086 substrate binding pocket [chemical binding]; other site 640511001087 membrane-bound complex binding site; other site 640511001088 hinge residues; other site 640511001089 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 640511001090 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 640511001091 substrate binding pocket [chemical binding]; other site 640511001092 membrane-bound complex binding site; other site 640511001093 hinge residues; other site 640511001094 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 640511001095 PAS domain; Region: PAS_9; pfam13426 640511001096 putative active site [active] 640511001097 heme pocket [chemical binding]; other site 640511001098 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 640511001099 dimer interface [polypeptide binding]; other site 640511001100 phosphorylation site [posttranslational modification] 640511001101 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511001102 ATP binding site [chemical binding]; other site 640511001103 Mg2+ binding site [ion binding]; other site 640511001104 G-X-G motif; other site 640511001105 Response regulator receiver domain; Region: Response_reg; pfam00072 640511001106 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511001107 active site 640511001108 phosphorylation site [posttranslational modification] 640511001109 intermolecular recognition site; other site 640511001110 dimerization interface [polypeptide binding]; other site 640511001111 CHRD domain; Region: CHRD; pfam07452 640511001112 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 640511001113 EcsC protein family; Region: EcsC; pfam12787 640511001114 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511001115 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640511001116 putative substrate translocation pore; other site 640511001117 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511001118 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 640511001119 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 640511001120 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Bacterial Cryptic D-Serine Dehydratase; Region: PLPDE_III_cryptic_DSD; cd06818 640511001121 dimer interface [polypeptide binding]; other site 640511001122 active site 640511001123 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 640511001124 substrate binding site [chemical binding]; other site 640511001125 catalytic residue [active] 640511001126 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 640511001127 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 640511001128 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 640511001129 putative active site [active] 640511001130 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 640511001131 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 640511001132 active site 640511001133 putative substrate binding pocket [chemical binding]; other site 640511001134 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 640511001135 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 640511001136 homotrimer interaction site [polypeptide binding]; other site 640511001137 putative active site [active] 640511001138 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 640511001139 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 640511001140 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 640511001141 5'-nucleotidase; Region: 5-nucleotidase; pfam06189 640511001142 threonine dehydratase; Reviewed; Region: PRK09224 640511001143 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 640511001144 tetramer interface [polypeptide binding]; other site 640511001145 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511001146 catalytic residue [active] 640511001147 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 640511001148 putative Ile/Val binding site [chemical binding]; other site 640511001149 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 640511001150 putative Ile/Val binding site [chemical binding]; other site 640511001151 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 640511001152 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 640511001153 FAD binding domain; Region: FAD_binding_4; pfam01565 640511001154 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 640511001155 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 640511001156 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 640511001157 Cysteine-rich domain; Region: CCG; pfam02754 640511001158 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 640511001159 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 640511001160 nucleotide binding site/active site [active] 640511001161 HIT family signature motif; other site 640511001162 catalytic residue [active] 640511001163 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 640511001164 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 640511001165 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 640511001166 S-adenosylmethionine binding site [chemical binding]; other site 640511001167 Tim44 is an essential component of the machinery that mediates the translocation of nuclear-encoded proteins across the mitochondrial inner membrane; Region: Tim44; smart00978 640511001168 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 640511001169 SCP-2 sterol transfer family; Region: SCP2; pfam02036 640511001170 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 640511001171 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 640511001172 Thiopurine S-methyltransferase (TPMT); Region: TPMT; pfam05724 640511001173 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 640511001174 Uncharacterized conserved protein [Function unknown]; Region: COG2928 640511001175 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 640511001176 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 640511001177 dimer interface [polypeptide binding]; other site 640511001178 anticodon binding site; other site 640511001179 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 640511001180 homodimer interface [polypeptide binding]; other site 640511001181 motif 1; other site 640511001182 active site 640511001183 motif 2; other site 640511001184 GAD domain; Region: GAD; pfam02938 640511001185 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 640511001186 motif 3; other site 640511001187 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 640511001188 nudix motif; other site 640511001189 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 640511001190 putative active site [active] 640511001191 catalytic site [active] 640511001192 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 640511001193 PLD-like domain; Region: PLDc_2; pfam13091 640511001194 putative active site [active] 640511001195 catalytic site [active] 640511001196 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640511001197 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 640511001198 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 640511001199 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 640511001200 FAD binding site [chemical binding]; other site 640511001201 substrate binding site [chemical binding]; other site 640511001202 catalytic residues [active] 640511001203 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 640511001204 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 640511001205 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 640511001206 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 640511001207 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 640511001208 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 640511001209 substrate binding site [chemical binding]; other site 640511001210 oxyanion hole (OAH) forming residues; other site 640511001211 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 640511001212 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 640511001213 dimer interface [polypeptide binding]; other site 640511001214 active site 640511001215 enoyl-CoA hydratase; Provisional; Region: PRK06688 640511001216 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 640511001217 substrate binding site [chemical binding]; other site 640511001218 oxyanion hole (OAH) forming residues; other site 640511001219 trimer interface [polypeptide binding]; other site 640511001220 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 640511001221 Conserved nitrate reductase-associated protein (Nitr_red_assoc); Region: Nitr_red_assoc; pfam09655 640511001222 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 640511001223 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 640511001224 putative active site [active] 640511001225 heme pocket [chemical binding]; other site 640511001226 PAS domain; Region: PAS_9; pfam13426 640511001227 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 640511001228 putative active site [active] 640511001229 heme pocket [chemical binding]; other site 640511001230 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640511001231 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640511001232 metal binding site [ion binding]; metal-binding site 640511001233 active site 640511001234 I-site; other site 640511001235 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 640511001236 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 640511001237 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 640511001238 C-terminal domain interface [polypeptide binding]; other site 640511001239 GSH binding site (G-site) [chemical binding]; other site 640511001240 dimer interface [polypeptide binding]; other site 640511001241 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 640511001242 N-terminal domain interface [polypeptide binding]; other site 640511001243 putative substrate binding pocket (H-site) [chemical binding]; other site 640511001244 dimer interface [polypeptide binding]; other site 640511001245 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 640511001246 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 640511001247 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 640511001248 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640511001249 Walker A/P-loop; other site 640511001250 ATP binding site [chemical binding]; other site 640511001251 Q-loop/lid; other site 640511001252 ABC transporter signature motif; other site 640511001253 Walker B; other site 640511001254 D-loop; other site 640511001255 H-loop/switch region; other site 640511001256 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 640511001257 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 640511001258 Substrate binding site; other site 640511001259 metal-binding site 640511001260 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 640511001261 Phosphotransferase enzyme family; Region: APH; pfam01636 640511001262 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 640511001263 Organic solvent tolerance protein; Region: OstA_C; pfam04453 640511001264 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 640511001265 SurA N-terminal domain; Region: SurA_N; pfam09312 640511001266 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 640511001267 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 640511001268 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK01909 640511001269 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 640511001270 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 640511001271 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 640511001272 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 640511001273 EamA-like transporter family; Region: EamA; pfam00892 640511001274 EamA-like transporter family; Region: EamA; pfam00892 640511001275 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640511001276 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 640511001277 dimer interface [polypeptide binding]; other site 640511001278 active site 640511001279 metal binding site [ion binding]; metal-binding site 640511001280 glutathione binding site [chemical binding]; other site 640511001281 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 640511001282 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 640511001283 substrate binding pocket [chemical binding]; other site 640511001284 membrane-bound complex binding site; other site 640511001285 hinge residues; other site 640511001286 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511001287 dimer interface [polypeptide binding]; other site 640511001288 conserved gate region; other site 640511001289 ABC-ATPase subunit interface; other site 640511001290 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511001291 dimer interface [polypeptide binding]; other site 640511001292 conserved gate region; other site 640511001293 putative PBP binding loops; other site 640511001294 ABC-ATPase subunit interface; other site 640511001295 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 640511001296 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 640511001297 Walker A/P-loop; other site 640511001298 ATP binding site [chemical binding]; other site 640511001299 Q-loop/lid; other site 640511001300 ABC transporter signature motif; other site 640511001301 Walker B; other site 640511001302 D-loop; other site 640511001303 H-loop/switch region; other site 640511001304 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640511001305 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 640511001306 Bacterial transcriptional regulator; Region: IclR; pfam01614 640511001307 Protein of unknown function DUF45; Region: DUF45; pfam01863 640511001308 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 640511001309 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 640511001310 putative acyl-acceptor binding pocket; other site 640511001311 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 640511001312 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 640511001313 active site 640511001314 motif I; other site 640511001315 motif II; other site 640511001316 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 640511001317 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 640511001318 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 640511001319 dimer interface [polypeptide binding]; other site 640511001320 motif 1; other site 640511001321 active site 640511001322 motif 2; other site 640511001323 motif 3; other site 640511001324 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 640511001325 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 640511001326 non-specific DNA binding site [nucleotide binding]; other site 640511001327 salt bridge; other site 640511001328 sequence-specific DNA binding site [nucleotide binding]; other site 640511001329 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 640511001330 non-specific DNA binding site [nucleotide binding]; other site 640511001331 salt bridge; other site 640511001332 sequence-specific DNA binding site [nucleotide binding]; other site 640511001333 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 640511001334 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 640511001335 putative metal binding site [ion binding]; other site 640511001336 MASE1; Region: MASE1; pfam05231 640511001337 PAS domain S-box; Region: sensory_box; TIGR00229 640511001338 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 640511001339 putative active site [active] 640511001340 heme pocket [chemical binding]; other site 640511001341 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640511001342 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640511001343 metal binding site [ion binding]; metal-binding site 640511001344 active site 640511001345 I-site; other site 640511001346 Hydrolase of X-linked nucleoside diphosphate N terminal; Region: Nudix_N; pfam12535 640511001347 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_14; cd04672 640511001348 nudix motif; other site 640511001349 Protein of unknown function DUF91; Region: DUF91; cl00709 640511001350 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 640511001351 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 640511001352 putative acyl-acceptor binding pocket; other site 640511001353 H-NS histone family; Region: Histone_HNS; pfam00816 640511001354 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 640511001355 H-NS histone family; Region: Histone_HNS; pfam00816 640511001356 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 640511001357 Protein of unknown function (DUF2167); Region: DUF2167; cl01938 640511001358 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 640511001359 HSP70 interaction site [polypeptide binding]; other site 640511001360 Protein of unknown function (DUF4236); Region: DUF4236; pfam14020 640511001361 Uncharacterized protein with protein kinase and helix-hairpin-helix DNA-binding domains [General function prediction only]; Region: COG4248 640511001362 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 640511001363 substrate binding site [chemical binding]; other site 640511001364 activation loop (A-loop); other site 640511001365 Protein phosphatase 2C; Region: PP2C_2; pfam13672 640511001366 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 640511001367 metal ion-dependent adhesion site (MIDAS); other site 640511001368 Domain of unknown function (DUF4177); Region: DUF4177; pfam13783 640511001369 Haemolytic domain; Region: Haemolytic; pfam01809 640511001370 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 640511001371 AAA domain; Region: AAA_30; pfam13604 640511001372 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 640511001373 AAA domain; Region: AAA_12; pfam13087 640511001374 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 640511001375 Topoisomerase IA [DNA replication, recombination, and repair]; Region: TopA; COG0550 640511001376 active site 640511001377 metal binding site [ion binding]; metal-binding site 640511001378 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cl11986 640511001379 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 640511001380 active site 640511001381 SMI1 / KNR4 family; Region: SMI1_KNR4; smart00860 640511001382 Protein of unknown function (DUF1052); Region: DUF1052; cl02197 640511001383 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 640511001384 AAA domain; Region: AAA_30; pfam13604 640511001385 Family description; Region: UvrD_C_2; pfam13538 640511001386 Putative phage integrase; Region: Phage_Integr_2; pfam13009 640511001387 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 640511001388 DNA binding site [nucleotide binding] 640511001389 active site 640511001390 Int/Topo IB signature motif; other site 640511001391 catalytic residues [active] 640511001392 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 640511001393 DNA binding site [nucleotide binding] 640511001394 active site 640511001395 Int/Topo IB signature motif; other site 640511001396 catalytic residues [active] 640511001397 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 640511001398 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 640511001399 active site 640511001400 FMN binding site [chemical binding]; other site 640511001401 substrate binding site [chemical binding]; other site 640511001402 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 640511001403 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 640511001404 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 640511001405 nudix motif; other site 640511001406 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 640511001407 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 640511001408 ligand binding site [chemical binding]; other site 640511001409 homodimer interface [polypeptide binding]; other site 640511001410 NAD(P) binding site [chemical binding]; other site 640511001411 trimer interface B [polypeptide binding]; other site 640511001412 trimer interface A [polypeptide binding]; other site 640511001413 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 640511001414 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 640511001415 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 640511001416 Predicted transcriptional regulator [Transcription]; Region: COG2378 640511001417 HTH domain; Region: HTH_11; pfam08279 640511001418 WYL domain; Region: WYL; pfam13280 640511001419 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 640511001420 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640511001421 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 640511001422 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 640511001423 dimer interface [polypeptide binding]; other site 640511001424 ligand binding site [chemical binding]; other site 640511001425 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 640511001426 dimerization interface [polypeptide binding]; other site 640511001427 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640511001428 dimer interface [polypeptide binding]; other site 640511001429 putative CheW interface [polypeptide binding]; other site 640511001430 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 640511001431 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 640511001432 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 640511001433 Protein of unknown function (DUF330); Region: DUF330; pfam03886 640511001434 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 640511001435 mce related protein; Region: MCE; pfam02470 640511001436 mce related protein; Region: MCE; pfam02470 640511001437 mce related protein; Region: MCE; pfam02470 640511001438 Paraquat-inducible protein A; Region: PqiA; pfam04403 640511001439 Paraquat-inducible protein A; Region: PqiA; pfam04403 640511001440 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 640511001441 YceI-like domain; Region: YceI; smart00867 640511001442 Uncharacterized conserved protein [Function unknown]; Region: COG2353 640511001443 citrate-proton symporter; Provisional; Region: PRK15075 640511001444 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511001445 putative substrate translocation pore; other site 640511001446 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 640511001447 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 640511001448 Protein export membrane protein; Region: SecD_SecF; pfam02355 640511001449 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 640511001450 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 640511001451 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 640511001452 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 640511001453 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 640511001454 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 640511001455 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 640511001456 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 640511001457 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 640511001458 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 640511001459 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 640511001460 generic binding surface II; other site 640511001461 ssDNA binding site; other site 640511001462 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 640511001463 ATP binding site [chemical binding]; other site 640511001464 putative Mg++ binding site [ion binding]; other site 640511001465 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 640511001466 nucleotide binding region [chemical binding]; other site 640511001467 ATP-binding site [chemical binding]; other site 640511001468 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511001469 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511001470 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 640511001471 dimerization interface [polypeptide binding]; other site 640511001472 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 640511001473 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 640511001474 tetramer interface [polypeptide binding]; other site 640511001475 heme binding pocket [chemical binding]; other site 640511001476 NADPH binding site [chemical binding]; other site 640511001477 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 640511001478 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 640511001479 dimerization interface [polypeptide binding]; other site 640511001480 DPS ferroxidase diiron center [ion binding]; other site 640511001481 ion pore; other site 640511001482 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 640511001483 UbiA prenyltransferase family; Region: UbiA; pfam01040 640511001484 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 640511001485 pyrroline-5-carboxylate reductase; Region: PLN02688 640511001486 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 640511001487 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 640511001488 catalytic residue [active] 640511001489 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 640511001490 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 640511001491 Cysteine-rich domain; Region: CCG; pfam02754 640511001492 Cysteine-rich domain; Region: CCG; pfam02754 640511001493 FAD binding domain; Region: FAD_binding_4; pfam01565 640511001494 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 640511001495 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 640511001496 FAD binding domain; Region: FAD_binding_4; pfam01565 640511001497 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 640511001498 FAD binding domain; Region: FAD_binding_4; pfam01565 640511001499 ATP:cob(I)alamin adenosyltransferase; Region: PduO_Nterm; TIGR00636 640511001500 Uncharacterized conserved small protein [Function unknown]; Region: COG5606 640511001501 non-specific DNA binding site [nucleotide binding]; other site 640511001502 salt bridge; other site 640511001503 sequence-specific DNA binding site [nucleotide binding]; other site 640511001504 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 640511001505 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 640511001506 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 640511001507 protease TldD; Provisional; Region: tldD; PRK10735 640511001508 nitrilase; Region: PLN02798 640511001509 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 640511001510 putative active site [active] 640511001511 catalytic triad [active] 640511001512 dimer interface [polypeptide binding]; other site 640511001513 TIGR02099 family protein; Region: TIGR02099 640511001514 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 640511001515 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 640511001516 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 640511001517 metal binding triad; other site 640511001518 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 640511001519 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 640511001520 metal binding triad; other site 640511001521 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 640511001522 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 640511001523 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 640511001524 Walker A/P-loop; other site 640511001525 ATP binding site [chemical binding]; other site 640511001526 Q-loop/lid; other site 640511001527 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 640511001528 ABC transporter signature motif; other site 640511001529 Walker B; other site 640511001530 D-loop; other site 640511001531 H-loop/switch region; other site 640511001532 NAD(+)/NADH kinase family protein; Provisional; Region: ppnK; PRK02155 640511001533 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 640511001534 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 640511001535 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 640511001536 ferrochelatase; Reviewed; Region: hemH; PRK00035 640511001537 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 640511001538 C-terminal domain interface [polypeptide binding]; other site 640511001539 active site 640511001540 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 640511001541 active site 640511001542 N-terminal domain interface [polypeptide binding]; other site 640511001543 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 640511001544 RNA binding surface [nucleotide binding]; other site 640511001545 GrpE; Region: GrpE; pfam01025 640511001546 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 640511001547 dimer interface [polypeptide binding]; other site 640511001548 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 640511001549 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 640511001550 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 640511001551 nucleotide binding site [chemical binding]; other site 640511001552 chaperone protein DnaJ; Provisional; Region: PRK10767 640511001553 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 640511001554 HSP70 interaction site [polypeptide binding]; other site 640511001555 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 640511001556 Zn binding sites [ion binding]; other site 640511001557 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 640511001558 dimer interface [polypeptide binding]; other site 640511001559 aminodeoxychorismate synthase; Provisional; Region: PRK07508 640511001560 chorismate binding enzyme; Region: Chorismate_bind; cl10555 640511001561 hypothetical protein; Provisional; Region: PRK07546 640511001562 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 640511001563 substrate-cofactor binding pocket; other site 640511001564 homodimer interface [polypeptide binding]; other site 640511001565 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511001566 catalytic residue [active] 640511001567 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 640511001568 oligomerization interface [polypeptide binding]; other site 640511001569 active site 640511001570 metal binding site [ion binding]; metal-binding site 640511001571 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 640511001572 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 640511001573 Substrate-binding site [chemical binding]; other site 640511001574 Substrate specificity [chemical binding]; other site 640511001575 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 640511001576 catalytic center binding site [active] 640511001577 ATP binding site [chemical binding]; other site 640511001578 poly(A) polymerase; Region: pcnB; TIGR01942 640511001579 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 640511001580 active site 640511001581 NTP binding site [chemical binding]; other site 640511001582 metal binding triad [ion binding]; metal-binding site 640511001583 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 640511001584 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 640511001585 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 640511001586 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 640511001587 DnaA regulatory inactivator Hda; Validated; Region: PRK08903 640511001588 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 640511001589 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 640511001590 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 640511001591 dimerization interface [polypeptide binding]; other site 640511001592 putative ATP binding site [chemical binding]; other site 640511001593 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 640511001594 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 640511001595 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 640511001596 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511001597 ATP binding site [chemical binding]; other site 640511001598 Mg2+ binding site [ion binding]; other site 640511001599 G-X-G motif; other site 640511001600 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 640511001601 ATP binding site [chemical binding]; other site 640511001602 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 640511001603 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 640511001604 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 640511001605 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 640511001606 Mechanosensitive ion channel; Region: MS_channel; pfam00924 640511001607 Selenoprotein S (SelS); Region: Selenoprotein_S; pfam06936 640511001608 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 640511001609 Tetratricopeptide repeat; Region: TPR_6; pfam13174 640511001610 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 640511001611 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640511001612 ligand binding site [chemical binding]; other site 640511001613 translocation protein TolB; Provisional; Region: tolB; PRK02889 640511001614 TolB amino-terminal domain; Region: TolB_N; pfam04052 640511001615 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 640511001616 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 640511001617 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 640511001618 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 640511001619 TolA protein; Region: tolA_full; TIGR02794 640511001620 TolA protein; Region: tolA_full; TIGR02794 640511001621 TonB C terminal; Region: TonB_2; pfam13103 640511001622 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 640511001623 TolR protein; Region: tolR; TIGR02801 640511001624 TolQ protein; Region: tolQ; TIGR02796 640511001625 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 640511001626 active site 640511001627 malonic semialdehyde reductase; Provisional; Region: PRK10538 640511001628 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 640511001629 putative NAD(P) binding site [chemical binding]; other site 640511001630 homodimer interface [polypeptide binding]; other site 640511001631 homotetramer interface [polypeptide binding]; other site 640511001632 active site 640511001633 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 640511001634 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 640511001635 dimer interface [polypeptide binding]; other site 640511001636 active site 640511001637 glycine-pyridoxal phosphate binding site [chemical binding]; other site 640511001638 folate binding site [chemical binding]; other site 640511001639 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 640511001640 ATP cone domain; Region: ATP-cone; pfam03477 640511001641 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 640511001642 Type II transport protein GspH; Region: GspH; pfam12019 640511001643 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 640511001644 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 640511001645 Protein of unknown function (DUF3318); Region: DUF3318; pfam11780 640511001646 Predicted membrane protein [Function unknown]; Region: COG5393 640511001647 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 640511001648 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 640511001649 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 640511001650 dimer interface [polypeptide binding]; other site 640511001651 decamer (pentamer of dimers) interface [polypeptide binding]; other site 640511001652 catalytic triad [active] 640511001653 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 640511001654 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 640511001655 FAD binding site [chemical binding]; other site 640511001656 substrate binding pocket [chemical binding]; other site 640511001657 catalytic base [active] 640511001658 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640511001659 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 640511001660 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cl00290 640511001661 benzoate transport; Region: 2A0115; TIGR00895 640511001662 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511001663 putative substrate translocation pore; other site 640511001664 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511001665 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 640511001666 fumarylacetoacetase; Region: PLN02856 640511001667 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 640511001668 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 640511001669 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 640511001670 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511001671 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640511001672 putative substrate translocation pore; other site 640511001673 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511001674 putative substrate translocation pore; other site 640511001675 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640511001676 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 640511001677 putative hydrophobic ligand binding site [chemical binding]; other site 640511001678 protein interface [polypeptide binding]; other site 640511001679 gate; other site 640511001680 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 640511001681 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 640511001682 substrate binding site [chemical binding]; other site 640511001683 oxyanion hole (OAH) forming residues; other site 640511001684 trimer interface [polypeptide binding]; other site 640511001685 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 640511001686 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 640511001687 putative ligand binding site [chemical binding]; other site 640511001688 putative NAD binding site [chemical binding]; other site 640511001689 catalytic site [active] 640511001690 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 640511001691 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640511001692 catalytic residue [active] 640511001693 ATP-grasp domain; Region: ATP-grasp_4; cl17255 640511001694 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 640511001695 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 640511001696 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 640511001697 putative active site [active] 640511001698 putative metal binding site [ion binding]; other site 640511001699 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 640511001700 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640511001701 Chain length determinant protein; Region: Wzz; pfam02706 640511001702 tyrosine kinase; Provisional; Region: PRK11519 640511001703 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 640511001704 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 640511001705 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 640511001706 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 640511001707 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 640511001708 Probable Catalytic site; other site 640511001709 metal-binding site 640511001710 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 640511001711 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 640511001712 major facilitator superfamily transporter; Provisional; Region: PRK05122 640511001713 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511001714 putative substrate translocation pore; other site 640511001715 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 640511001716 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2; pfam00111 640511001717 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 640511001718 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 640511001719 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 640511001720 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 640511001721 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640511001722 XdhC Rossmann domain; Region: XdhC_C; pfam13478 640511001723 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511001724 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511001725 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 640511001726 putative substrate binding pocket [chemical binding]; other site 640511001727 putative dimerization interface [polypeptide binding]; other site 640511001728 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 640511001729 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 640511001730 putative catalytic residue [active] 640511001731 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 640511001732 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 640511001733 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 640511001734 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 640511001735 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511001736 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511001737 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 640511001738 putative dimerization interface [polypeptide binding]; other site 640511001739 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 640511001740 active site 640511001741 catalytic residues [active] 640511001742 metal binding site [ion binding]; metal-binding site 640511001743 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 640511001744 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640511001745 benzoate transport; Region: 2A0115; TIGR00895 640511001746 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511001747 putative substrate translocation pore; other site 640511001748 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511001749 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640511001750 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 640511001751 conserved cys residue [active] 640511001752 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 640511001753 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 640511001754 Substrate binding site; other site 640511001755 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 640511001756 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 640511001757 Bacterial sugar transferase; Region: Bac_transf; pfam02397 640511001758 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 640511001759 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 640511001760 SLBB domain; Region: SLBB; pfam10531 640511001761 Chain length determinant protein; Region: Wzz; pfam02706 640511001762 cryptic autophosphorylating protein tyrosine kinase Etk; Provisional; Region: PRK09841 640511001763 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 640511001764 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 640511001765 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 640511001766 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 640511001767 oligomerisation interface [polypeptide binding]; other site 640511001768 mobile loop; other site 640511001769 roof hairpin; other site 640511001770 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 640511001771 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 640511001772 ring oligomerisation interface [polypeptide binding]; other site 640511001773 ATP/Mg binding site [chemical binding]; other site 640511001774 stacking interactions; other site 640511001775 hinge regions; other site 640511001776 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 640511001777 ligand-binding site [chemical binding]; other site 640511001778 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 640511001779 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 640511001780 dimer interface [polypeptide binding]; other site 640511001781 substrate binding site [chemical binding]; other site 640511001782 ATP binding site [chemical binding]; other site 640511001783 Rubredoxin [Energy production and conversion]; Region: COG1773 640511001784 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 640511001785 iron binding site [ion binding]; other site 640511001786 hypothetical protein; Validated; Region: PRK00228 640511001787 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 640511001788 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 640511001789 active site 640511001790 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 640511001791 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 640511001792 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 640511001793 dihydroorotase; Provisional; Region: PRK07627 640511001794 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 640511001795 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 640511001796 active site 640511001797 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 640511001798 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 640511001799 putative acyl-acceptor binding pocket; other site 640511001800 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 640511001801 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 640511001802 active site 640511001803 metal binding site [ion binding]; metal-binding site 640511001804 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 640511001805 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 640511001806 NADP-binding site; other site 640511001807 homotetramer interface [polypeptide binding]; other site 640511001808 substrate binding site [chemical binding]; other site 640511001809 homodimer interface [polypeptide binding]; other site 640511001810 active site 640511001811 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 640511001812 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 640511001813 NAD binding site [chemical binding]; other site 640511001814 substrate binding site [chemical binding]; other site 640511001815 homodimer interface [polypeptide binding]; other site 640511001816 active site 640511001817 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 640511001818 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 640511001819 substrate binding site; other site 640511001820 tetramer interface; other site 640511001821 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 640511001822 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 640511001823 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 640511001824 NADP binding site [chemical binding]; other site 640511001825 active site 640511001826 putative substrate binding site [chemical binding]; other site 640511001827 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 640511001828 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 640511001829 Substrate binding site; other site 640511001830 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 640511001831 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 640511001832 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 640511001833 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 640511001834 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 640511001835 Walker A/P-loop; other site 640511001836 ATP binding site [chemical binding]; other site 640511001837 Q-loop/lid; other site 640511001838 ABC transporter signature motif; other site 640511001839 Walker B; other site 640511001840 D-loop; other site 640511001841 H-loop/switch region; other site 640511001842 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 640511001843 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 640511001844 active site 640511001845 AMP binding site [chemical binding]; other site 640511001846 acyl-activating enzyme (AAE) consensus motif; other site 640511001847 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u6; cd10930 640511001848 NodB motif; other site 640511001849 putative active site [active] 640511001850 putative catalytic site [active] 640511001851 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 640511001852 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 640511001853 active site 640511001854 homodimer interface [polypeptide binding]; other site 640511001855 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: GT1_like_1; cd04950 640511001856 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640511001857 putative homodimer interface [polypeptide binding]; other site 640511001858 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640511001859 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_4; cd03795 640511001860 putative ADP-binding pocket [chemical binding]; other site 640511001861 hypothetical protein; Validated; Region: PRK08238 640511001862 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 640511001863 phosphoribose diphosphate:decaprenyl-phosphate phosphoribosyltransferase; Provisional; Region: PRK12324 640511001864 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 640511001865 FAD binding domain; Region: FAD_binding_4; pfam01565 640511001866 short chain dehydrogenase; Provisional; Region: PRK07102 640511001867 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 640511001868 NAD(P) binding site [chemical binding]; other site 640511001869 active site 640511001870 Methyltransferase domain; Region: Methyltransf_12; pfam08242 640511001871 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 640511001872 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 640511001873 NAD(P) binding site [chemical binding]; other site 640511001874 Methyltransferase domain; Region: Methyltransf_24; pfam13578 640511001875 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 640511001876 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640511001877 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640511001878 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 640511001879 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 640511001880 catalytic core [active] 640511001881 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 640511001882 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640511001883 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640511001884 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 640511001885 Myxococcus xanthus RfbC like proteins are required for O-antigen biosynthesis; Region: GT2_RfbC_Mx_like; cd04184 640511001886 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 640511001887 Probable Catalytic site; other site 640511001888 metal-binding site 640511001889 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 640511001890 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 640511001891 Probable Catalytic site; other site 640511001892 metal-binding site 640511001893 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 640511001894 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 640511001895 UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs; Region: UDP_G4E_4_SDR_e; cd05232 640511001896 putative NAD(P) binding site [chemical binding]; other site 640511001897 active site 640511001898 putative substrate binding site [chemical binding]; other site 640511001899 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 640511001900 Mg++ binding site [ion binding]; other site 640511001901 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 640511001902 putative catalytic motif [active] 640511001903 putative substrate binding site [chemical binding]; other site 640511001904 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 640511001905 CoA binding domain; Region: CoA_binding; smart00881 640511001906 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 640511001907 NAD(P) binding site [chemical binding]; other site 640511001908 homodimer interface [polypeptide binding]; other site 640511001909 substrate binding site [chemical binding]; other site 640511001910 active site 640511001911 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 640511001912 Protein of unknown function (DUF3828); Region: DUF3828; pfam12883 640511001913 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 640511001914 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 640511001915 Mg++ binding site [ion binding]; other site 640511001916 putative catalytic motif [active] 640511001917 methyl-accepting protein IV; Provisional; Region: PRK09793 640511001918 Tar ligand binding domain homologue; Region: TarH; pfam02203 640511001919 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 640511001920 dimerization interface [polypeptide binding]; other site 640511001921 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640511001922 dimer interface [polypeptide binding]; other site 640511001923 putative CheW interface [polypeptide binding]; other site 640511001924 UDP-glucose 4-epimerase; Region: PLN02240 640511001925 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 640511001926 NAD binding site [chemical binding]; other site 640511001927 homodimer interface [polypeptide binding]; other site 640511001928 active site 640511001929 substrate binding site [chemical binding]; other site 640511001930 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 640511001931 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640511001932 putative ADP-binding pocket [chemical binding]; other site 640511001933 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 640511001934 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 640511001935 active site 640511001936 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 640511001937 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 640511001938 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 640511001939 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 640511001940 active site 640511001941 substrate binding site [chemical binding]; other site 640511001942 metal binding site [ion binding]; metal-binding site 640511001943 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 640511001944 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 640511001945 putative active site [active] 640511001946 3-deoxy-D-manno-oct-2-ulosonic acid (Kdo) hydroxylase; Region: Kdo_hydroxy; pfam11004 640511001947 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 640511001948 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 640511001949 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 640511001950 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 640511001951 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 640511001952 UreF; Region: UreF; pfam01730 640511001953 urease accessory protein UreE; Provisional; Region: ureE; PRK13263 640511001954 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 640511001955 dimer interface [polypeptide binding]; other site 640511001956 catalytic residues [active] 640511001957 urease subunit alpha; Reviewed; Region: ureC; PRK13207 640511001958 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 640511001959 subunit interactions [polypeptide binding]; other site 640511001960 active site 640511001961 flap region; other site 640511001962 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 640511001963 gamma-beta subunit interface [polypeptide binding]; other site 640511001964 alpha-beta subunit interface [polypeptide binding]; other site 640511001965 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 640511001966 alpha-gamma subunit interface [polypeptide binding]; other site 640511001967 beta-gamma subunit interface [polypeptide binding]; other site 640511001968 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 640511001969 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 640511001970 substrate binding pocket [chemical binding]; other site 640511001971 membrane-bound complex binding site; other site 640511001972 hinge residues; other site 640511001973 UreD urease accessory protein; Region: UreD; cl00530 640511001974 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 640511001975 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 640511001976 Walker A/P-loop; other site 640511001977 ATP binding site [chemical binding]; other site 640511001978 Q-loop/lid; other site 640511001979 ABC transporter signature motif; other site 640511001980 Walker B; other site 640511001981 D-loop; other site 640511001982 H-loop/switch region; other site 640511001983 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 640511001984 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 640511001985 Walker A/P-loop; other site 640511001986 ATP binding site [chemical binding]; other site 640511001987 Q-loop/lid; other site 640511001988 ABC transporter signature motif; other site 640511001989 Walker B; other site 640511001990 D-loop; other site 640511001991 H-loop/switch region; other site 640511001992 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640511001993 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 640511001994 TM-ABC transporter signature motif; other site 640511001995 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 640511001996 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640511001997 TM-ABC transporter signature motif; other site 640511001998 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 640511001999 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 640511002000 putative ligand binding site [chemical binding]; other site 640511002001 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 640511002002 active site residue [active] 640511002003 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 640511002004 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 640511002005 S-adenosylmethionine binding site [chemical binding]; other site 640511002006 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640511002007 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640511002008 DNA binding site [nucleotide binding] 640511002009 domain linker motif; other site 640511002010 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 640511002011 dimerization interface [polypeptide binding]; other site 640511002012 ligand binding site [chemical binding]; other site 640511002013 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 640511002014 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 640511002015 Walker A/P-loop; other site 640511002016 ATP binding site [chemical binding]; other site 640511002017 Q-loop/lid; other site 640511002018 ABC transporter signature motif; other site 640511002019 Walker B; other site 640511002020 D-loop; other site 640511002021 H-loop/switch region; other site 640511002022 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 640511002023 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640511002024 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 640511002025 TM-ABC transporter signature motif; other site 640511002026 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 640511002027 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_3; cd06311 640511002028 putative ligand binding site [chemical binding]; other site 640511002029 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 640511002030 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 640511002031 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 640511002032 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 640511002033 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 640511002034 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 640511002035 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 640511002036 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 640511002037 P-loop; other site 640511002038 Magnesium ion binding site [ion binding]; other site 640511002039 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 640511002040 Magnesium ion binding site [ion binding]; other site 640511002041 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 640511002042 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 640511002043 putative ligand binding site [chemical binding]; other site 640511002044 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12684 640511002045 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511002046 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 640511002047 substrate binding site [chemical binding]; other site 640511002048 dimerization interface [polypeptide binding]; other site 640511002049 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 640511002050 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 640511002051 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 640511002052 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 640511002053 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 640511002054 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 640511002055 Active Sites [active] 640511002056 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 640511002057 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 640511002058 Active Sites [active] 640511002059 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 640511002060 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 640511002061 CysD dimerization site [polypeptide binding]; other site 640511002062 G1 box; other site 640511002063 putative GEF interaction site [polypeptide binding]; other site 640511002064 GTP/Mg2+ binding site [chemical binding]; other site 640511002065 Switch I region; other site 640511002066 G2 box; other site 640511002067 G3 box; other site 640511002068 Switch II region; other site 640511002069 G4 box; other site 640511002070 G5 box; other site 640511002071 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 640511002072 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 640511002073 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 640511002074 active site 640511002075 SAM binding site [chemical binding]; other site 640511002076 homodimer interface [polypeptide binding]; other site 640511002077 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 640511002078 putative active site [active] 640511002079 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 640511002080 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 640511002081 Predicted permeases [General function prediction only]; Region: COG0795 640511002082 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 640511002083 multifunctional aminopeptidase A; Provisional; Region: PRK00913 640511002084 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 640511002085 interface (dimer of trimers) [polypeptide binding]; other site 640511002086 Substrate-binding/catalytic site; other site 640511002087 Zn-binding sites [ion binding]; other site 640511002088 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 640511002089 Protein of unknown function (DUF2486); Region: DUF2486; pfam10667 640511002090 Cytochrome c; Region: Cytochrom_C; cl11414 640511002091 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 640511002092 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 640511002093 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511002094 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 640511002095 putative dimerization interface [polypeptide binding]; other site 640511002096 putative substrate binding pocket [chemical binding]; other site 640511002097 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 640511002098 Protein of unknown function (DUF541); Region: SIMPL; cl01077 640511002099 Uncharacterized conserved protein [Function unknown]; Region: COG2947 640511002100 Cell division protein ZapA; Region: ZapA; pfam05164 640511002101 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cl00148 640511002102 primary dimer interface [polypeptide binding]; other site 640511002103 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 640511002104 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 640511002105 N-terminal plug; other site 640511002106 ligand-binding site [chemical binding]; other site 640511002107 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 640511002108 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 640511002109 ABC-ATPase subunit interface; other site 640511002110 dimer interface [polypeptide binding]; other site 640511002111 putative PBP binding regions; other site 640511002112 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 640511002113 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 640511002114 Walker A/P-loop; other site 640511002115 ATP binding site [chemical binding]; other site 640511002116 Q-loop/lid; other site 640511002117 ABC transporter signature motif; other site 640511002118 Walker B; other site 640511002119 D-loop; other site 640511002120 H-loop/switch region; other site 640511002121 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 640511002122 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 640511002123 putative dimer interface [polypeptide binding]; other site 640511002124 active site pocket [active] 640511002125 putative cataytic base [active] 640511002126 cobalamin synthase; Reviewed; Region: cobS; PRK00235 640511002127 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 640511002128 catalytic core [active] 640511002129 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 640511002130 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 640511002131 cobalamin binding residues [chemical binding]; other site 640511002132 putative BtuC binding residues; other site 640511002133 dimer interface [polypeptide binding]; other site 640511002134 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 640511002135 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 640511002136 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511002137 homodimer interface [polypeptide binding]; other site 640511002138 catalytic residue [active] 640511002139 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 640511002140 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 640511002141 homotrimer interface [polypeptide binding]; other site 640511002142 Walker A motif; other site 640511002143 GTP binding site [chemical binding]; other site 640511002144 Walker B motif; other site 640511002145 cobyric acid synthase; Provisional; Region: PRK00784 640511002146 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 640511002147 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 640511002148 catalytic triad [active] 640511002149 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 640511002150 CoenzymeA binding site [chemical binding]; other site 640511002151 subunit interaction site [polypeptide binding]; other site 640511002152 PHB binding site; other site 640511002153 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 640511002154 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 640511002155 P-loop; other site 640511002156 Magnesium ion binding site [ion binding]; other site 640511002157 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 640511002158 tetramerization interface [polypeptide binding]; other site 640511002159 active site 640511002160 pantoate--beta-alanine ligase; Region: panC; TIGR00018 640511002161 Pantoate-beta-alanine ligase; Region: PanC; cd00560 640511002162 active site 640511002163 ATP-binding site [chemical binding]; other site 640511002164 pantoate-binding site; other site 640511002165 HXXH motif; other site 640511002166 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 640511002167 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 640511002168 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 640511002169 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 640511002170 Surface antigen; Region: Bac_surface_Ag; pfam01103 640511002171 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 640511002172 Family of unknown function (DUF490); Region: DUF490; pfam04357 640511002173 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 640511002174 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 640511002175 active site 640511002176 HIGH motif; other site 640511002177 KMSKS motif; other site 640511002178 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 640511002179 tRNA binding surface [nucleotide binding]; other site 640511002180 anticodon binding site; other site 640511002181 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 640511002182 dimer interface [polypeptide binding]; other site 640511002183 putative tRNA-binding site [nucleotide binding]; other site 640511002184 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 640511002185 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640511002186 ligand binding site [chemical binding]; other site 640511002187 Domain of unknown function DUF59; Region: DUF59; pfam01883 640511002188 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 640511002189 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 640511002190 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 640511002191 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 640511002192 E-class dimer interface [polypeptide binding]; other site 640511002193 P-class dimer interface [polypeptide binding]; other site 640511002194 active site 640511002195 Cu2+ binding site [ion binding]; other site 640511002196 Zn2+ binding site [ion binding]; other site 640511002197 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 640511002198 trimer interface [polypeptide binding]; other site 640511002199 active site 640511002200 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 640511002201 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 640511002202 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 640511002203 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640511002204 catalytic residue [active] 640511002205 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 640511002206 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 640511002207 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 640511002208 bifunctional glucokinase/RpiR family transcriptional regulator; Provisional; Region: PRK14101 640511002209 glucokinase; Provisional; Region: glk; PRK00292 640511002210 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 640511002211 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 640511002212 putative active site [active] 640511002213 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 640511002214 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 640511002215 putative active site [active] 640511002216 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 640511002217 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 640511002218 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 640511002219 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 640511002220 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 640511002221 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 640511002222 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511002223 putative PBP binding loops; other site 640511002224 dimer interface [polypeptide binding]; other site 640511002225 ABC-ATPase subunit interface; other site 640511002226 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 640511002227 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511002228 dimer interface [polypeptide binding]; other site 640511002229 conserved gate region; other site 640511002230 putative PBP binding loops; other site 640511002231 ABC-ATPase subunit interface; other site 640511002232 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 640511002233 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 640511002234 Walker A/P-loop; other site 640511002235 ATP binding site [chemical binding]; other site 640511002236 Q-loop/lid; other site 640511002237 ABC transporter signature motif; other site 640511002238 Walker B; other site 640511002239 D-loop; other site 640511002240 H-loop/switch region; other site 640511002241 TOBE domain; Region: TOBE; pfam03459 640511002242 transcriptional regulator; Provisional; Region: PRK10632 640511002243 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511002244 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 640511002245 putative effector binding pocket; other site 640511002246 putative dimerization interface [polypeptide binding]; other site 640511002247 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 640511002248 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 640511002249 C-terminal domain interface [polypeptide binding]; other site 640511002250 GSH binding site (G-site) [chemical binding]; other site 640511002251 dimer interface [polypeptide binding]; other site 640511002252 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 640511002253 N-terminal domain interface [polypeptide binding]; other site 640511002254 dimer interface [polypeptide binding]; other site 640511002255 substrate binding pocket (H-site) [chemical binding]; other site 640511002256 hypothetical protein; Provisional; Region: PRK04946 640511002257 Smr domain; Region: Smr; pfam01713 640511002258 thioredoxin reductase; Provisional; Region: PRK10262 640511002259 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 640511002260 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640511002261 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 640511002262 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 640511002263 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 640511002264 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 640511002265 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 640511002266 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 640511002267 recombination factor protein RarA; Reviewed; Region: PRK13342 640511002268 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 640511002269 Walker A motif; other site 640511002270 ATP binding site [chemical binding]; other site 640511002271 Walker B motif; other site 640511002272 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 640511002273 arginine finger; other site 640511002274 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 640511002275 seryl-tRNA synthetase; Provisional; Region: PRK05431 640511002276 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 640511002277 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 640511002278 dimer interface [polypeptide binding]; other site 640511002279 active site 640511002280 motif 1; other site 640511002281 motif 2; other site 640511002282 motif 3; other site 640511002283 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 640511002284 active site 640511002285 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640511002286 Coenzyme A binding pocket [chemical binding]; other site 640511002287 septum formation inhibitor; Reviewed; Region: PRK01973 640511002288 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 640511002289 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 640511002290 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 640511002291 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 640511002292 Switch I; other site 640511002293 Switch II; other site 640511002294 cell division topological specificity factor MinE; Provisional; Region: PRK13989 640511002295 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 640511002296 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 640511002297 putative ion selectivity filter; other site 640511002298 putative pore gating glutamate residue; other site 640511002299 putative H+/Cl- coupling transport residue; other site 640511002300 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 640511002301 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 640511002302 putative active site [active] 640511002303 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511002304 metabolite-proton symporter; Region: 2A0106; TIGR00883 640511002305 putative substrate translocation pore; other site 640511002306 Gram-negative bacterial tonB protein; Region: TonB; cl10048 640511002307 argininosuccinate lyase; Provisional; Region: PRK00855 640511002308 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 640511002309 active sites [active] 640511002310 tetramer interface [polypeptide binding]; other site 640511002311 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 640511002312 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 640511002313 sequence-specific DNA binding site [nucleotide binding]; other site 640511002314 salt bridge; other site 640511002315 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 640511002316 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 640511002317 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 640511002318 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 640511002319 domain interfaces; other site 640511002320 active site 640511002321 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed; Region: PRK06975 640511002322 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 640511002323 active site 640511002324 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 640511002325 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 640511002326 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 640511002327 TPR motif; other site 640511002328 binding surface 640511002329 short chain dehydrogenase; Provisional; Region: PRK07109 640511002330 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 640511002331 putative NAD(P) binding site [chemical binding]; other site 640511002332 active site 640511002333 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 640511002334 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 640511002335 Sulfate transporter family; Region: Sulfate_transp; pfam00916 640511002336 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 640511002337 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 640511002338 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 640511002339 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 640511002340 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 640511002341 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4253 640511002342 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 640511002343 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640511002344 NAD(P) binding site [chemical binding]; other site 640511002345 catalytic residues [active] 640511002346 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 640511002347 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 640511002348 Walker A motif; other site 640511002349 ATP binding site [chemical binding]; other site 640511002350 Walker B motif; other site 640511002351 arginine finger; other site 640511002352 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 640511002353 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640511002354 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 640511002355 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511002356 putative substrate translocation pore; other site 640511002357 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR), subgroup 3, classical (c) SDR; Region: BKR_3_SDR_c; cd05345 640511002358 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 640511002359 putative NAD(P) binding site [chemical binding]; other site 640511002360 active site 640511002361 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640511002362 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 640511002363 NAD(P) binding site [chemical binding]; other site 640511002364 catalytic residues [active] 640511002365 catalytic residues [active] 640511002366 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 640511002367 dimer interface [polypeptide binding]; other site 640511002368 substrate binding site [chemical binding]; other site 640511002369 metal binding sites [ion binding]; metal-binding site 640511002370 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 640511002371 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 640511002372 GIY-YIG motif/motif A; other site 640511002373 putative active site [active] 640511002374 putative metal binding site [ion binding]; other site 640511002375 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 640511002376 Protein of unknown function, DUF482; Region: DUF482; pfam04339 640511002377 NAD synthetase; Provisional; Region: PRK13981 640511002378 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 640511002379 multimer interface [polypeptide binding]; other site 640511002380 active site 640511002381 catalytic triad [active] 640511002382 protein interface 1 [polypeptide binding]; other site 640511002383 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 640511002384 homodimer interface [polypeptide binding]; other site 640511002385 NAD binding pocket [chemical binding]; other site 640511002386 ATP binding pocket [chemical binding]; other site 640511002387 Mg binding site [ion binding]; other site 640511002388 active-site loop [active] 640511002389 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 640511002390 Nitrogen regulatory protein P-II; Region: P-II; smart00938 640511002391 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640511002392 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 640511002393 trimer interface [polypeptide binding]; other site 640511002394 eyelet of channel; other site 640511002395 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 640511002396 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 640511002397 Walker A/P-loop; other site 640511002398 ATP binding site [chemical binding]; other site 640511002399 Q-loop/lid; other site 640511002400 ABC transporter signature motif; other site 640511002401 Walker B; other site 640511002402 D-loop; other site 640511002403 H-loop/switch region; other site 640511002404 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640511002405 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511002406 dimer interface [polypeptide binding]; other site 640511002407 conserved gate region; other site 640511002408 putative PBP binding loops; other site 640511002409 ABC-ATPase subunit interface; other site 640511002410 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640511002411 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511002412 dimer interface [polypeptide binding]; other site 640511002413 conserved gate region; other site 640511002414 putative PBP binding loops; other site 640511002415 ABC-ATPase subunit interface; other site 640511002416 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional; Region: PRK15010 640511002417 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 640511002418 substrate binding pocket [chemical binding]; other site 640511002419 membrane-bound complex binding site; other site 640511002420 hinge residues; other site 640511002421 Pirin-related protein [General function prediction only]; Region: COG1741 640511002422 Pirin; Region: Pirin; pfam02678 640511002423 Heavy-metal resistance; Region: Metal_resist; pfam13801 640511002424 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 640511002425 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511002426 active site 640511002427 phosphorylation site [posttranslational modification] 640511002428 intermolecular recognition site; other site 640511002429 dimerization interface [polypeptide binding]; other site 640511002430 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 640511002431 DNA binding site [nucleotide binding] 640511002432 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 640511002433 dimer interface [polypeptide binding]; other site 640511002434 phosphorylation site [posttranslational modification] 640511002435 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511002436 ATP binding site [chemical binding]; other site 640511002437 Mg2+ binding site [ion binding]; other site 640511002438 G-X-G motif; other site 640511002439 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 640511002440 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640511002441 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640511002442 metal binding site [ion binding]; metal-binding site 640511002443 active site 640511002444 I-site; other site 640511002445 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 640511002446 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511002447 dimer interface [polypeptide binding]; other site 640511002448 conserved gate region; other site 640511002449 putative PBP binding loops; other site 640511002450 ABC-ATPase subunit interface; other site 640511002451 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511002452 dimer interface [polypeptide binding]; other site 640511002453 conserved gate region; other site 640511002454 putative PBP binding loops; other site 640511002455 ABC-ATPase subunit interface; other site 640511002456 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 640511002457 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 640511002458 Walker A/P-loop; other site 640511002459 ATP binding site [chemical binding]; other site 640511002460 Q-loop/lid; other site 640511002461 ABC transporter signature motif; other site 640511002462 Walker B; other site 640511002463 D-loop; other site 640511002464 H-loop/switch region; other site 640511002465 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; pfam09821 640511002466 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 640511002467 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 640511002468 Walker A motif; other site 640511002469 ATP binding site [chemical binding]; other site 640511002470 Walker B motif; other site 640511002471 arginine finger; other site 640511002472 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 640511002473 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 640511002474 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 640511002475 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511002476 active site 640511002477 phosphorylation site [posttranslational modification] 640511002478 intermolecular recognition site; other site 640511002479 dimerization interface [polypeptide binding]; other site 640511002480 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 640511002481 Walker A motif; other site 640511002482 ATP binding site [chemical binding]; other site 640511002483 Walker B motif; other site 640511002484 arginine finger; other site 640511002485 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 640511002486 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 640511002487 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 640511002488 active site 640511002489 homotetramer interface [polypeptide binding]; other site 640511002490 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511002491 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640511002492 putative substrate translocation pore; other site 640511002493 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511002494 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 640511002495 substrate binding site [chemical binding]; other site 640511002496 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 640511002497 additional DNA contacts [nucleotide binding]; other site 640511002498 mismatch recognition site; other site 640511002499 active site 640511002500 zinc binding site [ion binding]; other site 640511002501 DNA intercalation site [nucleotide binding]; other site 640511002502 DNA cytosine methylase; Provisional; Region: PRK10458 640511002503 Helix-turn-helix; Region: HTH_3; pfam01381 640511002504 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 640511002505 cofactor binding site; other site 640511002506 DNA binding site [nucleotide binding] 640511002507 substrate interaction site [chemical binding]; other site 640511002508 CsbD-like; Region: CsbD; cl17424 640511002509 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 640511002510 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 640511002511 C-terminal domain interface [polypeptide binding]; other site 640511002512 GSH binding site (G-site) [chemical binding]; other site 640511002513 dimer interface [polypeptide binding]; other site 640511002514 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 640511002515 dimer interface [polypeptide binding]; other site 640511002516 N-terminal domain interface [polypeptide binding]; other site 640511002517 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 640511002518 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 640511002519 Rubredoxin; Region: Rubredoxin; pfam00301 640511002520 iron binding site [ion binding]; other site 640511002521 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 640511002522 ABC transporter ATPase component; Reviewed; Region: PRK11147 640511002523 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640511002524 Walker A/P-loop; other site 640511002525 ATP binding site [chemical binding]; other site 640511002526 Q-loop/lid; other site 640511002527 ABC transporter signature motif; other site 640511002528 Walker B; other site 640511002529 D-loop; other site 640511002530 H-loop/switch region; other site 640511002531 ABC transporter; Region: ABC_tran_2; pfam12848 640511002532 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 640511002533 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 640511002534 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511002535 ATP binding site [chemical binding]; other site 640511002536 Mg2+ binding site [ion binding]; other site 640511002537 G-X-G motif; other site 640511002538 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 640511002539 anchoring element; other site 640511002540 dimer interface [polypeptide binding]; other site 640511002541 ATP binding site [chemical binding]; other site 640511002542 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 640511002543 active site 640511002544 metal binding site [ion binding]; metal-binding site 640511002545 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 640511002546 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 640511002547 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 640511002548 CAP-like domain; other site 640511002549 active site 640511002550 primary dimer interface [polypeptide binding]; other site 640511002551 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 640511002552 Predicted integral membrane protein [Function unknown]; Region: COG5615 640511002553 Chromate transporter; Region: Chromate_transp; pfam02417 640511002554 Chromate transporter; Region: Chromate_transp; pfam02417 640511002555 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640511002556 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640511002557 metal binding site [ion binding]; metal-binding site 640511002558 active site 640511002559 I-site; other site 640511002560 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 640511002561 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 640511002562 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 640511002563 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 640511002564 homotrimer interaction site [polypeptide binding]; other site 640511002565 putative active site [active] 640511002566 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 640511002567 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 640511002568 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511002569 homodimer interface [polypeptide binding]; other site 640511002570 catalytic residue [active] 640511002571 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 640511002572 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 640511002573 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511002574 DNA-binding site [nucleotide binding]; DNA binding site 640511002575 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 640511002576 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511002577 homodimer interface [polypeptide binding]; other site 640511002578 catalytic residue [active] 640511002579 heat shock protein 90; Provisional; Region: PRK05218 640511002580 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511002581 ATP binding site [chemical binding]; other site 640511002582 Mg2+ binding site [ion binding]; other site 640511002583 G-X-G motif; other site 640511002584 Chorismate lyase; Region: Chor_lyase; cl01230 640511002585 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 640511002586 putative active site [active] 640511002587 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640511002588 Coenzyme A binding pocket [chemical binding]; other site 640511002589 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 640511002590 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 640511002591 Helix-turn-helix domain; Region: HTH_18; pfam12833 640511002592 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 640511002593 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 640511002594 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 640511002595 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 640511002596 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 640511002597 Na binding site [ion binding]; other site 640511002598 Predicted membrane protein [Function unknown]; Region: COG1289 640511002599 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 640511002600 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 640511002601 dimer interface [polypeptide binding]; other site 640511002602 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640511002603 transaldolase-like protein; Provisional; Region: PTZ00411 640511002604 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 640511002605 active site 640511002606 dimer interface [polypeptide binding]; other site 640511002607 catalytic residue [active] 640511002608 benzoate transporter; Region: benE; TIGR00843 640511002609 Benzoate membrane transport protein; Region: BenE; pfam03594 640511002610 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 640511002611 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 640511002612 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 640511002613 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 640511002614 Walker A motif; other site 640511002615 ATP binding site [chemical binding]; other site 640511002616 Walker B motif; other site 640511002617 arginine finger; other site 640511002618 Cytochrome c; Region: Cytochrom_C; cl11414 640511002619 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640511002620 Cytochrome c; Region: Cytochrom_C; cl11414 640511002621 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 640511002622 endonuclease III; Provisional; Region: PRK10702 640511002623 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 640511002624 minor groove reading motif; other site 640511002625 helix-hairpin-helix signature motif; other site 640511002626 substrate binding pocket [chemical binding]; other site 640511002627 active site 640511002628 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 640511002629 ferredoxin; Provisional; Region: PRK06991 640511002630 Putative Fe-S cluster; Region: FeS; pfam04060 640511002631 4Fe-4S binding domain; Region: Fer4; pfam00037 640511002632 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 640511002633 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640511002634 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 640511002635 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 640511002636 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 640511002637 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 640511002638 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 640511002639 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 640511002640 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 640511002641 META domain; Region: META; pfam03724 640511002642 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 640511002643 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511002644 ATP-grasp domain; Region: ATP-grasp; pfam02222 640511002645 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 640511002646 acetolactate synthase; Reviewed; Region: PRK08322 640511002647 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 640511002648 PYR/PP interface [polypeptide binding]; other site 640511002649 dimer interface [polypeptide binding]; other site 640511002650 TPP binding site [chemical binding]; other site 640511002651 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 640511002652 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 640511002653 TPP-binding site [chemical binding]; other site 640511002654 dimer interface [polypeptide binding]; other site 640511002655 Aldehyde dehydrogenase family 21A1-like; Region: ALDH_F21_RNP123; cd07147 640511002656 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640511002657 NAD(P) binding site [chemical binding]; other site 640511002658 catalytic residues [active] 640511002659 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 640511002660 DEAD-like helicases superfamily; Region: DEXDc; smart00487 640511002661 ATP binding site [chemical binding]; other site 640511002662 Mg++ binding site [ion binding]; other site 640511002663 motif III; other site 640511002664 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 640511002665 nucleotide binding region [chemical binding]; other site 640511002666 ATP-binding site [chemical binding]; other site 640511002667 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 640511002668 glutamyl-queuosine tRNA(Asp) synthetase; Region: queuosine_YadB; TIGR03838 640511002669 active site 640511002670 HIGH motif; other site 640511002671 nucleotide binding site [chemical binding]; other site 640511002672 active site 640511002673 KMSKS motif; other site 640511002674 rhodanese superfamily protein; Provisional; Region: PRK05320 640511002675 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 640511002676 active site residue [active] 640511002677 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 640511002678 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 640511002679 putative active site [active] 640511002680 putative PHP Thumb interface [polypeptide binding]; other site 640511002681 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 640511002682 generic binding surface II; other site 640511002683 generic binding surface I; other site 640511002684 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 640511002685 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 640511002686 putative metal binding site; other site 640511002687 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 640511002688 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 640511002689 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 640511002690 Walker A/P-loop; other site 640511002691 ATP binding site [chemical binding]; other site 640511002692 Q-loop/lid; other site 640511002693 ABC transporter signature motif; other site 640511002694 Walker B; other site 640511002695 D-loop; other site 640511002696 H-loop/switch region; other site 640511002697 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 640511002698 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 640511002699 Probable Catalytic site; other site 640511002700 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 640511002701 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 640511002702 active site 640511002703 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 640511002704 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 640511002705 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 640511002706 O-Antigen ligase; Region: Wzy_C; pfam04932 640511002707 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 640511002708 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 640511002709 active site 640511002710 SnoaL-like polyketide cyclase; Region: SnoaL; pfam07366 640511002711 recombination associated protein; Reviewed; Region: rdgC; PRK00321 640511002712 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 640511002713 FecR protein; Region: FecR; pfam04773 640511002714 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511002715 H+ Antiporter protein; Region: 2A0121; TIGR00900 640511002716 putative substrate translocation pore; other site 640511002717 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640511002718 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 640511002719 dimer interface [polypeptide binding]; other site 640511002720 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 640511002721 putative dimer interface [polypeptide binding]; other site 640511002722 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640511002723 NLPC_P60 stabilising domain, N term; Region: N_NLPC_P60; pfam12912 640511002724 SH3 domain of the SH3b1 type; Region: SH3_6; pfam12913 640511002725 SH3 domain of SH3b2 type; Region: SH3_7; pfam12914 640511002726 NlpC/P60 family; Region: NLPC_P60; cl17555 640511002727 molybdenum-pterin binding domain; Region: Mop; TIGR00638 640511002728 TOBE domain; Region: TOBE; cl01440 640511002729 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 640511002730 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 640511002731 Mechanosensitive ion channel; Region: MS_channel; pfam00924 640511002732 Integrase core domain; Region: rve_3; cl15866 640511002733 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 640511002734 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640511002735 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 640511002736 ribonuclease G; Provisional; Region: PRK11712 640511002737 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 640511002738 homodimer interface [polypeptide binding]; other site 640511002739 oligonucleotide binding site [chemical binding]; other site 640511002740 Maf-like protein; Region: Maf; pfam02545 640511002741 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 640511002742 active site 640511002743 dimer interface [polypeptide binding]; other site 640511002744 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 640511002745 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 640511002746 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 640511002747 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 640511002748 active site 640511002749 (T/H)XGH motif; other site 640511002750 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 640511002751 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 640511002752 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 640511002753 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 640511002754 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 640511002755 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 640511002756 hypothetical protein; Validated; Region: PRK00110 640511002757 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 640511002758 active site 640511002759 short chain dehydrogenase; Provisional; Region: PRK08339 640511002760 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 640511002761 putative NAD(P) binding site [chemical binding]; other site 640511002762 putative active site [active] 640511002763 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 640511002764 active site 640511002765 dimer interfaces [polypeptide binding]; other site 640511002766 catalytic residues [active] 640511002767 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 640511002768 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 640511002769 NADP binding site [chemical binding]; other site 640511002770 dimer interface [polypeptide binding]; other site 640511002771 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 640511002772 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 640511002773 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 640511002774 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 640511002775 sensor protein KdpD; Provisional; Region: PRK10490 640511002776 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 640511002777 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 640511002778 Ligand Binding Site [chemical binding]; other site 640511002779 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 640511002780 GAF domain; Region: GAF_3; pfam13492 640511002781 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 640511002782 dimer interface [polypeptide binding]; other site 640511002783 phosphorylation site [posttranslational modification] 640511002784 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511002785 ATP binding site [chemical binding]; other site 640511002786 Mg2+ binding site [ion binding]; other site 640511002787 G-X-G motif; other site 640511002788 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 640511002789 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511002790 active site 640511002791 phosphorylation site [posttranslational modification] 640511002792 intermolecular recognition site; other site 640511002793 dimerization interface [polypeptide binding]; other site 640511002794 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 640511002795 DNA binding site [nucleotide binding] 640511002796 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 640511002797 Domain of unknown function (DUF4126); Region: DUF4126; pfam13548 640511002798 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 640511002799 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 640511002800 apolar tunnel; other site 640511002801 heme binding site [chemical binding]; other site 640511002802 dimerization interface [polypeptide binding]; other site 640511002803 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 640511002804 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 640511002805 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 640511002806 glucose-1-dehydrogenase; Provisional; Region: PRK06947 640511002807 classical (c) SDRs; Region: SDR_c; cd05233 640511002808 NAD(P) binding site [chemical binding]; other site 640511002809 active site 640511002810 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 640511002811 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640511002812 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640511002813 Bacterial transcriptional repressor; Region: TetR; pfam13972 640511002814 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 640511002815 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640511002816 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 640511002817 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 640511002818 putative active site [active] 640511002819 putative metal binding site [ion binding]; other site 640511002820 RDD family; Region: RDD; pfam06271 640511002821 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 640511002822 Protein of unknown function (DUF3619); Region: DUF3619; pfam12279 640511002823 RNA polymerase factor sigma-70; Validated; Region: PRK09047 640511002824 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 640511002825 DNA binding residues [nucleotide binding] 640511002826 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 640511002827 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 640511002828 PYR/PP interface [polypeptide binding]; other site 640511002829 dimer interface [polypeptide binding]; other site 640511002830 TPP binding site [chemical binding]; other site 640511002831 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 640511002832 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 640511002833 TPP-binding site [chemical binding]; other site 640511002834 dimer interface [polypeptide binding]; other site 640511002835 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 640511002836 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 640511002837 putative valine binding site [chemical binding]; other site 640511002838 dimer interface [polypeptide binding]; other site 640511002839 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 640511002840 ketol-acid reductoisomerase; Provisional; Region: PRK05479 640511002841 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 640511002842 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 640511002843 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 640511002844 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 640511002845 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 640511002846 2-isopropylmalate synthase; Validated; Region: PRK00915 640511002847 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 640511002848 active site 640511002849 catalytic residues [active] 640511002850 metal binding site [ion binding]; metal-binding site 640511002851 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 640511002852 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 640511002853 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 640511002854 Sulfate transporter family; Region: Sulfate_transp; pfam00916 640511002855 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 640511002856 active site clefts [active] 640511002857 zinc binding site [ion binding]; other site 640511002858 dimer interface [polypeptide binding]; other site 640511002859 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 640511002860 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 640511002861 putative ligand binding site [chemical binding]; other site 640511002862 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 640511002863 16S/18S rRNA binding site [nucleotide binding]; other site 640511002864 S13e-L30e interaction site [polypeptide binding]; other site 640511002865 25S rRNA binding site [nucleotide binding]; other site 640511002866 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 640511002867 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 640511002868 RNase E interface [polypeptide binding]; other site 640511002869 trimer interface [polypeptide binding]; other site 640511002870 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 640511002871 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 640511002872 RNase E interface [polypeptide binding]; other site 640511002873 trimer interface [polypeptide binding]; other site 640511002874 active site 640511002875 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 640511002876 putative nucleic acid binding region [nucleotide binding]; other site 640511002877 G-X-X-G motif; other site 640511002878 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 640511002879 RNA binding site [nucleotide binding]; other site 640511002880 domain interface; other site 640511002881 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 640511002882 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 640511002883 NAD(P) binding site [chemical binding]; other site 640511002884 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 640511002885 triosephosphate isomerase; Provisional; Region: PRK14567 640511002886 substrate binding site [chemical binding]; other site 640511002887 dimer interface [polypeptide binding]; other site 640511002888 catalytic triad [active] 640511002889 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 640511002890 NADH dehydrogenase subunit B; Validated; Region: PRK06411 640511002891 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 640511002892 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 640511002893 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 640511002894 NADH dehydrogenase subunit D; Validated; Region: PRK06075 640511002895 NADH dehydrogenase subunit E; Validated; Region: PRK07539 640511002896 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 640511002897 putative dimer interface [polypeptide binding]; other site 640511002898 [2Fe-2S] cluster binding site [ion binding]; other site 640511002899 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 640511002900 SLBB domain; Region: SLBB; pfam10531 640511002901 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 640511002902 NADH dehydrogenase subunit G; Validated; Region: PRK09129 640511002903 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 640511002904 catalytic loop [active] 640511002905 iron binding site [ion binding]; other site 640511002906 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 640511002907 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 640511002908 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 640511002909 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 640511002910 4Fe-4S binding domain; Region: Fer4; cl02805 640511002911 4Fe-4S binding domain; Region: Fer4; pfam00037 640511002912 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 640511002913 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 640511002914 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 640511002915 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 640511002916 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 640511002917 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 640511002918 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 640511002919 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 640511002920 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 640511002921 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 640511002922 Protein of unknown function (DUF2818); Region: DUF2818; pfam10993 640511002923 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 640511002924 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 640511002925 dimer interface [polypeptide binding]; other site 640511002926 ADP-ribose binding site [chemical binding]; other site 640511002927 active site 640511002928 nudix motif; other site 640511002929 metal binding site [ion binding]; metal-binding site 640511002930 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 640511002931 Protein of unknown function (DUF1178); Region: DUF1178; pfam06676 640511002932 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 640511002933 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 640511002934 FAD binding site [chemical binding]; other site 640511002935 substrate binding site [chemical binding]; other site 640511002936 catalytic base [active] 640511002937 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 640511002938 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 640511002939 active site 640511002940 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 640511002941 putative active site [active] 640511002942 putative catalytic site [active] 640511002943 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 640511002944 putative active site [active] 640511002945 putative catalytic site [active] 640511002946 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 640511002947 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 640511002948 C-terminal domain interface [polypeptide binding]; other site 640511002949 GSH binding site (G-site) [chemical binding]; other site 640511002950 dimer interface [polypeptide binding]; other site 640511002951 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 640511002952 N-terminal domain interface [polypeptide binding]; other site 640511002953 putative dimer interface [polypeptide binding]; other site 640511002954 active site 640511002955 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 640511002956 Acyl-CoA dehydrogenases similar to fadE2; Region: ACAD_FadE2; cd01155 640511002957 FAD binding site [chemical binding]; other site 640511002958 substrate binding site [chemical binding]; other site 640511002959 catalytic base [active] 640511002960 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 640511002961 Phosphotransferase enzyme family; Region: APH; pfam01636 640511002962 putative active site [active] 640511002963 putative substrate binding site [chemical binding]; other site 640511002964 ATP binding site [chemical binding]; other site 640511002965 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 640511002966 catalytic core [active] 640511002967 enoyl-CoA hydratase; Provisional; Region: PRK07511 640511002968 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 640511002969 substrate binding site [chemical binding]; other site 640511002970 oxyanion hole (OAH) forming residues; other site 640511002971 trimer interface [polypeptide binding]; other site 640511002972 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 640511002973 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 640511002974 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 640511002975 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 640511002976 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 640511002977 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 640511002978 C-terminal domain interface [polypeptide binding]; other site 640511002979 GSH binding site (G-site) [chemical binding]; other site 640511002980 dimer interface [polypeptide binding]; other site 640511002981 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 640511002982 N-terminal domain interface [polypeptide binding]; other site 640511002983 dimer interface [polypeptide binding]; other site 640511002984 substrate binding pocket (H-site) [chemical binding]; other site 640511002985 methionine aminotransferase; Validated; Region: PRK09082 640511002986 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 640511002987 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511002988 homodimer interface [polypeptide binding]; other site 640511002989 catalytic residue [active] 640511002990 PIN domain; Region: PIN_3; pfam13470 640511002991 hypothetical protein; Validated; Region: PRK02101 640511002992 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 640511002993 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 640511002994 putative active site [active] 640511002995 Zn binding site [ion binding]; other site 640511002996 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 640511002997 Predicted membrane protein [Function unknown]; Region: COG3235 640511002998 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640511002999 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 640511003000 active site 640511003001 phosphorylation site [posttranslational modification] 640511003002 dimerization interface [polypeptide binding]; other site 640511003003 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 640511003004 DNA binding residues [nucleotide binding] 640511003005 dimerization interface [polypeptide binding]; other site 640511003006 Protein of unknown function (DUF2863); Region: DUF2863; pfam11062 640511003007 Domain of unknown function DUF20; Region: UPF0118; pfam01594 640511003008 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 640511003009 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 640511003010 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 640511003011 INT_SG4, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 4, N- and C-terminal domains. The CD contains mainly predicted bacterial integrase/recombinases for which not much biochemical characterization is available; Region: INT_SG4; cd01187 640511003012 Int/Topo IB signature motif; other site 640511003013 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 640511003014 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 640511003015 NADP binding site [chemical binding]; other site 640511003016 active site 640511003017 putative substrate binding site [chemical binding]; other site 640511003018 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 640511003019 metal-binding site [ion binding] 640511003020 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 640511003021 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 640511003022 DNA binding residues [nucleotide binding] 640511003023 dimer interface [polypeptide binding]; other site 640511003024 copper binding site [ion binding]; other site 640511003025 Protein of unknown function (DUF3563); Region: DUF3563; pfam12086 640511003026 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 640511003027 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 640511003028 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 640511003029 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 640511003030 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 640511003031 active site 640511003032 catalytic tetrad [active] 640511003033 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK13394 640511003034 classical (c) SDRs; Region: SDR_c; cd05233 640511003035 NAD(P) binding site [chemical binding]; other site 640511003036 active site 640511003037 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 640511003038 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 640511003039 nucleophile elbow; other site 640511003040 Patatin phospholipase; Region: DUF3734; pfam12536 640511003041 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 640511003042 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 640511003043 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511003044 homodimer interface [polypeptide binding]; other site 640511003045 catalytic residue [active] 640511003046 excinuclease ABC subunit B; Provisional; Region: PRK05298 640511003047 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 640511003048 ATP binding site [chemical binding]; other site 640511003049 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 640511003050 nucleotide binding region [chemical binding]; other site 640511003051 ATP-binding site [chemical binding]; other site 640511003052 Ultra-violet resistance protein B; Region: UvrB; pfam12344 640511003053 UvrB/uvrC motif; Region: UVR; pfam02151 640511003054 Fe2+ transport protein; Region: Iron_transport; pfam10634 640511003055 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 640511003056 Iron permease FTR1 family; Region: FTR1; cl00475 640511003057 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 640511003058 4Fe-4S binding domain; Region: Fer4_5; pfam12801 640511003059 Hemin uptake protein hemP; Region: hemP; pfam10636 640511003060 DUF1857, an uncharacterized ligand-binding domain of the SRPBCC domain superfamily; Region: SRPBCC_DUF1857; cd08863 640511003061 putative hydrophobic ligand binding site [chemical binding]; other site 640511003062 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 640511003063 Pirin-related protein [General function prediction only]; Region: COG1741 640511003064 Pirin; Region: Pirin; pfam02678 640511003065 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 640511003066 LysR family transcriptional regulator; Provisional; Region: PRK14997 640511003067 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511003068 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 640511003069 putative effector binding pocket; other site 640511003070 putative dimerization interface [polypeptide binding]; other site 640511003071 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 640511003072 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 640511003073 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 640511003074 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 640511003075 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 640511003076 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 640511003077 glutamate racemase; Provisional; Region: PRK00865 640511003078 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 640511003079 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 640511003080 heme binding site [chemical binding]; other site 640511003081 ferroxidase pore; other site 640511003082 ferroxidase diiron center [ion binding]; other site 640511003083 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 640511003084 Fumarase C-terminus; Region: Fumerase_C; pfam05683 640511003085 hypothetical protein; Provisional; Region: PRK05208 640511003086 EamA-like transporter family; Region: EamA; cl17759 640511003087 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 640511003088 EamA-like transporter family; Region: EamA; pfam00892 640511003089 acetyl-CoA synthetase; Provisional; Region: PRK00174 640511003090 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 640511003091 active site 640511003092 CoA binding site [chemical binding]; other site 640511003093 acyl-activating enzyme (AAE) consensus motif; other site 640511003094 AMP binding site [chemical binding]; other site 640511003095 acetate binding site [chemical binding]; other site 640511003096 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 640511003097 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 640511003098 probable sodium:solute symporter, VC_2705 subfamily; Region: Na_symport_lg; TIGR03648 640511003099 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640511003100 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 640511003101 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 640511003102 dimer interface [polypeptide binding]; other site 640511003103 phosphorylation site [posttranslational modification] 640511003104 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511003105 ATP binding site [chemical binding]; other site 640511003106 Mg2+ binding site [ion binding]; other site 640511003107 G-X-G motif; other site 640511003108 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 640511003109 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511003110 active site 640511003111 phosphorylation site [posttranslational modification] 640511003112 intermolecular recognition site; other site 640511003113 dimerization interface [polypeptide binding]; other site 640511003114 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640511003115 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511003116 active site 640511003117 phosphorylation site [posttranslational modification] 640511003118 intermolecular recognition site; other site 640511003119 dimerization interface [polypeptide binding]; other site 640511003120 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 640511003121 DNA binding residues [nucleotide binding] 640511003122 dimerization interface [polypeptide binding]; other site 640511003123 Multisubunit Na+/H+ antiporter, MnhG subunit [Inorganic ion transport and metabolism]; Region: MnhG; COG1320 640511003124 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 640511003125 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 640511003126 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 640511003127 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 640511003128 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 640511003129 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 640511003130 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 640511003131 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 640511003132 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 640511003133 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 640511003134 enterobactin exporter EntS; Provisional; Region: PRK10489 640511003135 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511003136 putative substrate translocation pore; other site 640511003137 L-asparaginase II; Region: Asparaginase_II; pfam06089 640511003138 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 640511003139 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 640511003140 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511003141 active site 640511003142 phosphorylation site [posttranslational modification] 640511003143 intermolecular recognition site; other site 640511003144 dimerization interface [polypeptide binding]; other site 640511003145 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 640511003146 TPR repeat; Region: TPR_11; pfam13414 640511003147 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 640511003148 binding surface 640511003149 TPR motif; other site 640511003150 TPR repeat; Region: TPR_11; pfam13414 640511003151 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 640511003152 binding surface 640511003153 TPR motif; other site 640511003154 TPR repeat; Region: TPR_11; pfam13414 640511003155 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 640511003156 binding surface 640511003157 TPR motif; other site 640511003158 TPR repeat; Region: TPR_11; pfam13414 640511003159 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 640511003160 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 640511003161 active site 640511003162 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 640511003163 catalytic tetrad [active] 640511003164 short chain dehydrogenase; Provisional; Region: PRK12937 640511003165 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 640511003166 NADP binding site [chemical binding]; other site 640511003167 homodimer interface [polypeptide binding]; other site 640511003168 active site 640511003169 substrate binding site [chemical binding]; other site 640511003170 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511003171 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511003172 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 640511003173 putative effector binding pocket; other site 640511003174 putative dimerization interface [polypeptide binding]; other site 640511003175 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; pfam01177 640511003176 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 640511003177 aspartate racemase; Region: asp_race; TIGR00035 640511003178 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 640511003179 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 640511003180 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 640511003181 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640511003182 Walker A/P-loop; other site 640511003183 ATP binding site [chemical binding]; other site 640511003184 Q-loop/lid; other site 640511003185 ABC transporter signature motif; other site 640511003186 Walker B; other site 640511003187 D-loop; other site 640511003188 H-loop/switch region; other site 640511003189 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640511003190 Walker A/P-loop; other site 640511003191 ATP binding site [chemical binding]; other site 640511003192 Q-loop/lid; other site 640511003193 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 640511003194 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 640511003195 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640511003196 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 640511003197 conserved cys residue [active] 640511003198 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511003199 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511003200 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 640511003201 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 640511003202 cellulose synthase regulator protein; Provisional; Region: PRK11114 640511003203 endo-1,4-D-glucanase; Provisional; Region: PRK11097 640511003204 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 640511003205 Protein of unknown function (DUF2819); Region: DUF2819; cl17862 640511003206 cellulose synthase operon protein YhjQ; Region: cellulose_yhjQ; TIGR03371 640511003207 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 640511003208 cellulose synthase catalytic subunit (UDP-forming); Region: CelA; TIGR03030 640511003209 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 640511003210 DXD motif; other site 640511003211 PilZ domain; Region: PilZ; pfam07238 640511003212 cellulose synthase operon protein YhjU; Region: cellulose_yhjU; TIGR03368 640511003213 Lysine efflux permease [General function prediction only]; Region: COG1279 640511003214 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 640511003215 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511003216 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 640511003217 dimerization interface [polypeptide binding]; other site 640511003218 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 640511003219 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511003220 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 640511003221 dimerization interface [polypeptide binding]; other site 640511003222 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 640511003223 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 640511003224 metal binding site [ion binding]; metal-binding site 640511003225 putative dimer interface [polypeptide binding]; other site 640511003226 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511003227 metabolite-proton symporter; Region: 2A0106; TIGR00883 640511003228 putative substrate translocation pore; other site 640511003229 Predicted small integral membrane protein [Function unknown]; Region: COG5605 640511003230 Heme-copper oxidase subunit III subfamily. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane; Region: Heme_Cu_Oxidase_III_1; cd02864 640511003231 Subunit I/III interface [polypeptide binding]; other site 640511003232 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 640511003233 Subunit I/III interface [polypeptide binding]; other site 640511003234 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 640511003235 cytochrome c oxidase, subunit I; Region: CtaD_CoxA; TIGR02891 640511003236 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 640511003237 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 640511003238 Cytochrome c; Region: Cytochrom_C; cl11414 640511003239 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511003240 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640511003241 putative substrate translocation pore; other site 640511003242 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 640511003243 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 640511003244 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 640511003245 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511003246 NAD(P) binding site [chemical binding]; other site 640511003247 active site 640511003248 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511003249 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511003250 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 640511003251 dimerization interface [polypeptide binding]; other site 640511003252 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 640511003253 active sites [active] 640511003254 tetramer interface [polypeptide binding]; other site 640511003255 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 640511003256 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511003257 DNA-binding site [nucleotide binding]; DNA binding site 640511003258 UTRA domain; Region: UTRA; pfam07702 640511003259 urocanate hydratase; Provisional; Region: PRK05414 640511003260 HutD; Region: HutD; pfam05962 640511003261 imidazolonepropionase; Validated; Region: PRK09356 640511003262 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 640511003263 active site 640511003264 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 640511003265 Metallo-dependent hydrolases, subgroup D is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_E; cd01313 640511003266 active site 640511003267 N-formylglutamate amidohydrolase; Region: FGase; cl01522 640511003268 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 640511003269 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 640511003270 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 640511003271 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 640511003272 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 640511003273 dimerization interface [polypeptide binding]; other site 640511003274 ligand binding site [chemical binding]; other site 640511003275 pyridoxamine kinase; Validated; Region: PRK05756 640511003276 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 640511003277 dimer interface [polypeptide binding]; other site 640511003278 pyridoxal binding site [chemical binding]; other site 640511003279 ATP binding site [chemical binding]; other site 640511003280 glycogen synthase; Provisional; Region: glgA; PRK00654 640511003281 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 640511003282 ADP-binding pocket [chemical binding]; other site 640511003283 homodimer interface [polypeptide binding]; other site 640511003284 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 640511003285 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 640511003286 ligand binding site; other site 640511003287 oligomer interface; other site 640511003288 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 640511003289 dimer interface [polypeptide binding]; other site 640511003290 N-terminal domain interface [polypeptide binding]; other site 640511003291 sulfate 1 binding site; other site 640511003292 Alpha/beta hydrolase of unknown function (DUF1057); Region: DUF1057; pfam06342 640511003293 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 640511003294 Domain of unknown function (DUF1803); Region: DUF1803; pfam08820 640511003295 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 640511003296 S-adenosylmethionine binding site [chemical binding]; other site 640511003297 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 640511003298 EamA-like transporter family; Region: EamA; pfam00892 640511003299 EamA-like transporter family; Region: EamA; pfam00892 640511003300 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511003301 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511003302 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 640511003303 putative effector binding pocket; other site 640511003304 dimerization interface [polypeptide binding]; other site 640511003305 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640511003306 classical (c) SDRs; Region: SDR_c; cd05233 640511003307 NAD(P) binding site [chemical binding]; other site 640511003308 active site 640511003309 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 640511003310 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 640511003311 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 640511003312 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 640511003313 Member of the Rhodanese Homology Domain superfamily, repeat 2. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 2nd repeat which does contain the putative catalytic...; Region: 4RHOD_Repeat_2; cd01533 640511003314 active site residue [active] 640511003315 Member of the Rhodanese Homology Domain superfamily, repeat 3. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 3rd repeat which does not contain the putative...; Region: 4RHOD_Repeat_3; cd01534 640511003316 active site residue [active] 640511003317 Member of the Rhodanese Homology Domain superfamily, repeat 4. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 4th repeat which, in general, contains the putative...; Region: 4RHOD_Repeat_4; cd01535 640511003318 active site residue [active] 640511003319 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 640511003320 hypothetical protein; Provisional; Region: PRK10279 640511003321 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 640511003322 active site 640511003323 nucleophile elbow; other site 640511003324 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640511003325 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511003326 dimer interface [polypeptide binding]; other site 640511003327 conserved gate region; other site 640511003328 putative PBP binding loops; other site 640511003329 ABC-ATPase subunit interface; other site 640511003330 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640511003331 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511003332 dimer interface [polypeptide binding]; other site 640511003333 conserved gate region; other site 640511003334 putative PBP binding loops; other site 640511003335 ABC-ATPase subunit interface; other site 640511003336 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 640511003337 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 640511003338 Walker A/P-loop; other site 640511003339 ATP binding site [chemical binding]; other site 640511003340 Q-loop/lid; other site 640511003341 ABC transporter signature motif; other site 640511003342 Walker B; other site 640511003343 D-loop; other site 640511003344 H-loop/switch region; other site 640511003345 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640511003346 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 640511003347 conserved cys residue [active] 640511003348 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511003349 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511003350 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 640511003351 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 640511003352 inhibitor-cofactor binding pocket; inhibition site 640511003353 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511003354 catalytic residue [active] 640511003355 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 640511003356 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 640511003357 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 640511003358 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 640511003359 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 640511003360 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 640511003361 NAD(P) binding site [chemical binding]; other site 640511003362 catalytic residues [active] 640511003363 succinylarginine dihydrolase; Provisional; Region: PRK13281 640511003364 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 640511003365 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 640511003366 putative active site [active] 640511003367 Zn binding site [ion binding]; other site 640511003368 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 640511003369 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 640511003370 substrate binding pocket [chemical binding]; other site 640511003371 membrane-bound complex binding site; other site 640511003372 hinge residues; other site 640511003373 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 640511003374 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cl00290 640511003375 HDOD domain; Region: HDOD; pfam08668 640511003376 PAS domain; Region: PAS_9; pfam13426 640511003377 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 640511003378 putative active site [active] 640511003379 heme pocket [chemical binding]; other site 640511003380 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640511003381 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640511003382 metal binding site [ion binding]; metal-binding site 640511003383 active site 640511003384 I-site; other site 640511003385 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 640511003386 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 640511003387 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 640511003388 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 640511003389 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 640511003390 catalytic triad [active] 640511003391 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 640511003392 Protein export membrane protein; Region: SecD_SecF; cl14618 640511003393 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 640511003394 Protein export membrane protein; Region: SecD_SecF; cl14618 640511003395 HlyD family secretion protein; Region: HlyD; pfam00529 640511003396 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640511003397 HlyD family secretion protein; Region: HlyD_3; pfam13437 640511003398 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 640511003399 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640511003400 Bacterial transcriptional regulator; Region: IclR; pfam01614 640511003401 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511003402 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640511003403 putative substrate translocation pore; other site 640511003404 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 640511003405 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511003406 active site 640511003407 phosphorylation site [posttranslational modification] 640511003408 intermolecular recognition site; other site 640511003409 dimerization interface [polypeptide binding]; other site 640511003410 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 640511003411 DNA binding residues [nucleotide binding] 640511003412 dimerization interface [polypeptide binding]; other site 640511003413 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 640511003414 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 640511003415 putative active site [active] 640511003416 heme pocket [chemical binding]; other site 640511003417 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 640511003418 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 640511003419 putative active site [active] 640511003420 heme pocket [chemical binding]; other site 640511003421 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 640511003422 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 640511003423 putative active site [active] 640511003424 heme pocket [chemical binding]; other site 640511003425 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 640511003426 dimer interface [polypeptide binding]; other site 640511003427 phosphorylation site [posttranslational modification] 640511003428 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511003429 ATP binding site [chemical binding]; other site 640511003430 Mg2+ binding site [ion binding]; other site 640511003431 G-X-G motif; other site 640511003432 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 640511003433 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511003434 active site 640511003435 phosphorylation site [posttranslational modification] 640511003436 intermolecular recognition site; other site 640511003437 dimerization interface [polypeptide binding]; other site 640511003438 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 640511003439 dimerization interface [polypeptide binding]; other site 640511003440 DNA binding residues [nucleotide binding] 640511003441 Response regulator receiver domain; Region: Response_reg; pfam00072 640511003442 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511003443 active site 640511003444 phosphorylation site [posttranslational modification] 640511003445 intermolecular recognition site; other site 640511003446 dimerization interface [polypeptide binding]; other site 640511003447 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 640511003448 BON domain; Region: BON; pfam04972 640511003449 amidase; Provisional; Region: PRK07487 640511003450 Amidase; Region: Amidase; cl11426 640511003451 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 640511003452 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640511003453 NAD binding site [chemical binding]; other site 640511003454 catalytic residues [active] 640511003455 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 640511003456 homotrimer interaction site [polypeptide binding]; other site 640511003457 putative active site [active] 640511003458 chromosome condensation membrane protein; Provisional; Region: PRK14196 640511003459 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 640511003460 CHASE3 domain; Region: CHASE3; pfam05227 640511003461 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640511003462 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 640511003463 dimer interface [polypeptide binding]; other site 640511003464 phosphorylation site [posttranslational modification] 640511003465 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511003466 ATP binding site [chemical binding]; other site 640511003467 Mg2+ binding site [ion binding]; other site 640511003468 G-X-G motif; other site 640511003469 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 640511003470 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 640511003471 DNA binding site [nucleotide binding] 640511003472 Predicted integral membrane protein [Function unknown]; Region: COG5616 640511003473 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 640511003474 TPR motif; other site 640511003475 TPR repeat; Region: TPR_11; pfam13414 640511003476 binding surface 640511003477 TPR repeat; Region: TPR_11; pfam13414 640511003478 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 640511003479 binding surface 640511003480 TPR motif; other site 640511003481 NADH(P)-binding; Region: NAD_binding_10; pfam13460 640511003482 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511003483 NAD(P) binding site [chemical binding]; other site 640511003484 active site 640511003485 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 640511003486 Uncharacterized conserved protein [Function unknown]; Region: COG2128 640511003487 Cupin domain; Region: Cupin_2; pfam07883 640511003488 short chain dehydrogenase; Provisional; Region: PRK06180 640511003489 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 640511003490 NADP binding site [chemical binding]; other site 640511003491 active site 640511003492 steroid binding site; other site 640511003493 Predicted transcriptional regulator [Transcription]; Region: COG1959 640511003494 Transcriptional regulator; Region: Rrf2; pfam02082 640511003495 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 640511003496 NADH(P)-binding; Region: NAD_binding_10; pfam13460 640511003497 NAD binding site [chemical binding]; other site 640511003498 substrate binding site [chemical binding]; other site 640511003499 putative active site [active] 640511003500 Mechanosensitive ion channel; Region: MS_channel; pfam00924 640511003501 Cysteine dioxygenase type I; Region: CDO_I; pfam05995 640511003502 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 640511003503 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 640511003504 putative DNA binding site [nucleotide binding]; other site 640511003505 putative Zn2+ binding site [ion binding]; other site 640511003506 AsnC family; Region: AsnC_trans_reg; pfam01037 640511003507 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 640511003508 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 640511003509 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 640511003510 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 640511003511 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 640511003512 Family description; Region: UvrD_C_2; pfam13538 640511003513 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 640511003514 AAA domain; Region: AAA_30; pfam13604 640511003515 Family description; Region: UvrD_C_2; pfam13538 640511003516 hypothetical protein; Provisional; Region: PRK09256 640511003517 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 640511003518 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 640511003519 Uncharacterized conserved protein [Function unknown]; Region: COG1359 640511003520 Uncharacterized conserved protein [Function unknown]; Region: COG1434 640511003521 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 640511003522 putative active site [active] 640511003523 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 640511003524 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511003525 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511003526 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 640511003527 putative dimerization interface [polypeptide binding]; other site 640511003528 aspartate aminotransferase; Provisional; Region: PRK06108 640511003529 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 640511003530 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511003531 homodimer interface [polypeptide binding]; other site 640511003532 catalytic residue [active] 640511003533 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 640511003534 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 640511003535 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 640511003536 RNA binding surface [nucleotide binding]; other site 640511003537 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 640511003538 probable active site [active] 640511003539 ribosome maturation protein RimP; Reviewed; Region: PRK00092 640511003540 Sm and related proteins; Region: Sm_like; cl00259 640511003541 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 640511003542 putative oligomer interface [polypeptide binding]; other site 640511003543 putative RNA binding site [nucleotide binding]; other site 640511003544 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 640511003545 NusA N-terminal domain; Region: NusA_N; pfam08529 640511003546 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 640511003547 RNA binding site [nucleotide binding]; other site 640511003548 homodimer interface [polypeptide binding]; other site 640511003549 NusA-like KH domain; Region: KH_5; pfam13184 640511003550 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 640511003551 G-X-X-G motif; other site 640511003552 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 640511003553 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 640511003554 translation initiation factor IF-2; Region: IF-2; TIGR00487 640511003555 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 640511003556 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 640511003557 G1 box; other site 640511003558 putative GEF interaction site [polypeptide binding]; other site 640511003559 GTP/Mg2+ binding site [chemical binding]; other site 640511003560 Switch I region; other site 640511003561 G2 box; other site 640511003562 G3 box; other site 640511003563 Switch II region; other site 640511003564 G4 box; other site 640511003565 G5 box; other site 640511003566 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 640511003567 Translation-initiation factor 2; Region: IF-2; pfam11987 640511003568 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 640511003569 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 640511003570 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 640511003571 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 640511003572 RNA binding site [nucleotide binding]; other site 640511003573 active site 640511003574 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 640511003575 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 640511003576 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511003577 putative substrate translocation pore; other site 640511003578 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511003579 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 640511003580 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640511003581 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 640511003582 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640511003583 Transcriptional regulators [Transcription]; Region: MarR; COG1846 640511003584 MarR family; Region: MarR_2; pfam12802 640511003585 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 640511003586 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 640511003587 G1 box; other site 640511003588 putative GEF interaction site [polypeptide binding]; other site 640511003589 GTP/Mg2+ binding site [chemical binding]; other site 640511003590 Switch I region; other site 640511003591 G2 box; other site 640511003592 G3 box; other site 640511003593 Switch II region; other site 640511003594 G4 box; other site 640511003595 G5 box; other site 640511003596 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 640511003597 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 640511003598 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 640511003599 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 640511003600 TPP-binding site [chemical binding]; other site 640511003601 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 640511003602 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 640511003603 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 640511003604 E3 interaction surface; other site 640511003605 lipoyl attachment site [posttranslational modification]; other site 640511003606 e3 binding domain; Region: E3_binding; pfam02817 640511003607 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 640511003608 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 640511003609 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640511003610 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 640511003611 Predicted ATPase [General function prediction only]; Region: COG1485 640511003612 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640511003613 Walker B; other site 640511003614 D-loop; other site 640511003615 H-loop/switch region; other site 640511003616 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 640511003617 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 640511003618 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 640511003619 bacterial Hfq-like; Region: Hfq; cd01716 640511003620 hexamer interface [polypeptide binding]; other site 640511003621 Sm1 motif; other site 640511003622 RNA binding site [nucleotide binding]; other site 640511003623 Sm2 motif; other site 640511003624 RNA polymerase sigma factor; Provisional; Region: PRK12547 640511003625 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640511003626 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 640511003627 DNA binding residues [nucleotide binding] 640511003628 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 640511003629 Putative zinc-finger; Region: zf-HC2; pfam13490 640511003630 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 640511003631 FAD binding domain; Region: FAD_binding_4; pfam01565 640511003632 Protein of unknown function (DUF1571); Region: DUF1571; pfam07608 640511003633 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 640511003634 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 640511003635 acyl-activating enzyme (AAE) consensus motif; other site 640511003636 putative AMP binding site [chemical binding]; other site 640511003637 putative active site [active] 640511003638 putative CoA binding site [chemical binding]; other site 640511003639 acetyl-CoA acetyltransferase; Provisional; Region: PRK09268 640511003640 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 640511003641 dimer interface [polypeptide binding]; other site 640511003642 active site 640511003643 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 640511003644 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08261 640511003645 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511003646 NAD(P) binding site [chemical binding]; other site 640511003647 active site 640511003648 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 640511003649 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640511003650 active site 640511003651 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 640511003652 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640511003653 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640511003654 putative sialic acid transporter; Region: 2A0112; TIGR00891 640511003655 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511003656 putative substrate translocation pore; other site 640511003657 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 640511003658 D-inositol-3-phosphate glycosyltransferase; Region: mycothiol_MshA; TIGR03449 640511003659 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 640511003660 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 640511003661 membrane-bound complex binding site; other site 640511003662 hinge residues; other site 640511003663 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 640511003664 dimer interface [polypeptide binding]; other site 640511003665 phosphorylation site [posttranslational modification] 640511003666 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 640511003667 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511003668 ATP binding site [chemical binding]; other site 640511003669 Mg2+ binding site [ion binding]; other site 640511003670 G-X-G motif; other site 640511003671 Response regulator receiver domain; Region: Response_reg; pfam00072 640511003672 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511003673 active site 640511003674 phosphorylation site [posttranslational modification] 640511003675 intermolecular recognition site; other site 640511003676 dimerization interface [polypeptide binding]; other site 640511003677 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640511003678 short chain dehydrogenase; Provisional; Region: PRK07478 640511003679 classical (c) SDRs; Region: SDR_c; cd05233 640511003680 NAD(P) binding site [chemical binding]; other site 640511003681 active site 640511003682 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511003683 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511003684 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 640511003685 putative effector binding pocket; other site 640511003686 dimerization interface [polypeptide binding]; other site 640511003687 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 640511003688 Domain of unknown function (DUF336); Region: DUF336; cl01249 640511003689 SnoaL-like domain; Region: SnoaL_3; pfam13474 640511003690 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 640511003691 Uncharacterized conserved protein [Function unknown]; Region: COG3791 640511003692 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 640511003693 Domain of unknown function DUF20; Region: UPF0118; pfam01594 640511003694 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 640511003695 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 640511003696 multidrug resistance protein MdtN; Provisional; Region: PRK10476 640511003697 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640511003698 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 640511003699 HlyD family secretion protein; Region: HlyD_3; pfam13437 640511003700 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 640511003701 Ion channel; Region: Ion_trans_2; pfam07885 640511003702 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 640511003703 Clp amino terminal domain; Region: Clp_N; pfam02861 640511003704 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 640511003705 Walker A motif; other site 640511003706 ATP binding site [chemical binding]; other site 640511003707 Walker B motif; other site 640511003708 arginine finger; other site 640511003709 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 640511003710 Walker A motif; other site 640511003711 ATP binding site [chemical binding]; other site 640511003712 Walker B motif; other site 640511003713 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 640511003714 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 640511003715 SnoaL-like domain; Region: SnoaL_3; pfam13474 640511003716 Type II secretory pathway, pullulanase PulA and related glycosidases [Carbohydrate transport and metabolism]; Region: PulA; COG1523 640511003717 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 640511003718 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 640511003719 active site 640511003720 catalytic site [active] 640511003721 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 640511003722 homodimer interface [polypeptide binding]; other site 640511003723 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 640511003724 active site pocket [active] 640511003725 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 640511003726 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 640511003727 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 640511003728 putative active site [active] 640511003729 putative PHP Thumb interface [polypeptide binding]; other site 640511003730 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 640511003731 generic binding surface I; other site 640511003732 generic binding surface II; other site 640511003733 DNA Polymerase Y-family; Region: PolY_like; cd03468 640511003734 active site 640511003735 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 640511003736 DNA binding site [nucleotide binding] 640511003737 Uncharacterized conserved protein [Function unknown]; Region: COG3791 640511003738 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511003739 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511003740 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 640511003741 putative dimerization interface [polypeptide binding]; other site 640511003742 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 640511003743 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 640511003744 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 640511003745 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 640511003746 citrate-proton symporter; Provisional; Region: PRK15075 640511003747 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511003748 putative substrate translocation pore; other site 640511003749 Succinyl-CoA synthetase, alpha subunit [Energy production and conversion]; Region: SucD; COG0074 640511003750 CoA binding domain; Region: CoA_binding; cl17356 640511003751 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 640511003752 oxalacetate binding site [chemical binding]; other site 640511003753 citrylCoA binding site [chemical binding]; other site 640511003754 coenzyme A binding site [chemical binding]; other site 640511003755 catalytic triad [active] 640511003756 Uncharacterized conserved protein [Function unknown]; Region: COG3791 640511003757 High potential iron-sulfur protein; Region: HIPIP; pfam01355 640511003758 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 640511003759 substrate binding pocket [chemical binding]; other site 640511003760 membrane-bound complex binding site; other site 640511003761 hinge residues; other site 640511003762 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 640511003763 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 640511003764 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 640511003765 dimer interface [polypeptide binding]; other site 640511003766 Trp docking motif [polypeptide binding]; other site 640511003767 active site 640511003768 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 640511003769 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 640511003770 Walker A motif; other site 640511003771 ATP binding site [chemical binding]; other site 640511003772 Walker B motif; other site 640511003773 arginine finger; other site 640511003774 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 640511003775 coenzyme PQQ biosynthesis protein PqqD; Region: PQQ_PqqD; TIGR03859 640511003776 short chain dehydrogenase; Provisional; Region: PRK06500 640511003777 classical (c) SDRs; Region: SDR_c; cd05233 640511003778 NAD(P) binding site [chemical binding]; other site 640511003779 active site 640511003780 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 640511003781 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511003782 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 640511003783 dimerization interface [polypeptide binding]; other site 640511003784 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511003785 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640511003786 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511003787 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 640511003788 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511003789 short chain dehydrogenase; Provisional; Region: PRK07041 640511003790 NAD(P) binding site [chemical binding]; other site 640511003791 active site 640511003792 short chain dehydrogenase; Provisional; Region: PRK06197 640511003793 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 640511003794 putative NAD(P) binding site [chemical binding]; other site 640511003795 active site 640511003796 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 640511003797 TIR domain; Region: TIR_2; pfam13676 640511003798 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640511003799 Walker A/P-loop; other site 640511003800 ATP binding site [chemical binding]; other site 640511003801 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 640511003802 structural tetrad; other site 640511003803 PQQ-like domain; Region: PQQ_2; pfam13360 640511003804 FOG: WD40 repeat [General function prediction only]; Region: COG2319 640511003805 WD40 repeats; Region: WD40; smart00320 640511003806 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 640511003807 structural tetrad; other site 640511003808 4Fe-4S single cluster domain; Region: Fer4_13; pfam13370 640511003809 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 640511003810 ribonuclease R; Region: RNase_R; TIGR02063 640511003811 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 640511003812 RNB domain; Region: RNB; pfam00773 640511003813 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 640511003814 RNA binding site [nucleotide binding]; other site 640511003815 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 640511003816 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 640511003817 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 640511003818 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 640511003819 tetramer (dimer of dimers) interface [polypeptide binding]; other site 640511003820 active site 640511003821 dimer interface [polypeptide binding]; other site 640511003822 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640511003823 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 640511003824 putative ADP-binding pocket [chemical binding]; other site 640511003825 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 640511003826 non-specific DNA binding site [nucleotide binding]; other site 640511003827 salt bridge; other site 640511003828 sequence-specific DNA binding site [nucleotide binding]; other site 640511003829 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 640511003830 Bacterial sugar transferase; Region: Bac_transf; pfam02397 640511003831 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 640511003832 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 640511003833 ligand binding site [chemical binding]; other site 640511003834 flexible hinge region; other site 640511003835 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 640511003836 non-specific DNA interactions [nucleotide binding]; other site 640511003837 DNA binding site [nucleotide binding] 640511003838 sequence specific DNA binding site [nucleotide binding]; other site 640511003839 putative cAMP binding site [chemical binding]; other site 640511003840 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 640511003841 Domain of unknown function (DUF1839); Region: DUF1839; pfam08893 640511003842 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 640511003843 motif 1; other site 640511003844 dimer interface [polypeptide binding]; other site 640511003845 active site 640511003846 motif 2; other site 640511003847 motif 3; other site 640511003848 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 640511003849 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 640511003850 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640511003851 acyl carrier protein; Provisional; Region: PRK07081 640511003852 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 640511003853 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 640511003854 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 640511003855 exosortase A system-associated hydrolase 1; Region: hydr1_PEP; TIGR03100 640511003856 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 640511003857 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 640511003858 active site 640511003859 Cupin domain; Region: Cupin_2; cl17218 640511003860 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 640511003861 Transcriptional regulators [Transcription]; Region: FadR; COG2186 640511003862 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511003863 DNA-binding site [nucleotide binding]; DNA binding site 640511003864 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 640511003865 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 640511003866 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 640511003867 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511003868 dimer interface [polypeptide binding]; other site 640511003869 conserved gate region; other site 640511003870 putative PBP binding loops; other site 640511003871 ABC-ATPase subunit interface; other site 640511003872 cystine transporter subunit; Provisional; Region: PRK11260 640511003873 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 640511003874 substrate binding pocket [chemical binding]; other site 640511003875 membrane-bound complex binding site; other site 640511003876 hinge residues; other site 640511003877 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 640511003878 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 640511003879 quinone interaction residues [chemical binding]; other site 640511003880 active site 640511003881 catalytic residues [active] 640511003882 FMN binding site [chemical binding]; other site 640511003883 substrate binding site [chemical binding]; other site 640511003884 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 640511003885 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 640511003886 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 640511003887 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 640511003888 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 640511003889 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 640511003890 nudix motif; other site 640511003891 hypothetical protein; Provisional; Region: PRK02487 640511003892 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 640511003893 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 640511003894 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 640511003895 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511003896 NAD(P) binding site [chemical binding]; other site 640511003897 active site 640511003898 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640511003899 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640511003900 WHG domain; Region: WHG; pfam13305 640511003901 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 640511003902 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 640511003903 substrate binding site [chemical binding]; other site 640511003904 oxyanion hole (OAH) forming residues; other site 640511003905 trimer interface [polypeptide binding]; other site 640511003906 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 640511003907 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 640511003908 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 640511003909 active site 640511003910 dimer interface [polypeptide binding]; other site 640511003911 non-prolyl cis peptide bond; other site 640511003912 insertion regions; other site 640511003913 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 640511003914 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511003915 dimer interface [polypeptide binding]; other site 640511003916 conserved gate region; other site 640511003917 putative PBP binding loops; other site 640511003918 ABC-ATPase subunit interface; other site 640511003919 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640511003920 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 640511003921 Walker A/P-loop; other site 640511003922 ATP binding site [chemical binding]; other site 640511003923 Q-loop/lid; other site 640511003924 ABC transporter signature motif; other site 640511003925 Walker B; other site 640511003926 D-loop; other site 640511003927 H-loop/switch region; other site 640511003928 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 640511003929 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 640511003930 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 640511003931 FMN binding site [chemical binding]; other site 640511003932 active site 640511003933 catalytic residues [active] 640511003934 substrate binding site [chemical binding]; other site 640511003935 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 640511003936 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 640511003937 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 640511003938 active site 640511003939 catalytic tetrad [active] 640511003940 hypothetical protein; Provisional; Region: PRK07079 640511003941 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_2; cd05679 640511003942 metal binding site [ion binding]; metal-binding site 640511003943 putative dimer interface [polypeptide binding]; other site 640511003944 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511003945 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511003946 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 640511003947 dimerization interface [polypeptide binding]; other site 640511003948 ABC-2 type transporter; Region: ABC2_membrane; cl17235 640511003949 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 640511003950 nodulation ABC transporter NodI; Provisional; Region: PRK13537 640511003951 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 640511003952 Walker A/P-loop; other site 640511003953 ATP binding site [chemical binding]; other site 640511003954 Q-loop/lid; other site 640511003955 ABC transporter signature motif; other site 640511003956 Walker B; other site 640511003957 D-loop; other site 640511003958 H-loop/switch region; other site 640511003959 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 640511003960 Ligand Binding Site [chemical binding]; other site 640511003961 Protein of unknown function (DUF2939); Region: DUF2939; pfam11159 640511003962 LexA repressor; Validated; Region: PRK00215 640511003963 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 640511003964 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 640511003965 Catalytic site [active] 640511003966 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 640511003967 substrate binding pocket [chemical binding]; other site 640511003968 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 640511003969 membrane-bound complex binding site; other site 640511003970 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 640511003971 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511003972 dimer interface [polypeptide binding]; other site 640511003973 conserved gate region; other site 640511003974 putative PBP binding loops; other site 640511003975 ABC-ATPase subunit interface; other site 640511003976 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511003977 dimer interface [polypeptide binding]; other site 640511003978 conserved gate region; other site 640511003979 putative PBP binding loops; other site 640511003980 ABC-ATPase subunit interface; other site 640511003981 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 640511003982 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 640511003983 Walker A/P-loop; other site 640511003984 ATP binding site [chemical binding]; other site 640511003985 Q-loop/lid; other site 640511003986 ABC transporter signature motif; other site 640511003987 Walker B; other site 640511003988 D-loop; other site 640511003989 H-loop/switch region; other site 640511003990 TOBE-like domain; Region: TOBE_3; pfam12857 640511003991 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12683 640511003992 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511003993 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 640511003994 substrate binding site [chemical binding]; other site 640511003995 dimerization interface [polypeptide binding]; other site 640511003996 Haemagglutinin; Region: HIM; pfam05662 640511003997 YadA-like C-terminal region; Region: YadA; pfam03895 640511003998 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 640511003999 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 640511004000 active site 640511004001 homotetramer interface [polypeptide binding]; other site 640511004002 homodimer interface [polypeptide binding]; other site 640511004003 tartronate semialdehyde reductase; Provisional; Region: PRK15059 640511004004 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 640511004005 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 640511004006 glyoxylate carboligase; Provisional; Region: PRK11269 640511004007 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 640511004008 PYR/PP interface [polypeptide binding]; other site 640511004009 dimer interface [polypeptide binding]; other site 640511004010 TPP binding site [chemical binding]; other site 640511004011 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 640511004012 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 640511004013 TPP-binding site [chemical binding]; other site 640511004014 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511004015 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511004016 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 640511004017 putative effector binding pocket; other site 640511004018 dimerization interface [polypeptide binding]; other site 640511004019 RNA polymerase sigma factor; Provisional; Region: PRK12533 640511004020 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640511004021 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 640511004022 DNA binding residues [nucleotide binding] 640511004023 Putative zinc-finger; Region: zf-HC2; pfam13490 640511004024 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 640511004025 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 640511004026 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 640511004027 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 640511004028 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 640511004029 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 640511004030 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 640511004031 replicative DNA helicase; Provisional; Region: PRK07004 640511004032 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 640511004033 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 640511004034 Walker A motif; other site 640511004035 ATP binding site [chemical binding]; other site 640511004036 Walker B motif; other site 640511004037 DNA binding loops [nucleotide binding] 640511004038 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 640511004039 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 640511004040 short chain dehydrogenase; Provisional; Region: PRK06125 640511004041 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511004042 NAD(P) binding site [chemical binding]; other site 640511004043 active site 640511004044 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 640511004045 NlpC/P60 family; Region: NLPC_P60; pfam00877 640511004046 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 640511004047 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 640511004048 putative active site [active] 640511004049 PhoH-like protein; Region: PhoH; pfam02562 640511004050 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 640511004051 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 640511004052 catalytic triad [active] 640511004053 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 640511004054 Catalytic domain of Escherichia coli 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD and other bacterial homologs; Region: CE4_ArnD; cd10939 640511004055 putative active site [active] 640511004056 putative catalytic site [active] 640511004057 putative Zn binding site [ion binding]; other site 640511004058 NAD-dependent epimerase/dehydratase family protein; Provisional; Region: PRK11908 640511004059 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 640511004060 NAD binding site [chemical binding]; other site 640511004061 substrate binding site [chemical binding]; other site 640511004062 active site 640511004063 putative formyltransferase; Provisional; Region: PRK06988 640511004064 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 640511004065 active site 640511004066 substrate binding site [chemical binding]; other site 640511004067 cosubstrate binding site; other site 640511004068 catalytic site [active] 640511004069 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 640511004070 active site 640511004071 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 640511004072 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 640511004073 Ligand binding site; other site 640511004074 Putative Catalytic site; other site 640511004075 DXD motif; other site 640511004076 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 640511004077 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 640511004078 inhibitor-cofactor binding pocket; inhibition site 640511004079 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511004080 catalytic residue [active] 640511004081 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 640511004082 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 640511004083 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 640511004084 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 640511004085 aminotransferase AlaT; Validated; Region: PRK09265 640511004086 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 640511004087 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511004088 homodimer interface [polypeptide binding]; other site 640511004089 catalytic residue [active] 640511004090 homoserine dehydrogenase; Provisional; Region: PRK06349 640511004091 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 640511004092 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 640511004093 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 640511004094 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 640511004095 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 640511004096 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511004097 catalytic residue [active] 640511004098 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 640511004099 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 640511004100 dimer interface [polypeptide binding]; other site 640511004101 putative functional site; other site 640511004102 putative MPT binding site; other site 640511004103 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 640511004104 MoaE interaction surface [polypeptide binding]; other site 640511004105 MoeB interaction surface [polypeptide binding]; other site 640511004106 thiocarboxylated glycine; other site 640511004107 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 640511004108 MoaE homodimer interface [polypeptide binding]; other site 640511004109 MoaD interaction [polypeptide binding]; other site 640511004110 active site residues [active] 640511004111 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 640511004112 apolar tunnel; other site 640511004113 heme binding site [chemical binding]; other site 640511004114 dimerization interface [polypeptide binding]; other site 640511004115 Transcriptional regulator; Region: Rrf2; cl17282 640511004116 Rrf2 family protein; Region: rrf2_super; TIGR00738 640511004117 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 640511004118 Clp amino terminal domain; Region: Clp_N; pfam02861 640511004119 Clp amino terminal domain; Region: Clp_N; pfam02861 640511004120 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 640511004121 Walker A motif; other site 640511004122 ATP binding site [chemical binding]; other site 640511004123 Walker B motif; other site 640511004124 arginine finger; other site 640511004125 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 640511004126 Walker A motif; other site 640511004127 ATP binding site [chemical binding]; other site 640511004128 Walker B motif; other site 640511004129 arginine finger; other site 640511004130 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 640511004131 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 640511004132 DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]; Region: ComEA; COG1555 640511004133 multidrug efflux protein; Reviewed; Region: PRK01766 640511004134 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 640511004135 cation binding site [ion binding]; other site 640511004136 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 640511004137 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 640511004138 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 640511004139 transcription termination factor Rho; Provisional; Region: rho; PRK09376 640511004140 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 640511004141 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 640511004142 RNA binding site [nucleotide binding]; other site 640511004143 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 640511004144 multimer interface [polypeptide binding]; other site 640511004145 Walker A motif; other site 640511004146 ATP binding site [chemical binding]; other site 640511004147 Walker B motif; other site 640511004148 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 640511004149 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 640511004150 catalytic residues [active] 640511004151 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07003 640511004152 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 640511004153 Walker A motif; other site 640511004154 ATP binding site [chemical binding]; other site 640511004155 Walker B motif; other site 640511004156 arginine finger; other site 640511004157 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 640511004158 hypothetical protein; Validated; Region: PRK00153 640511004159 recombination protein RecR; Reviewed; Region: recR; PRK00076 640511004160 RecR protein; Region: RecR; pfam02132 640511004161 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 640511004162 putative active site [active] 640511004163 putative metal-binding site [ion binding]; other site 640511004164 tetramer interface [polypeptide binding]; other site 640511004165 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 640511004166 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640511004167 NMT1-like family; Region: NMT1_2; pfam13379 640511004168 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 640511004169 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 640511004170 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 640511004171 Walker A/P-loop; other site 640511004172 ATP binding site [chemical binding]; other site 640511004173 Q-loop/lid; other site 640511004174 ABC transporter signature motif; other site 640511004175 Walker B; other site 640511004176 D-loop; other site 640511004177 H-loop/switch region; other site 640511004178 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 640511004179 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511004180 dimer interface [polypeptide binding]; other site 640511004181 conserved gate region; other site 640511004182 putative PBP binding loops; other site 640511004183 ABC-ATPase subunit interface; other site 640511004184 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 640511004185 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 640511004186 NAD(P) binding site [chemical binding]; other site 640511004187 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 640511004188 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 640511004189 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 640511004190 S-adenosylmethionine binding site [chemical binding]; other site 640511004191 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 640511004192 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 640511004193 Peptidase family M23; Region: Peptidase_M23; pfam01551 640511004194 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 640511004195 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 640511004196 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640511004197 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 640511004198 DNA binding residues [nucleotide binding] 640511004199 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 640511004200 active site 640511004201 catalytic site [active] 640511004202 substrate binding site [chemical binding]; other site 640511004203 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 640511004204 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 640511004205 TRAM domain; Region: TRAM; cl01282 640511004206 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 640511004207 S-adenosylmethionine binding site [chemical binding]; other site 640511004208 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 640511004209 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 640511004210 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 640511004211 RNA binding surface [nucleotide binding]; other site 640511004212 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 640511004213 active site 640511004214 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 640511004215 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 640511004216 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 640511004217 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 640511004218 putative acyltransferase; Provisional; Region: PRK05790 640511004219 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 640511004220 dimer interface [polypeptide binding]; other site 640511004221 active site 640511004222 acetyacetyl-CoA reductase; Provisional; Region: PRK12938 640511004223 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 640511004224 NAD(P) binding site [chemical binding]; other site 640511004225 homotetramer interface [polypeptide binding]; other site 640511004226 homodimer interface [polypeptide binding]; other site 640511004227 active site 640511004228 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 640511004229 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 640511004230 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 640511004231 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 640511004232 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 640511004233 FMN binding site [chemical binding]; other site 640511004234 active site 640511004235 catalytic residues [active] 640511004236 substrate binding site [chemical binding]; other site 640511004237 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 640511004238 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 640511004239 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 640511004240 FeS/SAM binding site; other site 640511004241 TRAM domain; Region: TRAM; cl01282 640511004242 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 640511004243 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 640511004244 substrate binding site [chemical binding]; other site 640511004245 ATP binding site [chemical binding]; other site 640511004246 beta-ketothiolase; Provisional; Region: PRK09051 640511004247 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 640511004248 dimer interface [polypeptide binding]; other site 640511004249 active site 640511004250 cystathionine beta-lyase; Provisional; Region: PRK07050 640511004251 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 640511004252 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640511004253 catalytic residue [active] 640511004254 Domain of unknown function (DUF4072); Region: DUF4072; pfam13284 640511004255 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 640511004256 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 640511004257 motif II; other site 640511004258 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 640511004259 Cytochrome P450; Region: p450; cl12078 640511004260 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 640511004261 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 640511004262 putative DNA binding site [nucleotide binding]; other site 640511004263 putative homodimer interface [polypeptide binding]; other site 640511004264 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 640511004265 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 640511004266 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 640511004267 active site 640511004268 DNA binding site [nucleotide binding] 640511004269 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 640511004270 DNA binding site [nucleotide binding] 640511004271 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 640511004272 nucleotide binding site [chemical binding]; other site 640511004273 transcriptional activator TtdR; Provisional; Region: PRK09801 640511004274 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511004275 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 640511004276 putative effector binding pocket; other site 640511004277 dimerization interface [polypeptide binding]; other site 640511004278 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 640511004279 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 640511004280 putative NAD(P) binding site [chemical binding]; other site 640511004281 dimer interface [polypeptide binding]; other site 640511004282 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 640511004283 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4619 640511004284 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640511004285 Walker A/P-loop; other site 640511004286 ATP binding site [chemical binding]; other site 640511004287 Q-loop/lid; other site 640511004288 ABC transporter signature motif; other site 640511004289 Walker B; other site 640511004290 D-loop; other site 640511004291 H-loop/switch region; other site 640511004292 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 640511004293 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 640511004294 CHASE3 domain; Region: CHASE3; pfam05227 640511004295 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640511004296 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511004297 ATP binding site [chemical binding]; other site 640511004298 Mg2+ binding site [ion binding]; other site 640511004299 G-X-G motif; other site 640511004300 Response regulator receiver domain; Region: Response_reg; pfam00072 640511004301 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511004302 active site 640511004303 phosphorylation site [posttranslational modification] 640511004304 intermolecular recognition site; other site 640511004305 dimerization interface [polypeptide binding]; other site 640511004306 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 640511004307 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511004308 active site 640511004309 phosphorylation site [posttranslational modification] 640511004310 intermolecular recognition site; other site 640511004311 dimerization interface [polypeptide binding]; other site 640511004312 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 640511004313 PAS fold; Region: PAS_3; pfam08447 640511004314 putative active site [active] 640511004315 heme pocket [chemical binding]; other site 640511004316 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640511004317 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 640511004318 dimer interface [polypeptide binding]; other site 640511004319 phosphorylation site [posttranslational modification] 640511004320 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511004321 ATP binding site [chemical binding]; other site 640511004322 Mg2+ binding site [ion binding]; other site 640511004323 G-X-G motif; other site 640511004324 Response regulator receiver domain; Region: Response_reg; pfam00072 640511004325 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511004326 active site 640511004327 phosphorylation site [posttranslational modification] 640511004328 intermolecular recognition site; other site 640511004329 dimerization interface [polypeptide binding]; other site 640511004330 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 640511004331 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 640511004332 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 640511004333 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 640511004334 tetramer interface [polypeptide binding]; other site 640511004335 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511004336 catalytic residue [active] 640511004337 acetylornithine deacetylase; Provisional; Region: PRK07522 640511004338 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 640511004339 metal binding site [ion binding]; metal-binding site 640511004340 putative dimer interface [polypeptide binding]; other site 640511004341 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 640511004342 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 640511004343 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 640511004344 ATP binding site [chemical binding]; other site 640511004345 putative Mg++ binding site [ion binding]; other site 640511004346 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 640511004347 nucleotide binding region [chemical binding]; other site 640511004348 ATP-binding site [chemical binding]; other site 640511004349 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 640511004350 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 640511004351 substrate binding site; other site 640511004352 dimer interface; other site 640511004353 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 640511004354 homotrimer interaction site [polypeptide binding]; other site 640511004355 zinc binding site [ion binding]; other site 640511004356 CDP-binding sites; other site 640511004357 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 640511004358 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 640511004359 dimer interface [polypeptide binding]; other site 640511004360 decamer (pentamer of dimers) interface [polypeptide binding]; other site 640511004361 catalytic triad [active] 640511004362 peroxidatic and resolving cysteines [active] 640511004363 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 640511004364 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 640511004365 dimer interface [polypeptide binding]; other site 640511004366 phosphorylation site [posttranslational modification] 640511004367 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511004368 ATP binding site [chemical binding]; other site 640511004369 Mg2+ binding site [ion binding]; other site 640511004370 G-X-G motif; other site 640511004371 osmolarity response regulator; Provisional; Region: ompR; PRK09468 640511004372 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511004373 active site 640511004374 phosphorylation site [posttranslational modification] 640511004375 intermolecular recognition site; other site 640511004376 dimerization interface [polypeptide binding]; other site 640511004377 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 640511004378 DNA binding site [nucleotide binding] 640511004379 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4102 640511004380 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 640511004381 active site lid residues [active] 640511004382 substrate binding pocket [chemical binding]; other site 640511004383 catalytic residues [active] 640511004384 substrate-Mg2+ binding site; other site 640511004385 aspartate-rich region 1; other site 640511004386 aspartate-rich region 2; other site 640511004387 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640511004388 MarR family; Region: MarR_2; pfam12802 640511004389 MarR family; Region: MarR_2; cl17246 640511004390 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 640511004391 trigger factor; Provisional; Region: tig; PRK01490 640511004392 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 640511004393 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 640511004394 Clp protease; Region: CLP_protease; pfam00574 640511004395 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 640511004396 oligomer interface [polypeptide binding]; other site 640511004397 active site residues [active] 640511004398 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 640511004399 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 640511004400 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 640511004401 Walker A motif; other site 640511004402 ATP binding site [chemical binding]; other site 640511004403 Walker B motif; other site 640511004404 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 640511004405 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 640511004406 Found in ATP-dependent protease La (LON); Region: LON; smart00464 640511004407 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 640511004408 Walker A motif; other site 640511004409 ATP binding site [chemical binding]; other site 640511004410 Walker B motif; other site 640511004411 arginine finger; other site 640511004412 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 640511004413 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 640511004414 IHF dimer interface [polypeptide binding]; other site 640511004415 IHF - DNA interface [nucleotide binding]; other site 640511004416 periplasmic folding chaperone; Provisional; Region: PRK10788 640511004417 SurA N-terminal domain; Region: SurA_N_3; cl07813 640511004418 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 640511004419 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 640511004420 active site 640511004421 catalytic triad [active] 640511004422 oxyanion hole [active] 640511004423 switch loop; other site 640511004424 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 640511004425 Q-loop/lid; other site 640511004426 ABC transporter signature motif; other site 640511004427 Walker B; other site 640511004428 D-loop; other site 640511004429 H-loop/switch region; other site 640511004430 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 640511004431 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 640511004432 active site 640511004433 dimer interface [polypeptide binding]; other site 640511004434 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 640511004435 dimer interface [polypeptide binding]; other site 640511004436 active site 640511004437 putative carbohydrate kinase; Provisional; Region: PRK10565 640511004438 Uncharacterized conserved protein [Function unknown]; Region: COG0062 640511004439 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 640511004440 putative substrate binding site [chemical binding]; other site 640511004441 putative ATP binding site [chemical binding]; other site 640511004442 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 640511004443 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 640511004444 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 640511004445 dimerization interface [polypeptide binding]; other site 640511004446 ATP binding site [chemical binding]; other site 640511004447 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 640511004448 dimerization interface [polypeptide binding]; other site 640511004449 ATP binding site [chemical binding]; other site 640511004450 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 640511004451 putative active site [active] 640511004452 catalytic triad [active] 640511004453 SurA N-terminal domain; Region: SurA_N_3; cl07813 640511004454 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 640511004455 BolA-like protein; Region: BolA; pfam01722 640511004456 intracellular septation protein A; Reviewed; Region: PRK00259 640511004457 methionine sulfoxide reductase B; Provisional; Region: PRK00222 640511004458 SelR domain; Region: SelR; pfam01641 640511004459 hypothetical protein; Validated; Region: PRK00029 640511004460 Uncharacterized conserved protein [Function unknown]; Region: COG0397 640511004461 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 640511004462 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 640511004463 dimer interface [polypeptide binding]; other site 640511004464 acyl-activating enzyme (AAE) consensus motif; other site 640511004465 putative active site [active] 640511004466 AMP binding site [chemical binding]; other site 640511004467 putative CoA binding site [chemical binding]; other site 640511004468 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 640511004469 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 640511004470 substrate binding site [chemical binding]; other site 640511004471 oxyanion hole (OAH) forming residues; other site 640511004472 trimer interface [polypeptide binding]; other site 640511004473 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 640511004474 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 640511004475 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 640511004476 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 640511004477 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 640511004478 dimer interface [polypeptide binding]; other site 640511004479 active site 640511004480 Water Stress and Hypersensitive response; Region: WHy; smart00769 640511004481 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 640511004482 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511004483 DNA-binding site [nucleotide binding]; DNA binding site 640511004484 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 640511004485 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511004486 homodimer interface [polypeptide binding]; other site 640511004487 catalytic residue [active] 640511004488 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 640511004489 CoenzymeA binding site [chemical binding]; other site 640511004490 subunit interaction site [polypeptide binding]; other site 640511004491 PHB binding site; other site 640511004492 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 640511004493 Prostaglandin dehydrogenases; Region: PGDH; cd05288 640511004494 NAD(P) binding site [chemical binding]; other site 640511004495 substrate binding site [chemical binding]; other site 640511004496 dimer interface [polypeptide binding]; other site 640511004497 hypothetical protein; Provisional; Region: PRK06194 640511004498 classical (c) SDRs; Region: SDR_c; cd05233 640511004499 NAD(P) binding site [chemical binding]; other site 640511004500 active site 640511004501 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 640511004502 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 640511004503 substrate binding pocket [chemical binding]; other site 640511004504 NRDE protein; Region: NRDE; cl01315 640511004505 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 640511004506 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 640511004507 YceG-like family; Region: YceG; pfam02618 640511004508 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 640511004509 dimerization interface [polypeptide binding]; other site 640511004510 thymidylate kinase; Validated; Region: tmk; PRK00698 640511004511 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 640511004512 TMP-binding site; other site 640511004513 ATP-binding site [chemical binding]; other site 640511004514 DNA polymerase III subunit delta'; Validated; Region: PRK06964 640511004515 DNA polymerase III subunit delta'; Validated; Region: PRK08485 640511004516 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 640511004517 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640511004518 Coenzyme A binding pocket [chemical binding]; other site 640511004519 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 640511004520 active site 640511004521 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 640511004522 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 640511004523 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 640511004524 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 640511004525 Mechanosensitive ion channel; Region: MS_channel; pfam00924 640511004526 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 640511004527 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 640511004528 active site 640511004529 homotetramer interface [polypeptide binding]; other site 640511004530 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 640511004531 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640511004532 putative ADP-binding pocket [chemical binding]; other site 640511004533 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 640511004534 Domain of unknown function DUF221; Region: DUF221; pfam02714 640511004535 hypothetical protein; Provisional; Region: PRK11505 640511004536 psiF repeat; Region: PsiF_repeat; pfam07769 640511004537 psiF repeat; Region: PsiF_repeat; pfam07769 640511004538 YciI-like protein; Reviewed; Region: PRK12866 640511004539 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 640511004540 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 640511004541 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 640511004542 Substrate binding site; other site 640511004543 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 640511004544 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 640511004545 Bacterial sugar transferase; Region: Bac_transf; pfam02397 640511004546 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 640511004547 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 640511004548 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 640511004549 Low molecular weight phosphatase family; Region: LMWPc; cd00115 640511004550 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 640511004551 active site 640511004552 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 640511004553 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 640511004554 SLBB domain; Region: SLBB; pfam10531 640511004555 tyrosine kinase; Provisional; Region: PRK11519 640511004556 Chain length determinant protein; Region: Wzz; pfam02706 640511004557 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 640511004558 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 640511004559 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 640511004560 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 640511004561 DXD motif; other site 640511004562 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 640511004563 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640511004564 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 640511004565 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 640511004566 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 640511004567 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 640511004568 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640511004569 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 640511004570 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 640511004571 dimerization interface [polypeptide binding]; other site 640511004572 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 640511004573 putative binding surface; other site 640511004574 active site 640511004575 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511004576 ATP binding site [chemical binding]; other site 640511004577 Mg2+ binding site [ion binding]; other site 640511004578 G-X-G motif; other site 640511004579 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 640511004580 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640511004581 putative CheW interface [polypeptide binding]; other site 640511004582 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 640511004583 Response regulator receiver domain; Region: Response_reg; pfam00072 640511004584 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511004585 active site 640511004586 phosphorylation site [posttranslational modification] 640511004587 intermolecular recognition site; other site 640511004588 dimerization interface [polypeptide binding]; other site 640511004589 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 640511004590 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 640511004591 NADP-binding site; other site 640511004592 homotetramer interface [polypeptide binding]; other site 640511004593 substrate binding site [chemical binding]; other site 640511004594 homodimer interface [polypeptide binding]; other site 640511004595 active site 640511004596 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; cd00229 640511004597 active site 640511004598 catalytic triad [active] 640511004599 oxyanion hole [active] 640511004600 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 640511004601 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 640511004602 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 640511004603 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640511004604 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 640511004605 putative ADP-binding pocket [chemical binding]; other site 640511004606 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640511004607 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 640511004608 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 640511004609 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 640511004610 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 640511004611 active site 640511004612 tetramer interface; other site 640511004613 Malate synthase G (MSG), monomeric enzyme present in some bacteria. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate...; Region: malate_synt_G; cd00728 640511004614 active site 640511004615 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 640511004616 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 640511004617 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 640511004618 MOSC domain; Region: MOSC; pfam03473 640511004619 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 640511004620 active site 640511004621 SAM binding site [chemical binding]; other site 640511004622 homodimer interface [polypeptide binding]; other site 640511004623 nitrite reductase subunit NirD; Provisional; Region: PRK14989 640511004624 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640511004625 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 640511004626 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 640511004627 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 640511004628 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 640511004629 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 640511004630 [4Fe-4S] binding site [ion binding]; other site 640511004631 molybdopterin cofactor binding site; other site 640511004632 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 640511004633 molybdopterin cofactor binding site; other site 640511004634 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 640511004635 Flavodoxin; Region: Flavodoxin_1; pfam00258 640511004636 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 640511004637 FAD binding pocket [chemical binding]; other site 640511004638 FAD binding motif [chemical binding]; other site 640511004639 catalytic residues [active] 640511004640 NAD binding pocket [chemical binding]; other site 640511004641 phosphate binding motif [ion binding]; other site 640511004642 beta-alpha-beta structure motif; other site 640511004643 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 640511004644 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511004645 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_5; cd08898 640511004646 putative hydrophobic ligand binding site [chemical binding]; other site 640511004647 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 640511004648 dimerization interface [polypeptide binding]; other site 640511004649 putative DNA binding site [nucleotide binding]; other site 640511004650 putative Zn2+ binding site [ion binding]; other site 640511004651 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 640511004652 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 640511004653 S-adenosylmethionine binding site [chemical binding]; other site 640511004654 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511004655 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511004656 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 640511004657 putative dimerization interface [polypeptide binding]; other site 640511004658 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 640511004659 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 640511004660 putative C-terminal domain interface [polypeptide binding]; other site 640511004661 putative GSH binding site (G-site) [chemical binding]; other site 640511004662 putative dimer interface [polypeptide binding]; other site 640511004663 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 640511004664 putative N-terminal domain interface [polypeptide binding]; other site 640511004665 putative dimer interface [polypeptide binding]; other site 640511004666 putative substrate binding pocket (H-site) [chemical binding]; other site 640511004667 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 640511004668 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 640511004669 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 640511004670 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 640511004671 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 640511004672 Transglycosylase; Region: Transgly; pfam00912 640511004673 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 640511004674 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511004675 D-galactonate transporter; Region: 2A0114; TIGR00893 640511004676 putative substrate translocation pore; other site 640511004677 Cupin domain; Region: Cupin_2; pfam07883 640511004678 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 640511004679 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 640511004680 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640511004681 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511004682 active site 640511004683 phosphorylation site [posttranslational modification] 640511004684 intermolecular recognition site; other site 640511004685 dimerization interface [polypeptide binding]; other site 640511004686 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 640511004687 DNA binding residues [nucleotide binding] 640511004688 dimerization interface [polypeptide binding]; other site 640511004689 NnrU protein; Region: NnrU; pfam07298 640511004690 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 640511004691 classical (c) SDRs; Region: SDR_c; cd05233 640511004692 NAD(P) binding site [chemical binding]; other site 640511004693 active site 640511004694 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 640511004695 homotrimer interaction site [polypeptide binding]; other site 640511004696 putative active site [active] 640511004697 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 640511004698 HlyD family secretion protein; Region: HlyD_3; pfam13437 640511004699 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640511004700 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640511004701 MarR family; Region: MarR_2; cl17246 640511004702 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 640511004703 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511004704 putative substrate translocation pore; other site 640511004705 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511004706 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 640511004707 classical (c) SDRs; Region: SDR_c; cd05233 640511004708 NAD(P) binding site [chemical binding]; other site 640511004709 active site 640511004710 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511004711 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511004712 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 640511004713 putative effector binding pocket; other site 640511004714 dimerization interface [polypeptide binding]; other site 640511004715 Nitronate monooxygenase; Region: NMO; pfam03060 640511004716 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 640511004717 FMN binding site [chemical binding]; other site 640511004718 substrate binding site [chemical binding]; other site 640511004719 putative catalytic residue [active] 640511004720 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 640511004721 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511004722 putative substrate translocation pore; other site 640511004723 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511004724 LysR family transcriptional regulator; Provisional; Region: PRK14997 640511004725 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_2; cd08471 640511004726 putative dimerization interface [polypeptide binding]; other site 640511004727 putative effector binding pocket; other site 640511004728 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 640511004729 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 640511004730 Beta-Casp domain; Region: Beta-Casp; smart01027 640511004731 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 640511004732 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 640511004733 BON domain; Region: BON; pfam04972 640511004734 BON domain; Region: BON; pfam04972 640511004735 BON domain; Region: BON; pfam04972 640511004736 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 640511004737 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 640511004738 putative dimer interface [polypeptide binding]; other site 640511004739 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 640511004740 Ion channel; Region: Ion_trans_2; pfam07885 640511004741 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 640511004742 Chromate transporter; Region: Chromate_transp; pfam02417 640511004743 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH2; cd08286 640511004744 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 640511004745 catalytic Zn binding site [ion binding]; other site 640511004746 structural Zn binding site [ion binding]; other site 640511004747 NAD(P) binding site [chemical binding]; other site 640511004748 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640511004749 Phosphotransferase enzyme family; Region: APH; pfam01636 640511004750 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 640511004751 active site 640511004752 ATP binding site [chemical binding]; other site 640511004753 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 640511004754 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 640511004755 inhibitor-cofactor binding pocket; inhibition site 640511004756 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511004757 catalytic residue [active] 640511004758 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 640511004759 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 640511004760 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640511004761 NAD(P) binding site [chemical binding]; other site 640511004762 catalytic residues [active] 640511004763 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 640511004764 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 640511004765 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 640511004766 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 640511004767 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 640511004768 Cytochrome c; Region: Cytochrom_C; pfam00034 640511004769 Cytochrome c; Region: Cytochrom_C; pfam00034 640511004770 Methylamine dehydrogenase, L chain; Region: Me-amine-dh_L; cl03812 640511004771 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 640511004772 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 640511004773 Methylamine utilisation protein MauE; Region: MauE; pfam07291 640511004774 methylamine dehydrogenase (amicyanin) heavy chain; Region: TTQ_MADH_Hv; TIGR02658 640511004775 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 640511004776 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 640511004777 non-specific DNA binding site [nucleotide binding]; other site 640511004778 salt bridge; other site 640511004779 sequence-specific DNA binding site [nucleotide binding]; other site 640511004780 Uncharacterized conserved protein [Function unknown]; Region: COG2128 640511004781 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 640511004782 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD_like; cd08296 640511004783 putative NAD(P) binding site [chemical binding]; other site 640511004784 putative substrate binding site [chemical binding]; other site 640511004785 catalytic Zn binding site [ion binding]; other site 640511004786 structural Zn binding site [ion binding]; other site 640511004787 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 640511004788 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 640511004789 dimer interface [polypeptide binding]; other site 640511004790 active site 640511004791 heme binding site [chemical binding]; other site 640511004792 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 640511004793 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 640511004794 Int/Topo IB signature motif; other site 640511004795 Domain of unknown function (DUF2760); Region: DUF2760; pfam10816 640511004796 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 640511004797 nucleotide binding site [chemical binding]; other site 640511004798 putative NEF/HSP70 interaction site [polypeptide binding]; other site 640511004799 SBD interface [polypeptide binding]; other site 640511004800 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 640511004801 nucleotide binding site [chemical binding]; other site 640511004802 putative NEF/HSP70 interaction site [polypeptide binding]; other site 640511004803 SBD interface [polypeptide binding]; other site 640511004804 DNA-K related protein; Region: DUF3731; pfam12531 640511004805 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 640511004806 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640511004807 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511004808 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 640511004809 dimerization interface [polypeptide binding]; other site 640511004810 substrate binding pocket [chemical binding]; other site 640511004811 3HB-oligomer hydrolase (3HBOH); Region: 3HBOH; pfam10605 640511004812 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 640511004813 homotrimer interaction site [polypeptide binding]; other site 640511004814 putative active site [active] 640511004815 Predicted soluble lytic transglycosylase fused to an ABC-type amino acid-binding protein [Cell envelope biogenesis, outer membrane]; Region: COG4623 640511004816 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 640511004817 substrate binding pocket [chemical binding]; other site 640511004818 membrane-bound complex binding site; other site 640511004819 hinge residues; other site 640511004820 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 640511004821 N-acetyl-D-glucosamine binding site [chemical binding]; other site 640511004822 catalytic residue [active] 640511004823 GAF domain; Region: GAF; pfam01590 640511004824 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 640511004825 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640511004826 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640511004827 metal binding site [ion binding]; metal-binding site 640511004828 active site 640511004829 I-site; other site 640511004830 argininosuccinate synthase; Validated; Region: PRK05370 640511004831 argininosuccinate synthase; Provisional; Region: PRK13820 640511004832 cytosine deaminase; Provisional; Region: PRK05985 640511004833 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 640511004834 active site 640511004835 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511004836 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511004837 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 640511004838 putative effector binding pocket; other site 640511004839 dimerization interface [polypeptide binding]; other site 640511004840 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 640511004841 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 640511004842 active site 640511004843 motif I; other site 640511004844 motif II; other site 640511004845 2-aminoethylphosphonate--pyruvate transaminase; Provisional; Region: PRK13479 640511004846 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640511004847 catalytic residue [active] 640511004848 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 640511004849 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511004850 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 640511004851 dimerization interface [polypeptide binding]; other site 640511004852 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511004853 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 640511004854 NAD(P) binding site [chemical binding]; other site 640511004855 active site 640511004856 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 640511004857 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511004858 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 640511004859 dimerizarion interface [polypeptide binding]; other site 640511004860 CrgA pocket; other site 640511004861 substrate binding pocket [chemical binding]; other site 640511004862 CopC domain; Region: CopC; pfam04234 640511004863 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 640511004864 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 640511004865 Activator of osmoprotectant transporter ProP [Signal transduction mechanisms]; Region: ProQ; COG3109 640511004866 ProQ/FINO family; Region: ProQ; pfam04352 640511004867 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640511004868 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 640511004869 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 640511004870 dimer interface [polypeptide binding]; other site 640511004871 phosphorylation site [posttranslational modification] 640511004872 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511004873 ATP binding site [chemical binding]; other site 640511004874 Mg2+ binding site [ion binding]; other site 640511004875 G-X-G motif; other site 640511004876 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 640511004877 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511004878 active site 640511004879 phosphorylation site [posttranslational modification] 640511004880 intermolecular recognition site; other site 640511004881 dimerization interface [polypeptide binding]; other site 640511004882 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 640511004883 DNA binding site [nucleotide binding] 640511004884 hopanoid biosynthesis associated protein HpnK and similar proteins; Region: YdjC_HpnK_like; cd10804 640511004885 putative active site [active] 640511004886 YdjC motif; other site 640511004887 Mg binding site [ion binding]; other site 640511004888 putative homodimer interface [polypeptide binding]; other site 640511004889 hopanoid biosynthesis associated glycosyl transferase protein HpnI; Region: HpnI; TIGR03472 640511004890 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 640511004891 ligand binding site; other site 640511004892 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 640511004893 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511004894 active site 640511004895 phosphorylation site [posttranslational modification] 640511004896 intermolecular recognition site; other site 640511004897 dimerization interface [polypeptide binding]; other site 640511004898 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 640511004899 DNA binding site [nucleotide binding] 640511004900 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640511004901 HAMP domain; Region: HAMP; pfam00672 640511004902 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 640511004903 dimer interface [polypeptide binding]; other site 640511004904 phosphorylation site [posttranslational modification] 640511004905 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511004906 ATP binding site [chemical binding]; other site 640511004907 G-X-G motif; other site 640511004908 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 640511004909 hopanoid biosynthesis associated glycosyl transferase protein HpnI; Region: HpnI; TIGR03472 640511004910 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 640511004911 ligand binding site; other site 640511004912 hopanoid biosynthesis associated radical SAM protein HpnJ; Region: HpnJ; TIGR03471 640511004913 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 640511004914 B12 binding site [chemical binding]; other site 640511004915 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 640511004916 FeS/SAM binding site; other site 640511004917 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 640511004918 DNA-binding site [nucleotide binding]; DNA binding site 640511004919 RNA-binding motif; other site 640511004920 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640511004921 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 640511004922 tetramerization interface [polypeptide binding]; other site 640511004923 NAD(P) binding site [chemical binding]; other site 640511004924 catalytic residues [active] 640511004925 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 640511004926 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 640511004927 2-keto-3-deoxygluconate permease; Region: KdgT; cl14653 640511004928 5-keto-4-deoxyuronate isomerase; Provisional; Region: PRK00924 640511004929 2-deoxy-D-gluconate 3-dehydrogenase; Region: kduD; TIGR01832 640511004930 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 640511004931 NADP binding site [chemical binding]; other site 640511004932 homodimer interface [polypeptide binding]; other site 640511004933 active site 640511004934 DNA-binding transcriptional regulator KdgR; Provisional; Region: PRK15090 640511004935 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 640511004936 dimerization interface [polypeptide binding]; other site 640511004937 putative Zn2+ binding site [ion binding]; other site 640511004938 putative DNA binding site [nucleotide binding]; other site 640511004939 Bacterial transcriptional regulator; Region: IclR; pfam01614 640511004940 benzoate transport; Region: 2A0115; TIGR00895 640511004941 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511004942 putative substrate translocation pore; other site 640511004943 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511004944 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 640511004945 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 640511004946 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511004947 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 640511004948 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 640511004949 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 640511004950 threonine dehydratase; Reviewed; Region: PRK09224 640511004951 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 640511004952 tetramer interface [polypeptide binding]; other site 640511004953 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511004954 catalytic residue [active] 640511004955 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 640511004956 putative Ile/Val binding site [chemical binding]; other site 640511004957 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 640511004958 putative Ile/Val binding site [chemical binding]; other site 640511004959 Type IV secretory pathway, VirJ component [Intracellular trafficking and secretion]; Region: VirJ; COG3946 640511004960 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 640511004961 Predicted integral membrane protein [Function unknown]; Region: COG0392 640511004962 Uncharacterized conserved protein [Function unknown]; Region: COG2898 640511004963 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 640511004964 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511004965 putative transporter; Provisional; Region: PRK10504 640511004966 putative substrate translocation pore; other site 640511004967 Predicted membrane protein [Function unknown]; Region: COG2323 640511004968 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 640511004969 active site 640511004970 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 640511004971 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640511004972 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 640511004973 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 640511004974 putative active site [active] 640511004975 heme pocket [chemical binding]; other site 640511004976 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 640511004977 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 640511004978 putative active site [active] 640511004979 heme pocket [chemical binding]; other site 640511004980 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 640511004981 dimer interface [polypeptide binding]; other site 640511004982 phosphorylation site [posttranslational modification] 640511004983 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511004984 ATP binding site [chemical binding]; other site 640511004985 Mg2+ binding site [ion binding]; other site 640511004986 G-X-G motif; other site 640511004987 Response regulator receiver domain; Region: Response_reg; pfam00072 640511004988 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511004989 active site 640511004990 phosphorylation site [posttranslational modification] 640511004991 intermolecular recognition site; other site 640511004992 dimerization interface [polypeptide binding]; other site 640511004993 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 640511004994 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 640511004995 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640511004996 Uncharacterized conserved protein [Function unknown]; Region: COG2128 640511004997 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 640511004998 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511004999 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511005000 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 640511005001 dimerization interface [polypeptide binding]; other site 640511005002 putative transporter; Provisional; Region: PRK10504 640511005003 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511005004 putative substrate translocation pore; other site 640511005005 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511005006 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511005007 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 640511005008 putative effector binding pocket; other site 640511005009 dimerization interface [polypeptide binding]; other site 640511005010 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 640511005011 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 640511005012 active site 640511005013 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 640511005014 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511005015 putative substrate translocation pore; other site 640511005016 SpoVR family protein; Provisional; Region: PRK11767 640511005017 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 640511005018 hypothetical protein; Provisional; Region: PRK05325 640511005019 PrkA family serine protein kinase; Provisional; Region: PRK15455 640511005020 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 640511005021 Walker A motif; other site 640511005022 ATP binding site [chemical binding]; other site 640511005023 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 640511005024 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 640511005025 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 640511005026 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 640511005027 ligand binding site [chemical binding]; other site 640511005028 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 640511005029 dimerization interface [polypeptide binding]; other site 640511005030 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640511005031 dimer interface [polypeptide binding]; other site 640511005032 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 640511005033 putative CheW interface [polypeptide binding]; other site 640511005034 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 640511005035 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 640511005036 substrate binding site [chemical binding]; other site 640511005037 dimer interface [polypeptide binding]; other site 640511005038 ATP binding site [chemical binding]; other site 640511005039 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640511005040 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640511005041 DNA binding site [nucleotide binding] 640511005042 domain linker motif; other site 640511005043 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 640511005044 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 640511005045 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640511005046 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 640511005047 TM-ABC transporter signature motif; other site 640511005048 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 640511005049 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 640511005050 Walker A/P-loop; other site 640511005051 ATP binding site [chemical binding]; other site 640511005052 Q-loop/lid; other site 640511005053 ABC transporter signature motif; other site 640511005054 Walker B; other site 640511005055 D-loop; other site 640511005056 H-loop/switch region; other site 640511005057 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 640511005058 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 640511005059 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640511005060 ligand binding site [chemical binding]; other site 640511005061 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 640511005062 Mycobacterium tuberculosis CorA-like subfamily; Region: MtCorA-like; cd12830 640511005063 oligomer interface [polypeptide binding]; other site 640511005064 metal binding site [ion binding]; metal-binding site 640511005065 metal binding site [ion binding]; metal-binding site 640511005066 putative Cl binding site [ion binding]; other site 640511005067 basic sphincter; other site 640511005068 hydrophobic gate; other site 640511005069 periplasmic entrance; other site 640511005070 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 640511005071 Membrane bound YbgT-like protein; Region: YbgT_YccB; pfam08173 640511005072 AAA domain; Region: AAA_33; pfam13671 640511005073 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 640511005074 Walker A motif; other site 640511005075 ATP binding site [chemical binding]; other site 640511005076 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 640511005077 TrkA-N domain; Region: TrkA_N; pfam02254 640511005078 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 640511005079 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 640511005080 AsnC family; Region: AsnC_trans_reg; pfam01037 640511005081 LTXXQ motif family protein; Region: LTXXQ; pfam07813 640511005082 dimer interface [polypeptide binding]; other site 640511005083 PGDYG protein; Region: PGDYG; pfam14083 640511005084 Protein of unknown function (DUF3022); Region: DUF3022; pfam11226 640511005085 Putative membrane peptidase family (DUF2324); Region: DUF2324; pfam10086 640511005086 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640511005087 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640511005088 DNA binding site [nucleotide binding] 640511005089 domain linker motif; other site 640511005090 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 640511005091 putative dimerization interface [polypeptide binding]; other site 640511005092 putative ligand binding site [chemical binding]; other site 640511005093 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 640511005094 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 640511005095 dimerization interface [polypeptide binding]; other site 640511005096 ligand binding site [chemical binding]; other site 640511005097 NADP binding site [chemical binding]; other site 640511005098 catalytic site [active] 640511005099 D-galactonate transporter; Region: 2A0114; TIGR00893 640511005100 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511005101 putative substrate translocation pore; other site 640511005102 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 640511005103 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 640511005104 substrate binding site [chemical binding]; other site 640511005105 ATP binding site [chemical binding]; other site 640511005106 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 640511005107 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511005108 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 640511005109 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 640511005110 putative dimerization interface [polypeptide binding]; other site 640511005111 Predicted membrane protein [Function unknown]; Region: COG2855 640511005112 glutathione s-transferase; Provisional; Region: PTZ00057 640511005113 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 640511005114 C-terminal, alpha helical domain of Class Sigma-like Glutathione S-transferases; Region: GST_C_Sigma_like; cd03192 640511005115 dimer interface [polypeptide binding]; other site 640511005116 N-terminal domain interface [polypeptide binding]; other site 640511005117 substrate binding pocket (H-site) [chemical binding]; other site 640511005118 putative voltage-gated ClC-type chloride channel ClcB; Provisional; Region: PRK01862 640511005119 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 640511005120 Cl- selectivity filter; other site 640511005121 Cl- binding residues [ion binding]; other site 640511005122 pore gating glutamate residue; other site 640511005123 dimer interface [polypeptide binding]; other site 640511005124 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 640511005125 Phospholipase B; Region: Phospholip_B; pfam04916 640511005126 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 640511005127 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511005128 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511005129 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 640511005130 putative effector binding pocket; other site 640511005131 dimerization interface [polypeptide binding]; other site 640511005132 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640511005133 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640511005134 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 640511005135 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640511005136 HlyD family secretion protein; Region: HlyD_3; pfam13437 640511005137 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 640511005138 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640511005139 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 640511005140 Transglycosylase; Region: Transgly; pfam00912 640511005141 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 640511005142 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 640511005143 Tetratricopeptide repeat; Region: TPR_16; pfam13432 640511005144 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 640511005145 TPR motif; other site 640511005146 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640511005147 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640511005148 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 640511005149 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 640511005150 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 640511005151 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511005152 dimer interface [polypeptide binding]; other site 640511005153 conserved gate region; other site 640511005154 putative PBP binding loops; other site 640511005155 ABC-ATPase subunit interface; other site 640511005156 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511005157 dimer interface [polypeptide binding]; other site 640511005158 conserved gate region; other site 640511005159 putative PBP binding loops; other site 640511005160 ABC-ATPase subunit interface; other site 640511005161 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 640511005162 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640511005163 Walker A/P-loop; other site 640511005164 ATP binding site [chemical binding]; other site 640511005165 Q-loop/lid; other site 640511005166 ABC transporter signature motif; other site 640511005167 Walker B; other site 640511005168 D-loop; other site 640511005169 H-loop/switch region; other site 640511005170 TOBE domain; Region: TOBE_2; pfam08402 640511005171 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 640511005172 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 640511005173 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; cl15845 640511005174 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 640511005175 Predicted Fe-S protein [General function prediction only]; Region: COG3313 640511005176 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 640511005177 ligand binding site [chemical binding]; other site 640511005178 active site 640511005179 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 640511005180 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 640511005181 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 640511005182 ABC transporter; Region: ABC_tran_2; pfam12848 640511005183 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 640511005184 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 640511005185 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 640511005186 Dodecin; Region: Dodecin; pfam07311 640511005187 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 640511005188 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 640511005189 putative ligand binding site [chemical binding]; other site 640511005190 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 640511005191 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640511005192 TM-ABC transporter signature motif; other site 640511005193 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640511005194 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 640511005195 TM-ABC transporter signature motif; other site 640511005196 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 640511005197 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 640511005198 Walker A/P-loop; other site 640511005199 ATP binding site [chemical binding]; other site 640511005200 Q-loop/lid; other site 640511005201 ABC transporter signature motif; other site 640511005202 Walker B; other site 640511005203 D-loop; other site 640511005204 H-loop/switch region; other site 640511005205 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 640511005206 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511005207 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511005208 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 640511005209 putative substrate binding pocket [chemical binding]; other site 640511005210 putative dimerization interface [polypeptide binding]; other site 640511005211 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 640511005212 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 640511005213 active site 640511005214 putative substrate binding pocket [chemical binding]; other site 640511005215 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 640511005216 active site 640511005217 homotetramer interface [polypeptide binding]; other site 640511005218 Predicted membrane protein [Function unknown]; Region: COG3748 640511005219 Protein of unknown function (DUF989); Region: DUF989; pfam06181 640511005220 Cytochrome c; Region: Cytochrom_C; pfam00034 640511005221 HipA N-terminal domain; Region: Couple_hipA; pfam13657 640511005222 HipA-like N-terminal domain; Region: HipA_N; pfam07805 640511005223 HipA-like C-terminal domain; Region: HipA_C; pfam07804 640511005224 ureidoglycolate hydrolase; Provisional; Region: PRK03606 640511005225 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 640511005226 allantoicase; Provisional; Region: PRK13257 640511005227 Allantoicase repeat; Region: Allantoicase; pfam03561 640511005228 Allantoicase repeat; Region: Allantoicase; pfam03561 640511005229 OHCU decarboxylase; Region: UHCUDC; TIGR03164 640511005230 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 640511005231 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 640511005232 active site 640511005233 catalytic site [active] 640511005234 tetramer interface [polypeptide binding]; other site 640511005235 Hydantoin racemase [Amino acid transport and metabolism]; Region: COG4126 640511005236 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 640511005237 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 640511005238 Na binding site [ion binding]; other site 640511005239 putative substrate binding site [chemical binding]; other site 640511005240 Transcriptional regulators [Transcription]; Region: GntR; COG1802 640511005241 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511005242 DNA-binding site [nucleotide binding]; DNA binding site 640511005243 FCD domain; Region: FCD; pfam07729 640511005244 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 640511005245 dimer interface [polypeptide binding]; other site 640511005246 catalytic triad [active] 640511005247 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 640511005248 nucleoside/Zn binding site; other site 640511005249 dimer interface [polypeptide binding]; other site 640511005250 catalytic motif [active] 640511005251 Domain of unknown function (DUF1992); Region: DUF1992; cl08096 640511005252 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 640511005253 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 640511005254 GMP synthase; Reviewed; Region: guaA; PRK00074 640511005255 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 640511005256 AMP/PPi binding site [chemical binding]; other site 640511005257 candidate oxyanion hole; other site 640511005258 catalytic triad [active] 640511005259 potential glutamine specificity residues [chemical binding]; other site 640511005260 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 640511005261 ATP Binding subdomain [chemical binding]; other site 640511005262 Ligand Binding sites [chemical binding]; other site 640511005263 Dimerization subdomain; other site 640511005264 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 640511005265 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 640511005266 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 640511005267 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 640511005268 active site 640511005269 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 640511005270 EamA-like transporter family; Region: EamA; pfam00892 640511005271 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2914 640511005272 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 640511005273 putative coenzyme Q binding site [chemical binding]; other site 640511005274 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 640511005275 SmpB-tmRNA interface; other site 640511005276 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 640511005277 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 640511005278 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 640511005279 phosphoenolpyruvate synthase; Validated; Region: PRK06464 640511005280 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 640511005281 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 640511005282 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 640511005283 PEP synthetase regulatory protein; Provisional; Region: PRK05339 640511005284 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 640511005285 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 640511005286 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 640511005287 RNA/DNA hybrid binding site [nucleotide binding]; other site 640511005288 active site 640511005289 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 640511005290 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 640511005291 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 640511005292 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 640511005293 active site 640511005294 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 640511005295 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 640511005296 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 640511005297 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 640511005298 trimer interface [polypeptide binding]; other site 640511005299 active site 640511005300 UDP-GlcNAc binding site [chemical binding]; other site 640511005301 lipid binding site [chemical binding]; lipid-binding site 640511005302 periplasmic chaperone; Provisional; Region: PRK10780 640511005303 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 640511005304 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 640511005305 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 640511005306 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 640511005307 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 640511005308 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 640511005309 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 640511005310 Surface antigen; Region: Bac_surface_Ag; pfam01103 640511005311 zinc metallopeptidase RseP; Provisional; Region: PRK10779 640511005312 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 640511005313 active site 640511005314 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 640511005315 protein binding site [polypeptide binding]; other site 640511005316 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 640511005317 putative substrate binding region [chemical binding]; other site 640511005318 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 640511005319 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 640511005320 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 640511005321 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 640511005322 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 640511005323 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 640511005324 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 640511005325 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 640511005326 catalytic residue [active] 640511005327 putative FPP diphosphate binding site; other site 640511005328 putative FPP binding hydrophobic cleft; other site 640511005329 dimer interface [polypeptide binding]; other site 640511005330 putative IPP diphosphate binding site; other site 640511005331 ribosome recycling factor; Reviewed; Region: frr; PRK00083 640511005332 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 640511005333 hinge region; other site 640511005334 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 640511005335 putative nucleotide binding site [chemical binding]; other site 640511005336 uridine monophosphate binding site [chemical binding]; other site 640511005337 homohexameric interface [polypeptide binding]; other site 640511005338 elongation factor Ts; Provisional; Region: tsf; PRK09377 640511005339 UBA/TS-N domain; Region: UBA; pfam00627 640511005340 Elongation factor TS; Region: EF_TS; pfam00889 640511005341 Elongation factor TS; Region: EF_TS; pfam00889 640511005342 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 640511005343 rRNA interaction site [nucleotide binding]; other site 640511005344 S8 interaction site; other site 640511005345 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 640511005346 active site 640511005347 PII uridylyl-transferase; Provisional; Region: PRK03059 640511005348 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 640511005349 metal binding triad; other site 640511005350 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 640511005351 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 640511005352 Zn2+ binding site [ion binding]; other site 640511005353 Mg2+ binding site [ion binding]; other site 640511005354 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 640511005355 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 640511005356 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 640511005357 active site 640511005358 catalytic residues [active] 640511005359 metal binding site [ion binding]; metal-binding site 640511005360 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 640511005361 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 640511005362 nucleotide binding pocket [chemical binding]; other site 640511005363 K-X-D-G motif; other site 640511005364 catalytic site [active] 640511005365 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 640511005366 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 640511005367 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 640511005368 Dimer interface [polypeptide binding]; other site 640511005369 BRCT sequence motif; other site 640511005370 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cl12038 640511005371 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 640511005372 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 640511005373 Walker A/P-loop; other site 640511005374 ATP binding site [chemical binding]; other site 640511005375 Q-loop/lid; other site 640511005376 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 640511005377 Q-loop/lid; other site 640511005378 ABC transporter signature motif; other site 640511005379 Walker B; other site 640511005380 D-loop; other site 640511005381 H-loop/switch region; other site 640511005382 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 640511005383 EamA-like transporter family; Region: EamA; pfam00892 640511005384 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 640511005385 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 640511005386 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511005387 homodimer interface [polypeptide binding]; other site 640511005388 catalytic residue [active] 640511005389 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 640511005390 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 640511005391 trimer interface [polypeptide binding]; other site 640511005392 active site 640511005393 substrate binding site [chemical binding]; other site 640511005394 CoA binding site [chemical binding]; other site 640511005395 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 640511005396 ArsC family; Region: ArsC; pfam03960 640511005397 putative catalytic residues [active] 640511005398 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 640511005399 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 640511005400 metal binding site [ion binding]; metal-binding site 640511005401 dimer interface [polypeptide binding]; other site 640511005402 HemK family putative methylases; Region: hemK_fam; TIGR00536 640511005403 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 640511005404 S-adenosylmethionine binding site [chemical binding]; other site 640511005405 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 640511005406 Putative catalytic domain, repeat 1, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_1; cd09155 640511005407 putative active site [active] 640511005408 catalytic site [active] 640511005409 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 640511005410 putative active site [active] 640511005411 catalytic site [active] 640511005412 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 640511005413 catalytic residues [active] 640511005414 dimer interface [polypeptide binding]; other site 640511005415 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 640511005416 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 640511005417 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 640511005418 ABC transporter; Region: ABC_tran_2; pfam12848 640511005419 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 640511005420 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 640511005421 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640511005422 Protein of unknown function (DUF2866); Region: DUF2866; pfam11065 640511005423 DNA repair protein RadA; Provisional; Region: PRK11823 640511005424 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 640511005425 Walker A motif; other site 640511005426 ATP binding site [chemical binding]; other site 640511005427 Walker B motif; other site 640511005428 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 640511005429 alanine racemase; Reviewed; Region: dadX; PRK03646 640511005430 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 640511005431 active site 640511005432 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 640511005433 substrate binding site [chemical binding]; other site 640511005434 catalytic residues [active] 640511005435 dimer interface [polypeptide binding]; other site 640511005436 lysophospholipid transporter LplT; Provisional; Region: PRK11195 640511005437 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 640511005438 dimer interface [polypeptide binding]; other site 640511005439 substrate binding site [chemical binding]; other site 640511005440 ATP binding site [chemical binding]; other site 640511005441 Domain of unknown function (DUF1853); Region: DUF1853; pfam08907 640511005442 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 640511005443 Fe-S cluster binding site [ion binding]; other site 640511005444 active site 640511005445 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 640511005446 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 640511005447 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 640511005448 Glycoprotease family; Region: Peptidase_M22; pfam00814 640511005449 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 640511005450 acyl-CoA binding pocket [chemical binding]; other site 640511005451 CoA binding site [chemical binding]; other site 640511005452 helicase 45; Provisional; Region: PTZ00424 640511005453 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 640511005454 ATP binding site [chemical binding]; other site 640511005455 Mg++ binding site [ion binding]; other site 640511005456 motif III; other site 640511005457 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 640511005458 nucleotide binding region [chemical binding]; other site 640511005459 ATP-binding site [chemical binding]; other site 640511005460 isocitrate lyase; Provisional; Region: PRK15063 640511005461 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 640511005462 tetramer interface [polypeptide binding]; other site 640511005463 active site 640511005464 Mg2+/Mn2+ binding site [ion binding]; other site 640511005465 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 640511005466 Ligand Binding Site [chemical binding]; other site 640511005467 transcriptional regulator; Provisional; Region: PRK10632 640511005468 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511005469 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 640511005470 putative effector binding pocket; other site 640511005471 dimerization interface [polypeptide binding]; other site 640511005472 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 640511005473 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 640511005474 motif II; other site 640511005475 malate synthase A; Region: malate_syn_A; TIGR01344 640511005476 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 640511005477 active site 640511005478 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 640511005479 putative active site pocket [active] 640511005480 dimerization interface [polypeptide binding]; other site 640511005481 putative catalytic residue [active] 640511005482 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 640511005483 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 640511005484 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511005485 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511005486 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640511005487 Coenzyme A binding pocket [chemical binding]; other site 640511005488 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 640511005489 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 640511005490 active site 640511005491 HIGH motif; other site 640511005492 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 640511005493 active site 640511005494 KMSKS motif; other site 640511005495 hypothetical protein; Provisional; Region: PRK10279 640511005496 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 640511005497 nucleophile elbow; other site 640511005498 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 640511005499 NlpC/P60 family; Region: NLPC_P60; pfam00877 640511005500 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 640511005501 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640511005502 Walker A/P-loop; other site 640511005503 ATP binding site [chemical binding]; other site 640511005504 Q-loop/lid; other site 640511005505 ABC transporter signature motif; other site 640511005506 Walker B; other site 640511005507 D-loop; other site 640511005508 H-loop/switch region; other site 640511005509 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 640511005510 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640511005511 Walker A/P-loop; other site 640511005512 ATP binding site [chemical binding]; other site 640511005513 Q-loop/lid; other site 640511005514 ABC transporter signature motif; other site 640511005515 Walker B; other site 640511005516 D-loop; other site 640511005517 H-loop/switch region; other site 640511005518 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640511005519 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 640511005520 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 640511005521 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511005522 dimer interface [polypeptide binding]; other site 640511005523 conserved gate region; other site 640511005524 putative PBP binding loops; other site 640511005525 ABC-ATPase subunit interface; other site 640511005526 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 640511005527 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511005528 dimer interface [polypeptide binding]; other site 640511005529 conserved gate region; other site 640511005530 putative PBP binding loops; other site 640511005531 ABC-ATPase subunit interface; other site 640511005532 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 640511005533 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 640511005534 aspartate kinase; Reviewed; Region: PRK06635 640511005535 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 640511005536 putative nucleotide binding site [chemical binding]; other site 640511005537 putative catalytic residues [active] 640511005538 putative Mg ion binding site [ion binding]; other site 640511005539 putative aspartate binding site [chemical binding]; other site 640511005540 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 640511005541 putative allosteric regulatory site; other site 640511005542 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 640511005543 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 640511005544 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 640511005545 Ligand Binding Site [chemical binding]; other site 640511005546 TilS substrate binding domain; Region: TilS; pfam09179 640511005547 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 640511005548 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 640511005549 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 640511005550 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 640511005551 endonuclease III; Region: ENDO3c; smart00478 640511005552 minor groove reading motif; other site 640511005553 helix-hairpin-helix signature motif; other site 640511005554 substrate binding pocket [chemical binding]; other site 640511005555 active site 640511005556 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 640511005557 tRNA synthetases class I (C) catalytic domain; Region: tRNA-synt_1e; pfam01406 640511005558 active site 640511005559 HIGH motif; other site 640511005560 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 640511005561 KMSKS motif; other site 640511005562 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 640511005563 tRNA binding surface [nucleotide binding]; other site 640511005564 anticodon binding site; other site 640511005565 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 640511005566 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 640511005567 TPR motif; other site 640511005568 TPR repeat; Region: TPR_11; pfam13414 640511005569 binding surface 640511005570 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 640511005571 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 640511005572 substrate binding site [chemical binding]; other site 640511005573 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 640511005574 substrate binding site [chemical binding]; other site 640511005575 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 640511005576 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 640511005577 putative active site [active] 640511005578 putative metal binding site [ion binding]; other site 640511005579 serine O-acetyltransferase; Region: cysE; TIGR01172 640511005580 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 640511005581 trimer interface [polypeptide binding]; other site 640511005582 active site 640511005583 substrate binding site [chemical binding]; other site 640511005584 CoA binding site [chemical binding]; other site 640511005585 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 640511005586 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 640511005587 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 640511005588 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 640511005589 active site 640511005590 dimerization interface [polypeptide binding]; other site 640511005591 lysophospholipid transporter LplT; Provisional; Region: PRK11195 640511005592 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 640511005593 MutS domain I; Region: MutS_I; pfam01624 640511005594 MutS domain II; Region: MutS_II; pfam05188 640511005595 MutS domain III; Region: MutS_III; pfam05192 640511005596 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 640511005597 Walker A/P-loop; other site 640511005598 ATP binding site [chemical binding]; other site 640511005599 Q-loop/lid; other site 640511005600 ABC transporter signature motif; other site 640511005601 Walker B; other site 640511005602 D-loop; other site 640511005603 H-loop/switch region; other site 640511005604 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 640511005605 Uncharacterized conserved protein [Function unknown]; Region: COG2850 640511005606 Cupin-like domain; Region: Cupin_8; pfam13621 640511005607 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 640511005608 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 640511005609 DEAD_2; Region: DEAD_2; pfam06733 640511005610 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 640511005611 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 640511005612 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 640511005613 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 640511005614 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 640511005615 RNA binding site [nucleotide binding]; other site 640511005616 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 640511005617 potassium uptake protein; Region: kup; TIGR00794 640511005618 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 640511005619 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 640511005620 active site 640511005621 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 640511005622 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 640511005623 GDP-binding site [chemical binding]; other site 640511005624 ACT binding site; other site 640511005625 IMP binding site; other site 640511005626 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 640511005627 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 640511005628 dimer interface [polypeptide binding]; other site 640511005629 motif 1; other site 640511005630 active site 640511005631 motif 2; other site 640511005632 motif 3; other site 640511005633 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; pfam09838 640511005634 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 640511005635 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 640511005636 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 640511005637 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 640511005638 HflK protein; Region: hflK; TIGR01933 640511005639 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 640511005640 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 640511005641 HflX GTPase family; Region: HflX; cd01878 640511005642 G1 box; other site 640511005643 GTP/Mg2+ binding site [chemical binding]; other site 640511005644 Switch I region; other site 640511005645 G2 box; other site 640511005646 G3 box; other site 640511005647 Switch II region; other site 640511005648 G4 box; other site 640511005649 G5 box; other site 640511005650 bacterial Hfq-like; Region: Hfq; cd01716 640511005651 hexamer interface [polypeptide binding]; other site 640511005652 Sm1 motif; other site 640511005653 RNA binding site [nucleotide binding]; other site 640511005654 Sm2 motif; other site 640511005655 GTP-binding protein Der; Reviewed; Region: PRK00093 640511005656 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 640511005657 G1 box; other site 640511005658 GTP/Mg2+ binding site [chemical binding]; other site 640511005659 Switch I region; other site 640511005660 G2 box; other site 640511005661 Switch II region; other site 640511005662 G3 box; other site 640511005663 G4 box; other site 640511005664 G5 box; other site 640511005665 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 640511005666 G1 box; other site 640511005667 GTP/Mg2+ binding site [chemical binding]; other site 640511005668 Switch I region; other site 640511005669 G2 box; other site 640511005670 G3 box; other site 640511005671 Switch II region; other site 640511005672 G4 box; other site 640511005673 G5 box; other site 640511005674 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 640511005675 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 640511005676 Trp docking motif [polypeptide binding]; other site 640511005677 active site 640511005678 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 640511005679 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 640511005680 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 640511005681 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 640511005682 dimer interface [polypeptide binding]; other site 640511005683 motif 1; other site 640511005684 active site 640511005685 motif 2; other site 640511005686 motif 3; other site 640511005687 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 640511005688 anticodon binding site; other site 640511005689 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 640511005690 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 640511005691 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 640511005692 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 640511005693 non-specific DNA binding site [nucleotide binding]; other site 640511005694 salt bridge; other site 640511005695 sequence-specific DNA binding site [nucleotide binding]; other site 640511005696 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 640511005697 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 640511005698 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 640511005699 FeS/SAM binding site; other site 640511005700 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 640511005701 active site 640511005702 multimer interface [polypeptide binding]; other site 640511005703 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 640511005704 YccA-like proteins; Region: YccA_like; cd10433 640511005705 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 640511005706 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 640511005707 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 640511005708 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 640511005709 dihydrodipicolinate synthase; Region: dapA; TIGR00674 640511005710 dimer interface [polypeptide binding]; other site 640511005711 active site 640511005712 catalytic residue [active] 640511005713 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 640511005714 S-adenosylmethionine binding site [chemical binding]; other site 640511005715 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 640511005716 active site 640511005717 HIGH motif; other site 640511005718 dimer interface [polypeptide binding]; other site 640511005719 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 640511005720 active site 640511005721 KMSKS motif; other site 640511005722 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 640511005723 Peptidase family M50; Region: Peptidase_M50; pfam02163 640511005724 active site 640511005725 putative substrate binding region [chemical binding]; other site 640511005726 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 640511005727 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 640511005728 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 640511005729 active site 640511005730 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 640511005731 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 640511005732 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 640511005733 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 640511005734 catalytic site [active] 640511005735 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 640511005736 dinuclear metal binding motif [ion binding]; other site 640511005737 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 640511005738 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 640511005739 trimer interface [polypeptide binding]; other site 640511005740 putative metal binding site [ion binding]; other site 640511005741 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 640511005742 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 640511005743 dimerization interface [polypeptide binding]; other site 640511005744 domain crossover interface; other site 640511005745 redox-dependent activation switch; other site 640511005746 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 640511005747 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 640511005748 enolase; Provisional; Region: eno; PRK00077 640511005749 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 640511005750 dimer interface [polypeptide binding]; other site 640511005751 metal binding site [ion binding]; metal-binding site 640511005752 substrate binding pocket [chemical binding]; other site 640511005753 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 640511005754 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 640511005755 CTP synthetase; Validated; Region: pyrG; PRK05380 640511005756 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 640511005757 Catalytic site [active] 640511005758 active site 640511005759 UTP binding site [chemical binding]; other site 640511005760 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 640511005761 active site 640511005762 putative oxyanion hole; other site 640511005763 catalytic triad [active] 640511005764 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 640511005765 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 640511005766 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 640511005767 Competence protein; Region: Competence; pfam03772 640511005768 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 640511005769 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 640511005770 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 640511005771 active site 640511005772 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 640511005773 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 640511005774 Walker A/P-loop; other site 640511005775 ATP binding site [chemical binding]; other site 640511005776 Q-loop/lid; other site 640511005777 ABC transporter signature motif; other site 640511005778 Walker B; other site 640511005779 D-loop; other site 640511005780 H-loop/switch region; other site 640511005781 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 640511005782 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 640511005783 FtsX-like permease family; Region: FtsX; pfam02687 640511005784 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4255 640511005785 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 640511005786 DHH family; Region: DHH; pfam01368 640511005787 peptide chain release factor 2; Validated; Region: prfB; PRK00578 640511005788 This domain is found in peptide chain release factors; Region: PCRF; smart00937 640511005789 RF-1 domain; Region: RF-1; pfam00472 640511005790 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 640511005791 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 640511005792 dimer interface [polypeptide binding]; other site 640511005793 putative anticodon binding site; other site 640511005794 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 640511005795 motif 1; other site 640511005796 active site 640511005797 motif 2; other site 640511005798 motif 3; other site 640511005799 Iron-sulphur cluster assembly; Region: Fe-S_assembly; pfam04384 640511005800 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 640511005801 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 640511005802 catalytic loop [active] 640511005803 iron binding site [ion binding]; other site 640511005804 chaperone protein HscA; Provisional; Region: hscA; PRK05183 640511005805 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 640511005806 nucleotide binding site [chemical binding]; other site 640511005807 putative NEF/HSP70 interaction site [polypeptide binding]; other site 640511005808 SBD interface [polypeptide binding]; other site 640511005809 co-chaperone HscB; Provisional; Region: hscB; PRK03578 640511005810 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 640511005811 HSP70 interaction site [polypeptide binding]; other site 640511005812 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 640511005813 iron-sulfur cluster assembly protein; Provisional; Region: iscA; PRK09502 640511005814 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 640511005815 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 640511005816 trimerization site [polypeptide binding]; other site 640511005817 active site 640511005818 cysteine desulfurase; Provisional; Region: PRK14012 640511005819 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 640511005820 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640511005821 catalytic residue [active] 640511005822 Predicted transcriptional regulator [Transcription]; Region: COG1959 640511005823 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 640511005824 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 640511005825 Low molecular weight phosphatase family; Region: LMWPc; cd00115 640511005826 active site 640511005827 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 640511005828 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 640511005829 4Fe-4S binding domain; Region: Fer4; pfam00037 640511005830 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 640511005831 Cysteine-rich domain; Region: CCG; pfam02754 640511005832 Cysteine-rich domain; Region: CCG; pfam02754 640511005833 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 640511005834 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640511005835 Bacterial transcriptional regulator; Region: IclR; pfam01614 640511005836 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 640511005837 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 640511005838 Phasin protein; Region: Phasin_2; pfam09361 640511005839 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 640511005840 E3 interaction surface; other site 640511005841 lipoyl attachment site [posttranslational modification]; other site 640511005842 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 640511005843 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640511005844 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 640511005845 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 640511005846 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 640511005847 E3 interaction surface; other site 640511005848 lipoyl attachment site [posttranslational modification]; other site 640511005849 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 640511005850 E3 interaction surface; other site 640511005851 lipoyl attachment site [posttranslational modification]; other site 640511005852 e3 binding domain; Region: E3_binding; pfam02817 640511005853 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 640511005854 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 640511005855 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 640511005856 dimer interface [polypeptide binding]; other site 640511005857 TPP-binding site [chemical binding]; other site 640511005858 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 640511005859 PAS domain S-box; Region: sensory_box; TIGR00229 640511005860 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 640511005861 putative active site [active] 640511005862 heme pocket [chemical binding]; other site 640511005863 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 640511005864 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 640511005865 dimer interface [polypeptide binding]; other site 640511005866 phosphorylation site [posttranslational modification] 640511005867 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511005868 ATP binding site [chemical binding]; other site 640511005869 Mg2+ binding site [ion binding]; other site 640511005870 G-X-G motif; other site 640511005871 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 640511005872 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511005873 active site 640511005874 phosphorylation site [posttranslational modification] 640511005875 intermolecular recognition site; other site 640511005876 dimerization interface [polypeptide binding]; other site 640511005877 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 640511005878 DNA binding residues [nucleotide binding] 640511005879 dimerization interface [polypeptide binding]; other site 640511005880 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14189 640511005881 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 640511005882 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 640511005883 homodimer interface [polypeptide binding]; other site 640511005884 NADP binding site [chemical binding]; other site 640511005885 substrate binding site [chemical binding]; other site 640511005886 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 640511005887 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 640511005888 active site 640511005889 Zn binding site [ion binding]; other site 640511005890 cytosine deaminase; Validated; Region: PRK07572 640511005891 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 640511005892 active site 640511005893 aspartate racemase; Region: asp_race; TIGR00035 640511005894 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 640511005895 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 640511005896 putative catalytic site [active] 640511005897 putative phosphate binding site [ion binding]; other site 640511005898 active site 640511005899 metal binding site A [ion binding]; metal-binding site 640511005900 DNA binding site [nucleotide binding] 640511005901 putative AP binding site [nucleotide binding]; other site 640511005902 putative metal binding site B [ion binding]; other site 640511005903 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 640511005904 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 640511005905 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 640511005906 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511005907 active site 640511005908 phosphorylation site [posttranslational modification] 640511005909 intermolecular recognition site; other site 640511005910 dimerization interface [polypeptide binding]; other site 640511005911 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 640511005912 Walker A motif; other site 640511005913 ATP binding site [chemical binding]; other site 640511005914 Walker B motif; other site 640511005915 arginine finger; other site 640511005916 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 640511005917 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 640511005918 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 640511005919 dimer interface [polypeptide binding]; other site 640511005920 phosphorylation site [posttranslational modification] 640511005921 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511005922 ATP binding site [chemical binding]; other site 640511005923 Mg2+ binding site [ion binding]; other site 640511005924 G-X-G motif; other site 640511005925 glutamine synthetase; Provisional; Region: glnA; PRK09469 640511005926 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 640511005927 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 640511005928 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 640511005929 active site residue [active] 640511005930 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 640511005931 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 640511005932 putative MPT binding site; other site 640511005933 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 640511005934 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 640511005935 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 640511005936 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 640511005937 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 640511005938 trimer interface [polypeptide binding]; other site 640511005939 Haemagglutinin; Region: HIM; pfam05662 640511005940 Haemagglutinin; Region: HIM; pfam05662 640511005941 Haemagglutinin; Region: HIM; pfam05662 640511005942 YadA-like C-terminal region; Region: YadA; pfam03895 640511005943 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 640511005944 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 640511005945 ATP binding site [chemical binding]; other site 640511005946 putative Mg++ binding site [ion binding]; other site 640511005947 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 640511005948 nucleotide binding region [chemical binding]; other site 640511005949 ATP-binding site [chemical binding]; other site 640511005950 Helicase associated domain (HA2); Region: HA2; pfam04408 640511005951 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 640511005952 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 640511005953 N-acetylglutamate synthase; Validated; Region: PRK05279 640511005954 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 640511005955 putative feedback inhibition sensing region; other site 640511005956 putative nucleotide binding site [chemical binding]; other site 640511005957 putative substrate binding site [chemical binding]; other site 640511005958 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640511005959 Coenzyme A binding pocket [chemical binding]; other site 640511005960 oxidative damage protection protein; Provisional; Region: PRK05408 640511005961 proline/glycine betaine transporter; Provisional; Region: PRK10642 640511005962 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511005963 putative substrate translocation pore; other site 640511005964 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 640511005965 active site 640511005966 metal binding site [ion binding]; metal-binding site 640511005967 homotetramer interface [polypeptide binding]; other site 640511005968 Protein of unknown function (DUF1211); Region: DUF1211; cl01421 640511005969 Cupin domain; Region: Cupin_2; pfam07883 640511005970 mercuric reductase; Validated; Region: PRK06370 640511005971 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 640511005972 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640511005973 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 640511005974 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 640511005975 GAF domain; Region: GAF; pfam01590 640511005976 PAS fold; Region: PAS; pfam00989 640511005977 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 640511005978 putative active site [active] 640511005979 heme pocket [chemical binding]; other site 640511005980 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640511005981 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640511005982 metal binding site [ion binding]; metal-binding site 640511005983 active site 640511005984 I-site; other site 640511005985 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 640511005986 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 640511005987 Winged helix-turn-helix DNA-binding; Region: HTH_35; cl17423 640511005988 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 640511005989 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511005990 DNA-binding site [nucleotide binding]; DNA binding site 640511005991 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 640511005992 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511005993 homodimer interface [polypeptide binding]; other site 640511005994 catalytic residue [active] 640511005995 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 640511005996 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 640511005997 putative molybdopterin cofactor binding site [chemical binding]; other site 640511005998 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 640511005999 putative molybdopterin cofactor binding site; other site 640511006000 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 640511006001 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640511006002 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640511006003 DNA binding site [nucleotide binding] 640511006004 domain linker motif; other site 640511006005 Ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR_like_2; cd06282 640511006006 putative dimerization interface [polypeptide binding]; other site 640511006007 putative ligand binding site [chemical binding]; other site 640511006008 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 640511006009 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 640511006010 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 640511006011 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 640511006012 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 640511006013 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511006014 dimer interface [polypeptide binding]; other site 640511006015 conserved gate region; other site 640511006016 putative PBP binding loops; other site 640511006017 ABC-ATPase subunit interface; other site 640511006018 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 640511006019 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640511006020 Walker A/P-loop; other site 640511006021 ATP binding site [chemical binding]; other site 640511006022 Q-loop/lid; other site 640511006023 ABC transporter signature motif; other site 640511006024 Walker B; other site 640511006025 D-loop; other site 640511006026 H-loop/switch region; other site 640511006027 TOBE domain; Region: TOBE_2; pfam08402 640511006028 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 640511006029 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 640511006030 active site 640511006031 metal binding site [ion binding]; metal-binding site 640511006032 hexamer interface [polypeptide binding]; other site 640511006033 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511006034 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 640511006035 Protein of unknown function (DUF1493); Region: DUF1493; pfam07377 640511006036 Response regulator receiver domain; Region: Response_reg; pfam00072 640511006037 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511006038 active site 640511006039 phosphorylation site [posttranslational modification] 640511006040 intermolecular recognition site; other site 640511006041 dimerization interface [polypeptide binding]; other site 640511006042 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640511006043 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511006044 active site 640511006045 phosphorylation site [posttranslational modification] 640511006046 intermolecular recognition site; other site 640511006047 dimerization interface [polypeptide binding]; other site 640511006048 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 640511006049 DNA binding residues [nucleotide binding] 640511006050 dimerization interface [polypeptide binding]; other site 640511006051 Ferritin-like domain; Region: Ferritin; pfam00210 640511006052 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 640511006053 dinuclear metal binding motif [ion binding]; other site 640511006054 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640511006055 Histidine kinase; Region: HisKA_3; pfam07730 640511006056 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511006057 ATP binding site [chemical binding]; other site 640511006058 Mg2+ binding site [ion binding]; other site 640511006059 G-X-G motif; other site 640511006060 Predicted small secreted protein [Function unknown]; Region: COG5510 640511006061 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 640511006062 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 640511006063 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 640511006064 active site 640511006065 FMN binding site [chemical binding]; other site 640511006066 2,4-decadienoyl-CoA binding site; other site 640511006067 catalytic residue [active] 640511006068 4Fe-4S cluster binding site [ion binding]; other site 640511006069 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 640511006070 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 640511006071 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 640511006072 EamA-like transporter family; Region: EamA; pfam00892 640511006073 EamA-like transporter family; Region: EamA; pfam00892 640511006074 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 640511006075 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 640511006076 Moco binding site; other site 640511006077 metal coordination site [ion binding]; other site 640511006078 Thiosulfate reductase cytochrome B subunit (membrane anchoring protein) [Energy production and conversion]; Region: COG4117 640511006079 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 640511006080 Protein of unknown function (DUF1223); Region: DUF1223; pfam06764 640511006081 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 640511006082 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 640511006083 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 640511006084 ThiC-associated domain; Region: ThiC-associated; pfam13667 640511006085 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 640511006086 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 640511006087 L-lactate permease; Region: Lactate_perm; cl00701 640511006088 EamA-like transporter family; Region: EamA; pfam00892 640511006089 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 640511006090 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 640511006091 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 640511006092 Protein of unknown function (DUF2844); Region: DUF2844; pfam11005 640511006093 Protein of unknown function (DUF3443); Region: DUF3443; pfam11925 640511006094 2-isopropylmalate synthase; Validated; Region: PRK03739 640511006095 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 640511006096 active site 640511006097 catalytic residues [active] 640511006098 metal binding site [ion binding]; metal-binding site 640511006099 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 640511006100 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 640511006101 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 640511006102 substrate binding pocket [chemical binding]; other site 640511006103 membrane-bound complex binding site; other site 640511006104 hinge residues; other site 640511006105 benzoyl-CoA oxygenase/reductase, BoxA protein; Region: benzo_boxA; TIGR03224 640511006106 4Fe-4S binding domain; Region: Fer4; pfam00037 640511006107 4Fe-4S binding domain; Region: Fer4; pfam00037 640511006108 These ferredoxin reductases are related to the NADPH cytochrome p450 reductases (CYPOR), but lack the FAD-binding region connecting sub-domain. Ferredoxin-NADP+ reductase (FNR) is an FAD-containing enzyme that catalyzes the reversible electron transfer...; Region: CYPOR_like_FNR; cd06208 640511006109 dimerization interface [polypeptide binding]; other site 640511006110 FAD binding pocket [chemical binding]; other site 640511006111 FAD binding motif [chemical binding]; other site 640511006112 catalytic residues [active] 640511006113 NAD binding pocket [chemical binding]; other site 640511006114 phosphate binding motif [ion binding]; other site 640511006115 beta-alpha-beta structure motif; other site 640511006116 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 640511006117 benzoyl-CoA-dihydrodiol lyase; Provisional; Region: PRK08184 640511006118 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 640511006119 substrate binding site [chemical binding]; other site 640511006120 oxyanion hole (OAH) forming residues; other site 640511006121 trimer interface [polypeptide binding]; other site 640511006122 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 640511006123 oxyanion hole (OAH) forming residues; other site 640511006124 trimer interface [polypeptide binding]; other site 640511006125 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 640511006126 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 640511006127 non-specific DNA binding site [nucleotide binding]; other site 640511006128 salt bridge; other site 640511006129 sequence-specific DNA binding site [nucleotide binding]; other site 640511006130 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 640511006131 Shikimate kinase; Region: SKI; pfam01202 640511006132 ADP binding site [chemical binding]; other site 640511006133 magnesium binding site [ion binding]; other site 640511006134 putative shikimate binding site; other site 640511006135 Benzoate CoA ligase (BCL) and 4-Hydroxybenzoate-Coenzyme A Ligase (4-HBA-CoA ligase); Region: BCL_4HBCL; cd05959 640511006136 benzoate-CoA ligase family; Region: benz_CoA_lig; TIGR02262 640511006137 dimer interface [polypeptide binding]; other site 640511006138 acyl-activating enzyme (AAE) consensus motif; other site 640511006139 putative active site [active] 640511006140 putative AMP binding site [chemical binding]; other site 640511006141 putative CoA binding site [chemical binding]; other site 640511006142 chemical substrate binding site [chemical binding]; other site 640511006143 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640511006144 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 640511006145 Phosphoesterase family; Region: Phosphoesterase; pfam04185 640511006146 Domain of unknown function (DUF756); Region: DUF756; pfam05506 640511006147 Domain of unknown function (DUF756); Region: DUF756; pfam05506 640511006148 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 640511006149 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_3; cd05971 640511006150 active site 640511006151 acyl-activating enzyme (AAE) consensus motif; other site 640511006152 putative CoA binding site [chemical binding]; other site 640511006153 AMP binding site [chemical binding]; other site 640511006154 Alpha 1,4-glycosyltransferase conserved region; Region: Gb3_synth; pfam04572 640511006155 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511006156 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511006157 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 640511006158 putative effector binding pocket; other site 640511006159 dimerization interface [polypeptide binding]; other site 640511006160 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 640511006161 substrate binding site [chemical binding]; other site 640511006162 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 640511006163 oxyanion hole (OAH) forming residues; other site 640511006164 trimer interface [polypeptide binding]; other site 640511006165 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 640511006166 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 640511006167 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 640511006168 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640511006169 active site 640511006170 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 640511006171 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 640511006172 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 640511006173 active site 640511006174 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 640511006175 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 640511006176 DNA binding residues [nucleotide binding] 640511006177 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 640511006178 IHF dimer interface [polypeptide binding]; other site 640511006179 IHF - DNA interface [nucleotide binding]; other site 640511006180 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 640511006181 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 640511006182 putative tRNA-binding site [nucleotide binding]; other site 640511006183 B3/4 domain; Region: B3_4; pfam03483 640511006184 tRNA synthetase B5 domain; Region: B5; smart00874 640511006185 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 640511006186 dimer interface [polypeptide binding]; other site 640511006187 motif 1; other site 640511006188 motif 3; other site 640511006189 motif 2; other site 640511006190 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 640511006191 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 640511006192 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 640511006193 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 640511006194 dimer interface [polypeptide binding]; other site 640511006195 motif 1; other site 640511006196 active site 640511006197 motif 2; other site 640511006198 motif 3; other site 640511006199 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 640511006200 23S rRNA binding site [nucleotide binding]; other site 640511006201 L21 binding site [polypeptide binding]; other site 640511006202 L13 binding site [polypeptide binding]; other site 640511006203 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 640511006204 translation initiation factor IF-3; Region: infC; TIGR00168 640511006205 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 640511006206 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 640511006207 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 640511006208 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 640511006209 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 640511006210 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 640511006211 active site 640511006212 dimer interface [polypeptide binding]; other site 640511006213 motif 1; other site 640511006214 motif 2; other site 640511006215 motif 3; other site 640511006216 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 640511006217 anticodon binding site; other site 640511006218 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 640511006219 HD domain; Region: HD_4; pfam13328 640511006220 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 640511006221 synthetase active site [active] 640511006222 NTP binding site [chemical binding]; other site 640511006223 metal binding site [ion binding]; metal-binding site 640511006224 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 640511006225 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 640511006226 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 640511006227 homotrimer interaction site [polypeptide binding]; other site 640511006228 putative active site [active] 640511006229 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 640511006230 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 640511006231 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 640511006232 PAS domain; Region: PAS_9; pfam13426 640511006233 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 640511006234 putative active site [active] 640511006235 heme pocket [chemical binding]; other site 640511006236 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 640511006237 DNA binding residues [nucleotide binding] 640511006238 dimerization interface [polypeptide binding]; other site 640511006239 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 640511006240 active site 640511006241 short chain dehydrogenase; Provisional; Region: PRK06949 640511006242 classical (c) SDRs; Region: SDR_c; cd05233 640511006243 NAD(P) binding site [chemical binding]; other site 640511006244 active site 640511006245 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 640511006246 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 640511006247 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 640511006248 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 640511006249 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 640511006250 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 640511006251 Tetramer interface [polypeptide binding]; other site 640511006252 active site 640511006253 FMN-binding site [chemical binding]; other site 640511006254 lysophospholipid transporter LplT; Provisional; Region: PRK11195 640511006255 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511006256 putative substrate translocation pore; other site 640511006257 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 640511006258 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 640511006259 putative acyl-acceptor binding pocket; other site 640511006260 FOG: CBS domain [General function prediction only]; Region: COG0517 640511006261 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_12; cd04625 640511006262 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK08134 640511006263 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 640511006264 homodimer interface [polypeptide binding]; other site 640511006265 substrate-cofactor binding pocket; other site 640511006266 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511006267 catalytic residue [active] 640511006268 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640511006269 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 640511006270 Protein of unknown function (DUF962); Region: DUF962; cl01879 640511006271 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 640511006272 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 640511006273 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 640511006274 Predicted membrane protein (DUF2069); Region: DUF2069; pfam09842 640511006275 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 640511006276 FAD binding domain; Region: FAD_binding_4; pfam01565 640511006277 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 640511006278 Microscilla MS158 and related proteins, metallophosphatase domain; Region: MPP_MS158; cd07404 640511006279 putative active site [active] 640511006280 putative metal binding site [ion binding]; other site 640511006281 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511006282 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511006283 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 640511006284 putative effector binding pocket; other site 640511006285 dimerization interface [polypeptide binding]; other site 640511006286 multidrug resistance outer membrane protein MdtQ; Provisional; Region: PRK11459 640511006287 Fusaric acid resistance protein family; Region: FUSC; pfam04632 640511006288 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 640511006289 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 640511006290 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 640511006291 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640511006292 HlyD family secretion protein; Region: HlyD_3; pfam13437 640511006293 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 640511006294 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 640511006295 Protein of unknown function (DUF2974); Region: DUF2974; pfam11187 640511006296 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 640511006297 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 640511006298 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640511006299 dimer interface [polypeptide binding]; other site 640511006300 putative CheW interface [polypeptide binding]; other site 640511006301 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511006302 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640511006303 putative substrate translocation pore; other site 640511006304 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 640511006305 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 640511006306 acyl-activating enzyme (AAE) consensus motif; other site 640511006307 AMP binding site [chemical binding]; other site 640511006308 active site 640511006309 CoA binding site [chemical binding]; other site 640511006310 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 640511006311 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 640511006312 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 640511006313 Part of AAA domain; Region: AAA_19; pfam13245 640511006314 Family description; Region: UvrD_C_2; pfam13538 640511006315 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 640511006316 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 640511006317 HIGH motif; other site 640511006318 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 640511006319 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 640511006320 active site 640511006321 KMSKS motif; other site 640511006322 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 640511006323 tRNA binding surface [nucleotide binding]; other site 640511006324 anticodon binding site; other site 640511006325 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 640511006326 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 640511006327 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 640511006328 active site 640511006329 tetramer interface; other site 640511006330 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 640511006331 CPxP motif; other site 640511006332 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 640511006333 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 640511006334 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 640511006335 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 640511006336 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 640511006337 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 640511006338 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 640511006339 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 640511006340 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 640511006341 putative active site [active] 640511006342 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_4; cd06312 640511006343 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640511006344 putative ligand binding site [chemical binding]; other site 640511006345 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640511006346 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 640511006347 TM-ABC transporter signature motif; other site 640511006348 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 640511006349 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 640511006350 Walker A/P-loop; other site 640511006351 ATP binding site [chemical binding]; other site 640511006352 Q-loop/lid; other site 640511006353 ABC transporter signature motif; other site 640511006354 Walker B; other site 640511006355 D-loop; other site 640511006356 H-loop/switch region; other site 640511006357 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 640511006358 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 640511006359 substrate binding site [chemical binding]; other site 640511006360 ATP binding site [chemical binding]; other site 640511006361 Uncharacterized protein conserved in bacteria (DUF2090); Region: DUF2090; pfam09863 640511006362 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3892 640511006363 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 640511006364 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 640511006365 PYR/PP interface [polypeptide binding]; other site 640511006366 dimer interface [polypeptide binding]; other site 640511006367 TPP binding site [chemical binding]; other site 640511006368 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 640511006369 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 640511006370 TPP-binding site; other site 640511006371 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 640511006372 KduI/IolB family; Region: KduI; pfam04962 640511006373 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 640511006374 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 640511006375 Walker A/P-loop; other site 640511006376 ATP binding site [chemical binding]; other site 640511006377 Q-loop/lid; other site 640511006378 ABC transporter signature motif; other site 640511006379 Walker B; other site 640511006380 D-loop; other site 640511006381 H-loop/switch region; other site 640511006382 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 640511006383 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 640511006384 Walker A/P-loop; other site 640511006385 ATP binding site [chemical binding]; other site 640511006386 Q-loop/lid; other site 640511006387 ABC transporter signature motif; other site 640511006388 Walker B; other site 640511006389 D-loop; other site 640511006390 H-loop/switch region; other site 640511006391 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 640511006392 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 640511006393 TM-ABC transporter signature motif; other site 640511006394 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 640511006395 TM-ABC transporter signature motif; other site 640511006396 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 640511006397 active site 640511006398 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 640511006399 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 640511006400 putative active site [active] 640511006401 metal binding site [ion binding]; metal-binding site 640511006402 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 640511006403 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 640511006404 nudix motif; other site 640511006405 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 640511006406 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 640511006407 tetramer interface [polypeptide binding]; other site 640511006408 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511006409 catalytic residue [active] 640511006410 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 640511006411 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511006412 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511006413 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 640511006414 dimerization interface [polypeptide binding]; other site 640511006415 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 640511006416 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 640511006417 motif 1; other site 640511006418 active site 640511006419 motif 2; other site 640511006420 motif 3; other site 640511006421 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; cl17802 640511006422 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 640511006423 DHHA1 domain; Region: DHHA1; pfam02272 640511006424 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 640511006425 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640511006426 Serine hydrolase; Region: Ser_hydrolase; pfam06821 640511006427 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 640511006428 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 640511006429 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 640511006430 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 640511006431 active site 640511006432 HIGH motif; other site 640511006433 nucleotide binding site [chemical binding]; other site 640511006434 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 640511006435 KMSKS motif; other site 640511006436 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 640511006437 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 640511006438 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 640511006439 substrate binding pocket [chemical binding]; other site 640511006440 membrane-bound complex binding site; other site 640511006441 hinge residues; other site 640511006442 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 640511006443 nudix motif; other site 640511006444 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 640511006445 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640511006446 dimer interface [polypeptide binding]; other site 640511006447 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 640511006448 putative CheW interface [polypeptide binding]; other site 640511006449 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK12554 640511006450 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 640511006451 active site 640511006452 catalytic residues [active] 640511006453 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 640511006454 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 640511006455 Peptidase family M23; Region: Peptidase_M23; pfam01551 640511006456 Protein of unknown function (DUF2288); Region: DUF2288; pfam10052 640511006457 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 640511006458 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 640511006459 Protein of unknown function (DUF3309); Region: DUF3309; pfam11752 640511006460 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 640511006461 catalytic core [active] 640511006462 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 640511006463 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 640511006464 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 640511006465 polyphosphate kinase; Provisional; Region: PRK05443 640511006466 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 640511006467 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 640511006468 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 640511006469 putative active site [active] 640511006470 catalytic site [active] 640511006471 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 640511006472 putative domain interface [polypeptide binding]; other site 640511006473 putative active site [active] 640511006474 catalytic site [active] 640511006475 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 640511006476 PAS domain; Region: PAS; smart00091 640511006477 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 640511006478 dimer interface [polypeptide binding]; other site 640511006479 phosphorylation site [posttranslational modification] 640511006480 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511006481 ATP binding site [chemical binding]; other site 640511006482 Mg2+ binding site [ion binding]; other site 640511006483 G-X-G motif; other site 640511006484 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 640511006485 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511006486 active site 640511006487 phosphorylation site [posttranslational modification] 640511006488 intermolecular recognition site; other site 640511006489 dimerization interface [polypeptide binding]; other site 640511006490 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 640511006491 DNA binding site [nucleotide binding] 640511006492 transcriptional regulator PhoU; Provisional; Region: PRK11115 640511006493 PhoU domain; Region: PhoU; pfam01895 640511006494 PhoU domain; Region: PhoU; pfam01895 640511006495 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 640511006496 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 640511006497 Walker A/P-loop; other site 640511006498 ATP binding site [chemical binding]; other site 640511006499 Q-loop/lid; other site 640511006500 ABC transporter signature motif; other site 640511006501 Walker B; other site 640511006502 D-loop; other site 640511006503 H-loop/switch region; other site 640511006504 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 640511006505 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511006506 dimer interface [polypeptide binding]; other site 640511006507 conserved gate region; other site 640511006508 putative PBP binding loops; other site 640511006509 ABC-ATPase subunit interface; other site 640511006510 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 640511006511 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511006512 dimer interface [polypeptide binding]; other site 640511006513 conserved gate region; other site 640511006514 putative PBP binding loops; other site 640511006515 ABC-ATPase subunit interface; other site 640511006516 PBP superfamily domain; Region: PBP_like_2; cl17296 640511006517 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 640511006518 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 640511006519 active site 640511006520 substrate binding site [chemical binding]; other site 640511006521 metal binding site [ion binding]; metal-binding site 640511006522 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 640511006523 dihydropteroate synthase; Region: DHPS; TIGR01496 640511006524 substrate binding pocket [chemical binding]; other site 640511006525 dimer interface [polypeptide binding]; other site 640511006526 inhibitor binding site; inhibition site 640511006527 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 640511006528 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 640511006529 Walker A motif; other site 640511006530 ATP binding site [chemical binding]; other site 640511006531 Walker B motif; other site 640511006532 arginine finger; other site 640511006533 Peptidase family M41; Region: Peptidase_M41; pfam01434 640511006534 FtsJ-like methyltransferase; Region: FtsJ; cl17430 640511006535 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 640511006536 Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly; Region: CRS1_YhbY; smart01103 640511006537 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 640511006538 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 640511006539 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 640511006540 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 640511006541 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 640511006542 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 640511006543 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 640511006544 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 640511006545 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 640511006546 ATP-grasp domain; Region: ATP-grasp_4; cl17255 640511006547 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 640511006548 IMP binding site; other site 640511006549 dimer interface [polypeptide binding]; other site 640511006550 interdomain contacts; other site 640511006551 partial ornithine binding site; other site 640511006552 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 640511006553 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 640511006554 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 640511006555 catalytic site [active] 640511006556 subunit interface [polypeptide binding]; other site 640511006557 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511006558 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640511006559 putative substrate translocation pore; other site 640511006560 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 640511006561 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 640511006562 N-acetyl-D-glucosamine binding site [chemical binding]; other site 640511006563 catalytic residue [active] 640511006564 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 640511006565 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 640511006566 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 640511006567 Methyltransferase domain; Region: Methyltransf_11; pfam08241 640511006568 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 640511006569 RNA/DNA hybrid binding site [nucleotide binding]; other site 640511006570 active site 640511006571 exonuclease, DNA polymerase III, epsilon subunit family; Region: dnaq; TIGR00573 640511006572 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 640511006573 active site 640511006574 catalytic site [active] 640511006575 substrate binding site [chemical binding]; other site 640511006576 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 640511006577 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 640511006578 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 640511006579 Walker A/P-loop; other site 640511006580 ATP binding site [chemical binding]; other site 640511006581 Q-loop/lid; other site 640511006582 ABC transporter signature motif; other site 640511006583 Walker B; other site 640511006584 D-loop; other site 640511006585 H-loop/switch region; other site 640511006586 Predicted membrane protein (DUF2214); Region: DUF2214; pfam09980 640511006587 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 640511006588 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640511006589 putative ADP-binding pocket [chemical binding]; other site 640511006590 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 640511006591 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 640511006592 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640511006593 Walker A/P-loop; other site 640511006594 ATP binding site [chemical binding]; other site 640511006595 Q-loop/lid; other site 640511006596 ABC transporter signature motif; other site 640511006597 Walker B; other site 640511006598 D-loop; other site 640511006599 H-loop/switch region; other site 640511006600 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 640511006601 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 640511006602 active site 640511006603 homotetramer interface [polypeptide binding]; other site 640511006604 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 640511006605 Trehalose-phosphatase; Region: Trehalose_PPase; pfam02358 640511006606 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 640511006607 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 640511006608 Cu(I) binding site [ion binding]; other site 640511006609 Protein of unknown function (DUF461); Region: DUF461; pfam04314 640511006610 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 640511006611 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 640511006612 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 640511006613 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 640511006614 GAF domain; Region: GAF; pfam01590 640511006615 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640511006616 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640511006617 metal binding site [ion binding]; metal-binding site 640511006618 active site 640511006619 I-site; other site 640511006620 TraB family; Region: TraB; pfam01963 640511006621 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 640511006622 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 640511006623 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 640511006624 GIY-YIG motif/motif A; other site 640511006625 active site 640511006626 catalytic site [active] 640511006627 putative DNA binding site [nucleotide binding]; other site 640511006628 metal binding site [ion binding]; metal-binding site 640511006629 UvrB/uvrC motif; Region: UVR; pfam02151 640511006630 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 640511006631 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 640511006632 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 640511006633 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 640511006634 elongation factor P; Validated; Region: PRK00529 640511006635 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 640511006636 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 640511006637 RNA binding site [nucleotide binding]; other site 640511006638 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 640511006639 RNA binding site [nucleotide binding]; other site 640511006640 CsbD-like; Region: CsbD; pfam05532 640511006641 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 640511006642 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511006643 active site 640511006644 phosphorylation site [posttranslational modification] 640511006645 intermolecular recognition site; other site 640511006646 dimerization interface [polypeptide binding]; other site 640511006647 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 640511006648 Walker A motif; other site 640511006649 ATP binding site [chemical binding]; other site 640511006650 Walker B motif; other site 640511006651 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 640511006652 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 640511006653 beta-hexosaminidase; Provisional; Region: PRK05337 640511006654 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 640511006655 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 640511006656 active site 640511006657 hydrophilic channel; other site 640511006658 dimerization interface [polypeptide binding]; other site 640511006659 catalytic residues [active] 640511006660 active site lid [active] 640511006661 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 640511006662 Recombination protein O N terminal; Region: RecO_N; pfam11967 640511006663 Recombination protein O C terminal; Region: RecO_C; pfam02565 640511006664 GTPase Era; Reviewed; Region: era; PRK00089 640511006665 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 640511006666 G1 box; other site 640511006667 GTP/Mg2+ binding site [chemical binding]; other site 640511006668 Switch I region; other site 640511006669 G2 box; other site 640511006670 Switch II region; other site 640511006671 G3 box; other site 640511006672 G4 box; other site 640511006673 G5 box; other site 640511006674 KH domain; Region: KH_2; pfam07650 640511006675 ribonuclease III; Reviewed; Region: PRK12372 640511006676 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 640511006677 dimerization interface [polypeptide binding]; other site 640511006678 active site 640511006679 metal binding site [ion binding]; metal-binding site 640511006680 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 640511006681 signal peptidase I; Provisional; Region: PRK10861 640511006682 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 640511006683 Catalytic site [active] 640511006684 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 640511006685 GTP-binding protein LepA; Provisional; Region: PRK05433 640511006686 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 640511006687 G1 box; other site 640511006688 putative GEF interaction site [polypeptide binding]; other site 640511006689 GTP/Mg2+ binding site [chemical binding]; other site 640511006690 Switch I region; other site 640511006691 G2 box; other site 640511006692 G3 box; other site 640511006693 Switch II region; other site 640511006694 G4 box; other site 640511006695 G5 box; other site 640511006696 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 640511006697 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 640511006698 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 640511006699 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 640511006700 catalytic residues [active] 640511006701 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 640511006702 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 640511006703 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 640511006704 protein binding site [polypeptide binding]; other site 640511006705 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 640511006706 protein binding site [polypeptide binding]; other site 640511006707 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 640511006708 anti-sigma E factor; Provisional; Region: rseB; PRK09455 640511006709 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 640511006710 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 640511006711 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640511006712 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 640511006713 DNA binding residues [nucleotide binding] 640511006714 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 640511006715 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 640511006716 dimer interface [polypeptide binding]; other site 640511006717 active site 640511006718 acyl carrier protein; Provisional; Region: acpP; PRK00982 640511006719 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 640511006720 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 640511006721 NAD(P) binding site [chemical binding]; other site 640511006722 homotetramer interface [polypeptide binding]; other site 640511006723 homodimer interface [polypeptide binding]; other site 640511006724 active site 640511006725 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 640511006726 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 640511006727 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 640511006728 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 640511006729 dimer interface [polypeptide binding]; other site 640511006730 active site 640511006731 CoA binding pocket [chemical binding]; other site 640511006732 putative phosphate acyltransferase; Provisional; Region: PRK05331 640511006733 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 640511006734 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 640511006735 Maf-like protein; Region: Maf; pfam02545 640511006736 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 640511006737 active site 640511006738 dimer interface [polypeptide binding]; other site 640511006739 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 640511006740 putative SAM binding site [chemical binding]; other site 640511006741 homodimer interface [polypeptide binding]; other site 640511006742 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 640511006743 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 640511006744 tandem repeat interface [polypeptide binding]; other site 640511006745 oligomer interface [polypeptide binding]; other site 640511006746 active site residues [active] 640511006747 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 640511006748 iron-sulfur cluster [ion binding]; other site 640511006749 [2Fe-2S] cluster binding site [ion binding]; other site 640511006750 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 640511006751 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 640511006752 motif II; other site 640511006753 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 640511006754 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 640511006755 RNA binding surface [nucleotide binding]; other site 640511006756 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 640511006757 active site 640511006758 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 640511006759 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 640511006760 homodimer interface [polypeptide binding]; other site 640511006761 oligonucleotide binding site [chemical binding]; other site 640511006762 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 640511006763 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 640511006764 FeS/SAM binding site; other site 640511006765 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 640511006766 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 640511006767 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 640511006768 GTP binding site; other site 640511006769 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 640511006770 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 640511006771 dimer interface [polypeptide binding]; other site 640511006772 putative functional site; other site 640511006773 putative MPT binding site; other site 640511006774 RmuC family; Region: RmuC; pfam02646 640511006775 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 640511006776 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 640511006777 dimerization interface [polypeptide binding]; other site 640511006778 ligand binding site [chemical binding]; other site 640511006779 NADP binding site [chemical binding]; other site 640511006780 catalytic site [active] 640511006781 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 640511006782 Uncharacterized conserved protein [Function unknown]; Region: COG1556 640511006783 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 640511006784 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 640511006785 active site 640511006786 Ferredoxin [Energy production and conversion]; Region: COG1146 640511006787 4Fe-4S binding domain; Region: Fer4; cl02805 640511006788 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 640511006789 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 640511006790 CreA protein; Region: CreA; pfam05981 640511006791 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 640511006792 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511006793 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640511006794 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511006795 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 640511006796 Predicted membrane protein [Function unknown]; Region: COG4392 640511006797 Protein of unknown function (DUF4088); Region: DUF4088; pfam13317 640511006798 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 640511006799 Part of AAA domain; Region: AAA_19; pfam13245 640511006800 Family description; Region: UvrD_C_2; pfam13538 640511006801 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 640511006802 RNA binding surface [nucleotide binding]; other site 640511006803 multidrug efflux protein; Reviewed; Region: PRK01766 640511006804 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 640511006805 cation binding site [ion binding]; other site 640511006806 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 640511006807 Sodium Bile acid symporter family; Region: SBF; pfam01758 640511006808 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 640511006809 PLD-like domain; Region: PLDc_2; pfam13091 640511006810 putative active site [active] 640511006811 catalytic site [active] 640511006812 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 640511006813 PLD-like domain; Region: PLDc_2; pfam13091 640511006814 putative active site [active] 640511006815 catalytic site [active] 640511006816 fumarate hydratase; Reviewed; Region: fumC; PRK00485 640511006817 Class II fumarases; Region: Fumarase_classII; cd01362 640511006818 active site 640511006819 tetramer interface [polypeptide binding]; other site 640511006820 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 640511006821 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 640511006822 dimerization interface [polypeptide binding]; other site 640511006823 putative DNA binding site [nucleotide binding]; other site 640511006824 putative Zn2+ binding site [ion binding]; other site 640511006825 thymidylate synthase; Provisional; Region: thyA; PRK13821 640511006826 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 640511006827 dimerization interface [polypeptide binding]; other site 640511006828 active site 640511006829 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 640511006830 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 640511006831 Walker A motif; other site 640511006832 ATP binding site [chemical binding]; other site 640511006833 Walker B motif; other site 640511006834 arginine finger; other site 640511006835 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 640511006836 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39G; cd02423 640511006837 putative active site [active] 640511006838 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 640511006839 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 640511006840 Walker A motif; other site 640511006841 ATP binding site [chemical binding]; other site 640511006842 Walker B motif; other site 640511006843 arginine finger; other site 640511006844 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 640511006845 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 640511006846 folate binding site [chemical binding]; other site 640511006847 NADP+ binding site [chemical binding]; other site 640511006848 peptidase PmbA; Provisional; Region: PRK11040 640511006849 hypothetical protein; Provisional; Region: PRK05255 640511006850 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 640511006851 MPT binding site; other site 640511006852 trimer interface [polypeptide binding]; other site 640511006853 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 640511006854 catalytic site [active] 640511006855 putative active site [active] 640511006856 putative substrate binding site [chemical binding]; other site 640511006857 dimer interface [polypeptide binding]; other site 640511006858 Peptidase family M48; Region: Peptidase_M48; pfam01435 640511006859 GTPase RsgA; Reviewed; Region: PRK00098 640511006860 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 640511006861 RNA binding site [nucleotide binding]; other site 640511006862 homodimer interface [polypeptide binding]; other site 640511006863 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 640511006864 GTPase/Zn-binding domain interface [polypeptide binding]; other site 640511006865 GTP/Mg2+ binding site [chemical binding]; other site 640511006866 G4 box; other site 640511006867 G5 box; other site 640511006868 G1 box; other site 640511006869 Switch I region; other site 640511006870 G2 box; other site 640511006871 G3 box; other site 640511006872 Switch II region; other site 640511006873 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 640511006874 CobD/CbiB family protein; Provisional; Region: PRK07630 640511006875 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 640511006876 putative active site [active] 640511006877 putative CoA binding site [chemical binding]; other site 640511006878 nudix motif; other site 640511006879 metal binding site [ion binding]; metal-binding site 640511006880 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 640511006881 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 640511006882 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 640511006883 RimM N-terminal domain; Region: RimM; pfam01782 640511006884 PRC-barrel domain; Region: PRC; pfam05239 640511006885 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 640511006886 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 640511006887 beta-propeller repeat; Region: PQQ; smart00564 640511006888 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5353 640511006889 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 640511006890 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 640511006891 FeS/SAM binding site; other site 640511006892 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 640511006893 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 640511006894 putative DNA binding site [nucleotide binding]; other site 640511006895 putative Zn2+ binding site [ion binding]; other site 640511006896 AsnC family; Region: AsnC_trans_reg; pfam01037 640511006897 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 640511006898 hydroxyglutarate oxidase; Provisional; Region: PRK11728 640511006899 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 640511006900 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 640511006901 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640511006902 active site 640511006903 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 640511006904 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 640511006905 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 640511006906 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 640511006907 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 640511006908 Ligand binding site [chemical binding]; other site 640511006909 Electron transfer flavoprotein domain; Region: ETF; pfam01012 640511006910 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 640511006911 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 640511006912 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511006913 dimer interface [polypeptide binding]; other site 640511006914 conserved gate region; other site 640511006915 ABC-ATPase subunit interface; other site 640511006916 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 640511006917 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 640511006918 Walker A/P-loop; other site 640511006919 ATP binding site [chemical binding]; other site 640511006920 Q-loop/lid; other site 640511006921 ABC transporter signature motif; other site 640511006922 Walker B; other site 640511006923 D-loop; other site 640511006924 H-loop/switch region; other site 640511006925 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 640511006926 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 640511006927 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 640511006928 enoyl-CoA hydratase; Validated; Region: PRK08139 640511006929 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 640511006930 substrate binding site [chemical binding]; other site 640511006931 oxyanion hole (OAH) forming residues; other site 640511006932 trimer interface [polypeptide binding]; other site 640511006933 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 640511006934 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 640511006935 putative active site [active] 640511006936 Zn binding site [ion binding]; other site 640511006937 Transglycosylase SLT domain; Region: SLT_2; pfam13406 640511006938 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 640511006939 N-acetyl-D-glucosamine binding site [chemical binding]; other site 640511006940 cysteine synthase B; Region: cysM; TIGR01138 640511006941 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 640511006942 dimer interface [polypeptide binding]; other site 640511006943 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511006944 catalytic residue [active] 640511006945 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 640511006946 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 640511006947 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 640511006948 NADP binding site [chemical binding]; other site 640511006949 homopentamer interface [polypeptide binding]; other site 640511006950 substrate binding site [chemical binding]; other site 640511006951 active site 640511006952 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 640511006953 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 640511006954 putative ribose interaction site [chemical binding]; other site 640511006955 putative ADP binding site [chemical binding]; other site 640511006956 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 640511006957 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 640511006958 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 640511006959 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 640511006960 tetratricopeptide repeat protein; Provisional; Region: PRK11788 640511006961 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 640511006962 binding surface 640511006963 TPR motif; other site 640511006964 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 640511006965 binding surface 640511006966 TPR motif; other site 640511006967 Protein of unknown function (DUF1049); Region: DUF1049; pfam06305 640511006968 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 640511006969 IHF dimer interface [polypeptide binding]; other site 640511006970 IHF - DNA interface [nucleotide binding]; other site 640511006971 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 640511006972 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 640511006973 RNA binding site [nucleotide binding]; other site 640511006974 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 640511006975 RNA binding site [nucleotide binding]; other site 640511006976 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 640511006977 RNA binding site [nucleotide binding]; other site 640511006978 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 640511006979 RNA binding site [nucleotide binding]; other site 640511006980 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 640511006981 RNA binding site [nucleotide binding]; other site 640511006982 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 640511006983 RNA binding site [nucleotide binding]; other site 640511006984 cytidylate kinase; Provisional; Region: cmk; PRK00023 640511006985 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 640511006986 CMP-binding site; other site 640511006987 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 640511006988 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 640511006989 hinge; other site 640511006990 active site 640511006991 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 640511006992 prephenate dehydrogenase; Validated; Region: PRK08507 640511006993 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 640511006994 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 640511006995 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511006996 homodimer interface [polypeptide binding]; other site 640511006997 catalytic residue [active] 640511006998 Chorismate mutase type II; Region: CM_2; cl00693 640511006999 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 640511007000 Prephenate dehydratase; Region: PDT; pfam00800 640511007001 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 640511007002 putative L-Phe binding site [chemical binding]; other site 640511007003 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 640511007004 homodimer interface [polypeptide binding]; other site 640511007005 substrate-cofactor binding pocket; other site 640511007006 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511007007 catalytic residue [active] 640511007008 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 640511007009 DNA gyrase subunit A; Validated; Region: PRK05560 640511007010 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 640511007011 CAP-like domain; other site 640511007012 active site 640511007013 primary dimer interface [polypeptide binding]; other site 640511007014 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 640511007015 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 640511007016 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 640511007017 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 640511007018 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 640511007019 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 640511007020 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640511007021 ligand binding site [chemical binding]; other site 640511007022 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 640511007023 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 640511007024 S-adenosylmethionine binding site [chemical binding]; other site 640511007025 phosphoglycolate phosphatase; Provisional; Region: PRK13222 640511007026 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 640511007027 motif II; other site 640511007028 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 640511007029 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 640511007030 ferrichrome/ferrioxamine B periplasmic transporter; Provisional; Region: PRK14048 640511007031 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 640511007032 PBP superfamily domain; Region: PBP_like; pfam12727 640511007033 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 640511007034 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 640511007035 putative dimer interface [polypeptide binding]; other site 640511007036 [2Fe-2S] cluster binding site [ion binding]; other site 640511007037 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 640511007038 putative dimer interface [polypeptide binding]; other site 640511007039 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 640511007040 SLBB domain; Region: SLBB; pfam10531 640511007041 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 640511007042 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 640511007043 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 640511007044 catalytic loop [active] 640511007045 iron binding site [ion binding]; other site 640511007046 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; smart00929 640511007047 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 640511007048 [4Fe-4S] binding site [ion binding]; other site 640511007049 molybdopterin cofactor binding site; other site 640511007050 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 640511007051 molybdopterin cofactor binding site; other site 640511007052 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 640511007053 FAD binding domain; Region: FAD_binding_3; pfam01494 640511007054 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 640511007055 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 640511007056 TPR motif; other site 640511007057 binding surface 640511007058 TPR repeat; Region: TPR_11; pfam13414 640511007059 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 640511007060 binding surface 640511007061 TPR motif; other site 640511007062 TPR repeat; Region: TPR_11; pfam13414 640511007063 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 640511007064 binding surface 640511007065 TPR motif; other site 640511007066 TPR repeat; Region: TPR_11; pfam13414 640511007067 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 640511007068 binding surface 640511007069 TPR repeat; Region: TPR_11; pfam13414 640511007070 TPR motif; other site 640511007071 ADP-heptose:LPS heptosyl transferase I; Provisional; Region: PRK10964; cl15782 640511007072 citrate-proton symporter; Provisional; Region: PRK15075 640511007073 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511007074 putative substrate translocation pore; other site 640511007075 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 640511007076 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640511007077 Coenzyme A binding pocket [chemical binding]; other site 640511007078 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 640511007079 Peptidase C26; Region: Peptidase_C26; pfam07722 640511007080 catalytic triad [active] 640511007081 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 640511007082 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 640511007083 amidase; Provisional; Region: PRK07056 640511007084 Amidase; Region: Amidase; cl11426 640511007085 disulfide bond formation protein B; Provisional; Region: PRK02110 640511007086 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 640511007087 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 640511007088 catalytic loop [active] 640511007089 iron binding site [ion binding]; other site 640511007090 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 640511007091 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 640511007092 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 640511007093 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 640511007094 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640511007095 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 640511007096 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 640511007097 XdhC Rossmann domain; Region: XdhC_C; pfam13478 640511007098 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 640511007099 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 640511007100 active site 640511007101 purine riboside binding site [chemical binding]; other site 640511007102 guanine deaminase; Provisional; Region: PRK09228 640511007103 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 640511007104 active site 640511007105 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 640511007106 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 640511007107 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 640511007108 dimer interface [polypeptide binding]; other site 640511007109 active site 640511007110 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 640511007111 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 640511007112 dimer interface [polypeptide binding]; other site 640511007113 active site 640511007114 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511007115 3-oxoacyl-(acyl-carrier-protein) reductase, putative; Region: fabG_rel; TIGR01831 640511007116 NAD(P) binding site [chemical binding]; other site 640511007117 active site 640511007118 Domain of unknown function, appears to be related to a diverse group of beta-hydroxydecanoyl ACP dehydratases (FabA) and beta-hydroxyacyl ACP dehydratases (FabZ). This group appears to lack the conserved active site histidine of FabA and FabZ; Region: FabA_like; cd01289 640511007119 putative active site 1 [active] 640511007120 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 640511007121 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 640511007122 dimer interface [polypeptide binding]; other site 640511007123 active site 640511007124 Predicted exporter [General function prediction only]; Region: COG4258 640511007125 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 640511007126 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 640511007127 active site 640511007128 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 640511007129 active sites [active] 640511007130 tetramer interface [polypeptide binding]; other site 640511007131 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 640511007132 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 640511007133 Ligand binding site; other site 640511007134 Putative Catalytic site; other site 640511007135 DXD motif; other site 640511007136 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 640511007137 putative acyl-acceptor binding pocket; other site 640511007138 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 640511007139 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 640511007140 AMP binding site [chemical binding]; other site 640511007141 active site 640511007142 acyl-activating enzyme (AAE) consensus motif; other site 640511007143 CoA binding site [chemical binding]; other site 640511007144 FabA/Z, beta-hydroxyacyl-acyl carrier protein (ACP)-dehydratases: One of several distinct enzyme types of the dissociative, type II, fatty acid synthase system (found in bacteria and plants) required to complete successive cycles of fatty acid elongation; Region: FabA_FabZ; cd00493 640511007145 active site 2 [active] 640511007146 dimer interface [polypeptide binding]; other site 640511007147 active site 1 [active] 640511007148 Predicted membrane protein [Function unknown]; Region: COG4648 640511007149 acyl carrier protein; Provisional; Region: PRK05350 640511007150 Phosphopantetheine attachment site; Region: PP-binding; cl09936 640511007151 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 640511007152 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 640511007153 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 640511007154 putative acyl-acceptor binding pocket; other site 640511007155 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 640511007156 Predicted membrane protein [Function unknown]; Region: COG2119 640511007157 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 640511007158 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 640511007159 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 640511007160 aminopeptidase N; Provisional; Region: pepN; PRK14015 640511007161 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 640511007162 active site 640511007163 Zn binding site [ion binding]; other site 640511007164 fructose-1,6-bisphosphatase family protein; Region: PLN02628 640511007165 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 640511007166 AMP binding site [chemical binding]; other site 640511007167 metal binding site [ion binding]; metal-binding site 640511007168 active site 640511007169 chorismate mutase; Provisional; Region: PRK09269 640511007170 Chorismate mutase type II; Region: CM_2; cl00693 640511007171 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 640511007172 active site 640511007173 catalytic site [active] 640511007174 substrate binding site [chemical binding]; other site 640511007175 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 640511007176 GIY-YIG motif/motif A; other site 640511007177 active site 640511007178 catalytic site [active] 640511007179 putative DNA binding site [nucleotide binding]; other site 640511007180 metal binding site [ion binding]; metal-binding site 640511007181 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 640511007182 DNA-binding site [nucleotide binding]; DNA binding site 640511007183 RNA-binding motif; other site 640511007184 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640511007185 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 640511007186 trimer interface [polypeptide binding]; other site 640511007187 eyelet of channel; other site 640511007188 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 640511007189 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 640511007190 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 640511007191 Protein of unknown function (DUF2591); Region: DUF2591; cl11584 640511007192 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 640511007193 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 640511007194 Zn2+ binding site [ion binding]; other site 640511007195 Mg2+ binding site [ion binding]; other site 640511007196 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 640511007197 synthetase active site [active] 640511007198 NTP binding site [chemical binding]; other site 640511007199 metal binding site [ion binding]; metal-binding site 640511007200 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 640511007201 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 640511007202 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 640511007203 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 640511007204 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 640511007205 catalytic site [active] 640511007206 G-X2-G-X-G-K; other site 640511007207 hypothetical protein; Provisional; Region: PRK11820 640511007208 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 640511007209 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 640511007210 ribonuclease PH; Reviewed; Region: rph; PRK00173 640511007211 Ribonuclease PH; Region: RNase_PH_bact; cd11362 640511007212 hexamer interface [polypeptide binding]; other site 640511007213 active site 640511007214 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 640511007215 active site 640511007216 dimerization interface [polypeptide binding]; other site 640511007217 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 640511007218 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 640511007219 FeS/SAM binding site; other site 640511007220 HemN C-terminal domain; Region: HemN_C; pfam06969 640511007221 Domain of unknown function (DUF4279); Region: DUF4279; pfam14106 640511007222 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 640511007223 homotrimer interaction site [polypeptide binding]; other site 640511007224 putative active site [active] 640511007225 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511007226 putative substrate translocation pore; other site 640511007227 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 640511007228 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 640511007229 inhibitor-cofactor binding pocket; inhibition site 640511007230 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511007231 catalytic residue [active] 640511007232 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 640511007233 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 640511007234 catalytic motif [active] 640511007235 Zn binding site [ion binding]; other site 640511007236 RibD C-terminal domain; Region: RibD_C; cl17279 640511007237 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 640511007238 Lumazine binding domain; Region: Lum_binding; pfam00677 640511007239 Lumazine binding domain; Region: Lum_binding; pfam00677 640511007240 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 640511007241 G1 box; other site 640511007242 GTP/Mg2+ binding site [chemical binding]; other site 640511007243 G2 box; other site 640511007244 Switch I region; other site 640511007245 G3 box; other site 640511007246 Switch II region; other site 640511007247 G4 box; other site 640511007248 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 640511007249 G1 box; other site 640511007250 GTP/Mg2+ binding site [chemical binding]; other site 640511007251 G2 box; other site 640511007252 Switch I region; other site 640511007253 G3 box; other site 640511007254 Switch II region; other site 640511007255 G4 box; other site 640511007256 G5 box; other site 640511007257 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 640511007258 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 640511007259 dimer interface [polypeptide binding]; other site 640511007260 active site 640511007261 muconolactone delta-isomerase; Region: muco_delta; TIGR03221 640511007262 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 640511007263 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 640511007264 octamer interface [polypeptide binding]; other site 640511007265 active site 640511007266 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 640511007267 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 640511007268 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 640511007269 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 640511007270 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 640511007271 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 3. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic...; Region: MR_like_3; cd03328 640511007272 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 640511007273 putative active site pocket [active] 640511007274 putative metal binding site [ion binding]; other site 640511007275 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 640511007276 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 640511007277 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 640511007278 dimerization interface [polypeptide binding]; other site 640511007279 active site 640511007280 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 640511007281 homopentamer interface [polypeptide binding]; other site 640511007282 active site 640511007283 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 640511007284 putative RNA binding site [nucleotide binding]; other site 640511007285 aminotransferase; Validated; Region: PRK07337 640511007286 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 640511007287 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511007288 homodimer interface [polypeptide binding]; other site 640511007289 catalytic residue [active] 640511007290 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 640511007291 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 640511007292 N-acetyl-D-glucosamine binding site [chemical binding]; other site 640511007293 catalytic residue [active] 640511007294 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 640511007295 LysE type translocator; Region: LysE; cl00565 640511007296 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 640511007297 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 640511007298 tetramer interface [polypeptide binding]; other site 640511007299 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511007300 catalytic residue [active] 640511007301 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 640511007302 EthD domain; Region: EthD; cl17553 640511007303 YGGT family; Region: YGGT; pfam02325 640511007304 YGGT family; Region: YGGT; pfam02325 640511007305 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 640511007306 HAMP domain; Region: HAMP; pfam00672 640511007307 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640511007308 dimer interface [polypeptide binding]; other site 640511007309 putative CheW interface [polypeptide binding]; other site 640511007310 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 640511007311 S-adenosylmethionine binding site [chemical binding]; other site 640511007312 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 640511007313 Protein of unknown function (DUF1439); Region: DUF1439; cl06345 640511007314 Flagellin N-methylase; Region: FliB; pfam03692 640511007315 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 640511007316 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 640511007317 FeS/SAM binding site; other site 640511007318 HemN C-terminal domain; Region: HemN_C; pfam06969 640511007319 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 640511007320 DNA-binding site [nucleotide binding]; DNA binding site 640511007321 RNA-binding motif; other site 640511007322 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 640511007323 Transcriptional activator HlyU; Region: HlyU; cl02273 640511007324 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640511007325 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 640511007326 dimer interface [polypeptide binding]; other site 640511007327 phosphorylation site [posttranslational modification] 640511007328 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511007329 ATP binding site [chemical binding]; other site 640511007330 G-X-G motif; other site 640511007331 Response regulator receiver domain; Region: Response_reg; pfam00072 640511007332 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511007333 active site 640511007334 phosphorylation site [posttranslational modification] 640511007335 intermolecular recognition site; other site 640511007336 dimerization interface [polypeptide binding]; other site 640511007337 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640511007338 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640511007339 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 640511007340 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 640511007341 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 640511007342 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 640511007343 S-adenosylmethionine binding site [chemical binding]; other site 640511007344 Protein of unknown function (DUF2029); Region: DUF2029; pfam09594 640511007345 aromatic amino acid transporter; Provisional; Region: PRK10238 640511007346 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640511007347 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 640511007348 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_1; cd08663 640511007349 SxDxEG motif; other site 640511007350 active site 640511007351 metal binding site [ion binding]; metal-binding site 640511007352 homopentamer interface [polypeptide binding]; other site 640511007353 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 640511007354 homodimer interface [polypeptide binding]; other site 640511007355 homotetramer interface [polypeptide binding]; other site 640511007356 active site pocket [active] 640511007357 cleavage site 640511007358 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 640511007359 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511007360 dimer interface [polypeptide binding]; other site 640511007361 conserved gate region; other site 640511007362 putative PBP binding loops; other site 640511007363 ABC-ATPase subunit interface; other site 640511007364 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 640511007365 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511007366 dimer interface [polypeptide binding]; other site 640511007367 conserved gate region; other site 640511007368 putative PBP binding loops; other site 640511007369 ABC-ATPase subunit interface; other site 640511007370 glutathione ABC transporter substrate-binding protein GsiB; Provisional; Region: PRK15413 640511007371 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 640511007372 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 640511007373 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640511007374 Walker A/P-loop; other site 640511007375 ATP binding site [chemical binding]; other site 640511007376 Q-loop/lid; other site 640511007377 ABC transporter signature motif; other site 640511007378 Walker B; other site 640511007379 D-loop; other site 640511007380 H-loop/switch region; other site 640511007381 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640511007382 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640511007383 Walker A/P-loop; other site 640511007384 ATP binding site [chemical binding]; other site 640511007385 Q-loop/lid; other site 640511007386 ABC transporter signature motif; other site 640511007387 Walker B; other site 640511007388 D-loop; other site 640511007389 H-loop/switch region; other site 640511007390 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 640511007391 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 640511007392 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 640511007393 catalytic nucleophile [active] 640511007394 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 640511007395 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 640511007396 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 640511007397 putative active site [active] 640511007398 H+ Antiporter protein; Region: 2A0121; TIGR00900 640511007399 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 640511007400 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 640511007401 RNA binding surface [nucleotide binding]; other site 640511007402 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 640511007403 active site 640511007404 uracil binding [chemical binding]; other site 640511007405 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 640511007406 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511007407 NAD(P) binding site [chemical binding]; other site 640511007408 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511007409 active site 640511007410 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 640511007411 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 640511007412 catalytic loop [active] 640511007413 iron binding site [ion binding]; other site 640511007414 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 640511007415 FAD binding pocket [chemical binding]; other site 640511007416 FAD binding motif [chemical binding]; other site 640511007417 phosphate binding motif [ion binding]; other site 640511007418 beta-alpha-beta structure motif; other site 640511007419 NAD binding pocket [chemical binding]; other site 640511007420 acetylornithine transaminase protein; Provisional; Region: argD; PRK03715 640511007421 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 640511007422 inhibitor-cofactor binding pocket; inhibition site 640511007423 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511007424 catalytic residue [active] 640511007425 putative acetyltransferase; Provisional; Region: PRK03624 640511007426 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640511007427 Coenzyme A binding pocket [chemical binding]; other site 640511007428 GYD domain; Region: GYD; pfam08734 640511007429 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 640511007430 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 640511007431 Walker A/P-loop; other site 640511007432 ATP binding site [chemical binding]; other site 640511007433 Q-loop/lid; other site 640511007434 ABC transporter signature motif; other site 640511007435 Walker B; other site 640511007436 D-loop; other site 640511007437 H-loop/switch region; other site 640511007438 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 640511007439 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 640511007440 Walker A/P-loop; other site 640511007441 ATP binding site [chemical binding]; other site 640511007442 Q-loop/lid; other site 640511007443 ABC transporter signature motif; other site 640511007444 Walker B; other site 640511007445 D-loop; other site 640511007446 H-loop/switch region; other site 640511007447 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 640511007448 TM-ABC transporter signature motif; other site 640511007449 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640511007450 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 640511007451 TM-ABC transporter signature motif; other site 640511007452 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 640511007453 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 640511007454 dimerization interface [polypeptide binding]; other site 640511007455 ligand binding site [chemical binding]; other site 640511007456 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 640511007457 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 640511007458 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 640511007459 hypothetical protein; Reviewed; Region: PRK00024 640511007460 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 640511007461 MPN+ (JAMM) motif; other site 640511007462 Zinc-binding site [ion binding]; other site 640511007463 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 640511007464 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 640511007465 L-aspartate oxidase; Provisional; Region: PRK09077 640511007466 L-aspartate oxidase; Provisional; Region: PRK06175 640511007467 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 640511007468 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06978 640511007469 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 640511007470 dimerization interface [polypeptide binding]; other site 640511007471 active site 640511007472 quinolinate synthetase; Provisional; Region: PRK09375 640511007473 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 640511007474 Fatty acid desaturase; Region: FA_desaturase; pfam00487 640511007475 Di-iron ligands [ion binding]; other site 640511007476 Transposase; Region: DDE_Tnp_ISL3; pfam01610 640511007477 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 640511007478 Mechanosensitive ion channel; Region: MS_channel; pfam00924 640511007479 16S rRNA methyltransferase B; Provisional; Region: PRK14901 640511007480 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 640511007481 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 640511007482 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 640511007483 active site 640511007484 substrate binding site [chemical binding]; other site 640511007485 cosubstrate binding site; other site 640511007486 catalytic site [active] 640511007487 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 640511007488 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 640511007489 active site 640511007490 Riboflavin kinase; Region: Flavokinase; smart00904 640511007491 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 640511007492 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 640511007493 active site 640511007494 HIGH motif; other site 640511007495 nucleotide binding site [chemical binding]; other site 640511007496 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 640511007497 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 640511007498 active site 640511007499 KMSKS motif; other site 640511007500 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 640511007501 tRNA binding surface [nucleotide binding]; other site 640511007502 anticodon binding site; other site 640511007503 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 640511007504 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 640511007505 lipoprotein signal peptidase; Provisional; Region: PRK14787 640511007506 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 640511007507 Flavoprotein; Region: Flavoprotein; pfam02441 640511007508 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 640511007509 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 640511007510 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 640511007511 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 640511007512 trimer interface [polypeptide binding]; other site 640511007513 active site 640511007514 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 640511007515 Clp amino terminal domain; Region: Clp_N; pfam02861 640511007516 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 640511007517 Walker A motif; other site 640511007518 ATP binding site [chemical binding]; other site 640511007519 Walker B motif; other site 640511007520 arginine finger; other site 640511007521 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 640511007522 Walker A motif; other site 640511007523 ATP binding site [chemical binding]; other site 640511007524 Walker B motif; other site 640511007525 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 640511007526 Uncharacterized conserved protein [Function unknown]; Region: COG2127 640511007527 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 640511007528 DNA-binding site [nucleotide binding]; DNA binding site 640511007529 RNA-binding motif; other site 640511007530 isocitrate dehydrogenase; Validated; Region: PRK07362 640511007531 isocitrate dehydrogenase; Reviewed; Region: PRK07006 640511007532 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 640511007533 pseudouridine synthase; Region: TIGR00093 640511007534 active site 640511007535 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 640511007536 elongation factor G; Reviewed; Region: PRK00007 640511007537 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 640511007538 G1 box; other site 640511007539 putative GEF interaction site [polypeptide binding]; other site 640511007540 GTP/Mg2+ binding site [chemical binding]; other site 640511007541 Switch I region; other site 640511007542 G2 box; other site 640511007543 G3 box; other site 640511007544 Switch II region; other site 640511007545 G4 box; other site 640511007546 G5 box; other site 640511007547 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 640511007548 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 640511007549 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 640511007550 Cupin domain; Region: Cupin_2; cl17218 640511007551 High-affinity nickel permease [Inorganic ion transport and metabolism]; Region: HoxN; COG3376 640511007552 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 640511007553 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640511007554 HlyD family secretion protein; Region: HlyD_3; pfam13437 640511007555 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 640511007556 putative active site [active] 640511007557 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 640511007558 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 640511007559 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640511007560 Walker A/P-loop; other site 640511007561 ATP binding site [chemical binding]; other site 640511007562 Q-loop/lid; other site 640511007563 ABC transporter signature motif; other site 640511007564 Walker B; other site 640511007565 D-loop; other site 640511007566 H-loop/switch region; other site 640511007567 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640511007568 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511007569 active site 640511007570 phosphorylation site [posttranslational modification] 640511007571 intermolecular recognition site; other site 640511007572 dimerization interface [polypeptide binding]; other site 640511007573 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 640511007574 dimerization interface [polypeptide binding]; other site 640511007575 DNA binding residues [nucleotide binding] 640511007576 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 640511007577 aminotransferase AlaT; Validated; Region: PRK09265 640511007578 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 640511007579 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511007580 homodimer interface [polypeptide binding]; other site 640511007581 catalytic residue [active] 640511007582 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 640511007583 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 640511007584 ATP-grasp domain; Region: ATP-grasp_4; cl17255 640511007585 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640511007586 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 640511007587 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 640511007588 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 640511007589 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640511007590 ligand binding site [chemical binding]; other site 640511007591 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 640511007592 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 640511007593 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 640511007594 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 640511007595 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 640511007596 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 640511007597 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 640511007598 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 640511007599 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 640511007600 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 640511007601 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 640511007602 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511007603 dimer interface [polypeptide binding]; other site 640511007604 conserved gate region; other site 640511007605 putative PBP binding loops; other site 640511007606 ABC-ATPase subunit interface; other site 640511007607 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 640511007608 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511007609 putative PBP binding loops; other site 640511007610 dimer interface [polypeptide binding]; other site 640511007611 ABC-ATPase subunit interface; other site 640511007612 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 640511007613 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640511007614 Walker A/P-loop; other site 640511007615 ATP binding site [chemical binding]; other site 640511007616 Q-loop/lid; other site 640511007617 ABC transporter signature motif; other site 640511007618 Walker B; other site 640511007619 D-loop; other site 640511007620 H-loop/switch region; other site 640511007621 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640511007622 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640511007623 Walker A/P-loop; other site 640511007624 ATP binding site [chemical binding]; other site 640511007625 Q-loop/lid; other site 640511007626 ABC transporter signature motif; other site 640511007627 Walker B; other site 640511007628 D-loop; other site 640511007629 H-loop/switch region; other site 640511007630 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640511007631 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 640511007632 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 640511007633 active site 640511007634 catalytic tetrad [active] 640511007635 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 640511007636 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511007637 DNA-binding site [nucleotide binding]; DNA binding site 640511007638 UTRA domain; Region: UTRA; pfam07702 640511007639 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 640511007640 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640511007641 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 640511007642 DNA binding residues [nucleotide binding] 640511007643 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 640511007644 active site 640511007645 coenzyme A binding site [chemical binding]; other site 640511007646 citrylCoA binding site [chemical binding]; other site 640511007647 dimer interface [polypeptide binding]; other site 640511007648 Citrate synthase; Region: Citrate_synt; pfam00285 640511007649 oxalacetate/citrate binding site [chemical binding]; other site 640511007650 catalytic triad [active] 640511007651 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 640511007652 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 640511007653 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511007654 DNA-binding site [nucleotide binding]; DNA binding site 640511007655 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 640511007656 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511007657 homodimer interface [polypeptide binding]; other site 640511007658 catalytic residue [active] 640511007659 putative transporter; Provisional; Region: PRK10504 640511007660 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511007661 putative substrate translocation pore; other site 640511007662 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511007663 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 640511007664 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640511007665 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 640511007666 DNA binding residues [nucleotide binding] 640511007667 Clp protease; Region: CLP_protease; pfam00574 640511007668 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 640511007669 oligomer interface [polypeptide binding]; other site 640511007670 active site residues [active] 640511007671 LabA_like proteins; Region: LabA_like; cd06167 640511007672 putative metal binding site [ion binding]; other site 640511007673 Uncharacterized conserved protein [Function unknown]; Region: COG1432 640511007674 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 640511007675 Glycine-zipper containing OmpA-like membrane domain; Region: Gly-zipper_OmpA; pfam13436 640511007676 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 640511007677 superoxide dismutase; Provisional; Region: PRK10543 640511007678 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 640511007679 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 640511007680 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 640511007681 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 640511007682 generic binding surface II; other site 640511007683 generic binding surface I; other site 640511007684 tetraacyldisaccharide 4'-kinase; Provisional; Region: PRK01906 640511007685 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 640511007686 Uncharacterized conserved protein [Function unknown]; Region: COG2835 640511007687 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 640511007688 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 640511007689 Ligand binding site; other site 640511007690 oligomer interface; other site 640511007691 adenylate kinase; Reviewed; Region: adk; PRK00279 640511007692 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 640511007693 AMP-binding site [chemical binding]; other site 640511007694 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 640511007695 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 640511007696 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 640511007697 NAD binding site [chemical binding]; other site 640511007698 homodimer interface [polypeptide binding]; other site 640511007699 homotetramer interface [polypeptide binding]; other site 640511007700 active site 640511007701 Uncharacterized conserved protein [Function unknown]; Region: COG2912 640511007702 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 640511007703 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 640511007704 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 640511007705 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 640511007706 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 640511007707 ornithine carbamoyltransferase; Provisional; Region: PRK00779 640511007708 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 640511007709 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 640511007710 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 640511007711 FAD binding domain; Region: FAD_binding_4; pfam01565 640511007712 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 640511007713 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 640511007714 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 640511007715 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 640511007716 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 640511007717 putative deacylase active site [active] 640511007718 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 640511007719 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 640511007720 acyl-activating enzyme (AAE) consensus motif; other site 640511007721 AMP binding site [chemical binding]; other site 640511007722 active site 640511007723 CoA binding site [chemical binding]; other site 640511007724 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 640511007725 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 640511007726 active site 640511007727 Int/Topo IB signature motif; other site 640511007728 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 640511007729 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 640511007730 DNA binding site [nucleotide binding] 640511007731 active site 640511007732 epoxyqueuosine reductase; Region: TIGR00276 640511007733 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 640511007734 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 640511007735 AMIN domain; Region: AMIN; pfam11741 640511007736 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 640511007737 active site 640511007738 metal binding site [ion binding]; metal-binding site 640511007739 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 640511007740 EamA-like transporter family; Region: EamA; pfam00892 640511007741 Pirin-related protein [General function prediction only]; Region: COG1741 640511007742 Pirin; Region: Pirin; pfam02678 640511007743 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 640511007744 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 640511007745 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 640511007746 catalytic residues [active] 640511007747 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 640511007748 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 640511007749 putative ATP binding site [chemical binding]; other site 640511007750 putative substrate interface [chemical binding]; other site 640511007751 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 640511007752 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 640511007753 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 640511007754 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 640511007755 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 640511007756 S-adenosylmethionine binding site [chemical binding]; other site 640511007757 Protein of unknown function DUF72; Region: DUF72; pfam01904 640511007758 methionine sulfoxide reductase A; Provisional; Region: PRK14054 640511007759 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 640511007760 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 640511007761 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 640511007762 putative DNA binding site [nucleotide binding]; other site 640511007763 putative Zn2+ binding site [ion binding]; other site 640511007764 AsnC family; Region: AsnC_trans_reg; pfam01037 640511007765 arylformamidase; Region: trp_arylform; TIGR03035 640511007766 Kynureninase [Amino acid transport and metabolism]; Region: COG3844 640511007767 kynureninase; Region: kynureninase; TIGR01814 640511007768 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640511007769 catalytic residue [active] 640511007770 tryptophan 2,3-dioxygenase; Region: trp_2_3_diox; TIGR03036 640511007771 putative FAD-binding dehydrogenase; Reviewed; Region: PRK06134 640511007772 short chain dehydrogenase; Provisional; Region: PRK07060 640511007773 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511007774 NAD(P) binding site [chemical binding]; other site 640511007775 active site 640511007776 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 640511007777 uncharacterized xylulose kinase-like proteins; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_XK_like_1; cd07804 640511007778 N- and C-terminal domain interface [polypeptide binding]; other site 640511007779 putative active site [active] 640511007780 MgATP binding site [chemical binding]; other site 640511007781 catalytic site [active] 640511007782 metal binding site [ion binding]; metal-binding site 640511007783 putative xylulose binding site [chemical binding]; other site 640511007784 putative homodimer interface [polypeptide binding]; other site 640511007785 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 640511007786 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH2; cd08256 640511007787 putative NAD(P) binding site [chemical binding]; other site 640511007788 catalytic Zn binding site [ion binding]; other site 640511007789 structural Zn binding site [ion binding]; other site 640511007790 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640511007791 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 640511007792 TM-ABC transporter signature motif; other site 640511007793 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 640511007794 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 640511007795 Walker A/P-loop; other site 640511007796 ATP binding site [chemical binding]; other site 640511007797 Q-loop/lid; other site 640511007798 ABC transporter signature motif; other site 640511007799 Walker B; other site 640511007800 D-loop; other site 640511007801 H-loop/switch region; other site 640511007802 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 640511007803 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 640511007804 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_11; cd06321 640511007805 putative ligand binding site [chemical binding]; other site 640511007806 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 640511007807 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 640511007808 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511007809 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 640511007810 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 640511007811 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 640511007812 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 640511007813 N- and C-terminal domain interface [polypeptide binding]; other site 640511007814 D-xylulose kinase; Region: XylB; TIGR01312 640511007815 active site 640511007816 MgATP binding site [chemical binding]; other site 640511007817 catalytic site [active] 640511007818 metal binding site [ion binding]; metal-binding site 640511007819 xylulose binding site [chemical binding]; other site 640511007820 homodimer interface [polypeptide binding]; other site 640511007821 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 640511007822 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 640511007823 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 640511007824 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 640511007825 Walker A/P-loop; other site 640511007826 ATP binding site [chemical binding]; other site 640511007827 Q-loop/lid; other site 640511007828 ABC transporter signature motif; other site 640511007829 Walker B; other site 640511007830 D-loop; other site 640511007831 H-loop/switch region; other site 640511007832 TOBE domain; Region: TOBE_2; pfam08402 640511007833 TOBE domain; Region: TOBE_2; pfam08402 640511007834 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 640511007835 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 640511007836 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511007837 dimer interface [polypeptide binding]; other site 640511007838 conserved gate region; other site 640511007839 putative PBP binding loops; other site 640511007840 ABC-ATPase subunit interface; other site 640511007841 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 640511007842 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 640511007843 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511007844 putative PBP binding loops; other site 640511007845 dimer interface [polypeptide binding]; other site 640511007846 ABC-ATPase subunit interface; other site 640511007847 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 640511007848 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 640511007849 sorbitol dehydrogenase; Provisional; Region: PRK07067 640511007850 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511007851 NAD(P) binding site [chemical binding]; other site 640511007852 active site 640511007853 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 640511007854 metal binding site 2 [ion binding]; metal-binding site 640511007855 putative DNA binding helix; other site 640511007856 metal binding site 1 [ion binding]; metal-binding site 640511007857 dimer interface [polypeptide binding]; other site 640511007858 structural Zn2+ binding site [ion binding]; other site 640511007859 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 640511007860 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 640511007861 metal binding site [ion binding]; metal-binding site 640511007862 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 640511007863 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 640511007864 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 640511007865 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 640511007866 ABC-ATPase subunit interface; other site 640511007867 dimer interface [polypeptide binding]; other site 640511007868 putative PBP binding regions; other site 640511007869 S-formylglutathione hydrolase; Region: PLN02442 640511007870 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 640511007871 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 640511007872 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 640511007873 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 640511007874 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 640511007875 nucleotide binding site [chemical binding]; other site 640511007876 xanthine permease; Region: pbuX; TIGR03173 640511007877 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640511007878 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 640511007879 Protein export membrane protein; Region: SecD_SecF; cl14618 640511007880 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 640511007881 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 640511007882 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640511007883 HlyD family secretion protein; Region: HlyD_3; pfam13437 640511007884 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 640511007885 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640511007886 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 640511007887 Isochorismatase family; Region: Isochorismatase; pfam00857 640511007888 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 640511007889 catalytic triad [active] 640511007890 conserved cis-peptide bond; other site 640511007891 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 640511007892 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 640511007893 conserved cys residue [active] 640511007894 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 640511007895 putative hydrophobic ligand binding site [chemical binding]; other site 640511007896 Domain of unknown function (DUF427); Region: DUF427; pfam04248 640511007897 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 640511007898 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 640511007899 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 640511007900 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 640511007901 protein binding site [polypeptide binding]; other site 640511007902 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 640511007903 protein binding site [polypeptide binding]; other site 640511007904 sensor protein QseC; Provisional; Region: PRK10337 640511007905 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511007906 ATP binding site [chemical binding]; other site 640511007907 Mg2+ binding site [ion binding]; other site 640511007908 G-X-G motif; other site 640511007909 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 640511007910 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511007911 active site 640511007912 phosphorylation site [posttranslational modification] 640511007913 intermolecular recognition site; other site 640511007914 dimerization interface [polypeptide binding]; other site 640511007915 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 640511007916 DNA binding site [nucleotide binding] 640511007917 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 640511007918 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 640511007919 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 640511007920 Triacylglycerol lipase-like subfamily of the SGNH hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: Triacylglycerol_lipase_like; cd01847 640511007921 active site 640511007922 catalytic triad [active] 640511007923 oxyanion hole [active] 640511007924 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 640511007925 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 640511007926 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 640511007927 ATP-grasp domain; Region: ATP-grasp; pfam02222 640511007928 AIR carboxylase; Region: AIRC; pfam00731 640511007929 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 640511007930 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 640511007931 ATP binding site [chemical binding]; other site 640511007932 active site 640511007933 substrate binding site [chemical binding]; other site 640511007934 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 640511007935 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 640511007936 intersubunit interface [polypeptide binding]; other site 640511007937 active site 640511007938 zinc binding site [ion binding]; other site 640511007939 Na+ binding site [ion binding]; other site 640511007940 pyruvate kinase; Provisional; Region: PRK05826 640511007941 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 640511007942 domain interfaces; other site 640511007943 active site 640511007944 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 640511007945 Phosphoglycerate kinase; Region: PGK; pfam00162 640511007946 substrate binding site [chemical binding]; other site 640511007947 hinge regions; other site 640511007948 ADP binding site [chemical binding]; other site 640511007949 catalytic site [active] 640511007950 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 640511007951 AzlC protein; Region: AzlC; pfam03591 640511007952 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 640511007953 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 640511007954 homodimer interface [polypeptide binding]; other site 640511007955 substrate-cofactor binding pocket; other site 640511007956 catalytic residue [active] 640511007957 Zinc-finger domain; Region: zf-CHCC; cl01821 640511007958 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 640511007959 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 640511007960 putative active site [active] 640511007961 SnoaL-like domain; Region: SnoaL_3; pfam13474 640511007962 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 640511007963 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 640511007964 Protein of unknown function (DUF2946); Region: DUF2944; pfam11161 640511007965 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 640511007966 Peptidase family M48; Region: Peptidase_M48; pfam01435 640511007967 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 640511007968 trimer interface [polypeptide binding]; other site 640511007969 dimer interface [polypeptide binding]; other site 640511007970 putative active site [active] 640511007971 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in mouse RS21-C6 protein and its homologs; Region: NTP-PPase_RS21-C6_like; cd11537 640511007972 homodimer interface [polypeptide binding]; other site 640511007973 chemical substrate binding site [chemical binding]; other site 640511007974 oligomer interface [polypeptide binding]; other site 640511007975 metal binding site [ion binding]; metal-binding site 640511007976 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 640511007977 O-Antigen ligase; Region: Wzy_C; pfam04932 640511007978 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 640511007979 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 640511007980 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 640511007981 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 640511007982 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 640511007983 CoA binding domain; Region: CoA_binding; smart00881 640511007984 CoA-ligase; Region: Ligase_CoA; pfam00549 640511007985 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 640511007986 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 640511007987 CoA-ligase; Region: Ligase_CoA; pfam00549 640511007988 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 640511007989 RecX family; Region: RecX; cl00936 640511007990 recombinase A; Provisional; Region: recA; PRK09354 640511007991 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 640511007992 hexamer interface [polypeptide binding]; other site 640511007993 Walker A motif; other site 640511007994 ATP binding site [chemical binding]; other site 640511007995 Walker B motif; other site 640511007996 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 640511007997 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511007998 active site 640511007999 phosphorylation site [posttranslational modification] 640511008000 intermolecular recognition site; other site 640511008001 dimerization interface [polypeptide binding]; other site 640511008002 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 640511008003 DNA binding site [nucleotide binding] 640511008004 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 640511008005 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640511008006 HAMP domain; Region: HAMP; pfam00672 640511008007 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 640511008008 dimer interface [polypeptide binding]; other site 640511008009 phosphorylation site [posttranslational modification] 640511008010 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511008011 ATP binding site [chemical binding]; other site 640511008012 Mg2+ binding site [ion binding]; other site 640511008013 G-X-G motif; other site 640511008014 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511008015 putative substrate translocation pore; other site 640511008016 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511008017 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640511008018 putative substrate translocation pore; other site 640511008019 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 640511008020 ABC transporter periplasmic binding protein, urea carboxylase region; Region: ABC_peri_uca; TIGR03427 640511008021 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 640511008022 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 640511008023 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 640511008024 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 640511008025 Walker A/P-loop; other site 640511008026 ATP binding site [chemical binding]; other site 640511008027 Q-loop/lid; other site 640511008028 ABC transporter signature motif; other site 640511008029 Walker B; other site 640511008030 D-loop; other site 640511008031 H-loop/switch region; other site 640511008032 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 640511008033 urea carboxylase-associated protein 2; Region: urea_degr_2; TIGR03425 640511008034 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 640511008035 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 640511008036 urea carboxylase; Region: urea_carbox; TIGR02712 640511008037 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 640511008038 ATP-grasp domain; Region: ATP-grasp_4; cl17255 640511008039 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 640511008040 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 640511008041 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 640511008042 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 640511008043 carboxyltransferase (CT) interaction site; other site 640511008044 biotinylation site [posttranslational modification]; other site 640511008045 allophanate hydrolase; Provisional; Region: PRK08186 640511008046 Amidase; Region: Amidase; cl11426 640511008047 MarR family; Region: MarR_2; cl17246 640511008048 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640511008049 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511008050 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640511008051 putative substrate translocation pore; other site 640511008052 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511008053 Transcriptional regulators [Transcription]; Region: FadR; COG2186 640511008054 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511008055 DNA-binding site [nucleotide binding]; DNA binding site 640511008056 galactonate dehydratase; Provisional; Region: PRK14017 640511008057 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 640511008058 putative active site pocket [active] 640511008059 putative metal binding site [ion binding]; other site 640511008060 Copper resistance protein D; Region: CopD; cl00563 640511008061 CopC domain; Region: CopC; pfam04234 640511008062 Cytochrome c; Region: Cytochrom_C; cl11414 640511008063 Cytochrome c; Region: Cytochrom_C; cl11414 640511008064 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640511008065 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640511008066 Cytochrome c; Region: Cytochrom_C; pfam00034 640511008067 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 640511008068 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 640511008069 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 640511008070 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 640511008071 ATP binding site [chemical binding]; other site 640511008072 Mg++ binding site [ion binding]; other site 640511008073 motif III; other site 640511008074 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 640511008075 nucleotide binding region [chemical binding]; other site 640511008076 ATP-binding site [chemical binding]; other site 640511008077 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 640511008078 dinuclear metal binding motif [ion binding]; other site 640511008079 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511008080 metabolite-proton symporter; Region: 2A0106; TIGR00883 640511008081 putative substrate translocation pore; other site 640511008082 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 640511008083 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 640511008084 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 640511008085 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 640511008086 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 640511008087 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640511008088 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640511008089 WHG domain; Region: WHG; pfam13305 640511008090 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 640511008091 glycerol kinase; Provisional; Region: glpK; PRK00047 640511008092 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 640511008093 N- and C-terminal domain interface [polypeptide binding]; other site 640511008094 active site 640511008095 MgATP binding site [chemical binding]; other site 640511008096 catalytic site [active] 640511008097 metal binding site [ion binding]; metal-binding site 640511008098 glycerol binding site [chemical binding]; other site 640511008099 homotetramer interface [polypeptide binding]; other site 640511008100 homodimer interface [polypeptide binding]; other site 640511008101 FBP binding site [chemical binding]; other site 640511008102 protein IIAGlc interface [polypeptide binding]; other site 640511008103 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 640511008104 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 640511008105 active site 640511008106 motif I; other site 640511008107 motif II; other site 640511008108 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 640511008109 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 640511008110 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 640511008111 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 640511008112 non-specific DNA binding site [nucleotide binding]; other site 640511008113 salt bridge; other site 640511008114 sequence-specific DNA binding site [nucleotide binding]; other site 640511008115 Cupin domain; Region: Cupin_2; pfam07883 640511008116 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 640511008117 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511008118 putative substrate translocation pore; other site 640511008119 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 640511008120 dimer interface [polypeptide binding]; other site 640511008121 putative metal binding site [ion binding]; other site 640511008122 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511008123 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511008124 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 640511008125 putative effector binding pocket; other site 640511008126 dimerization interface [polypeptide binding]; other site 640511008127 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 640511008128 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 640511008129 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 640511008130 FeS/SAM binding site; other site 640511008131 TRAM domain; Region: TRAM; pfam01938 640511008132 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 640511008133 PhoH-like protein; Region: PhoH; pfam02562 640511008134 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 640511008135 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 640511008136 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 640511008137 putative active site pocket [active] 640511008138 dimerization interface [polypeptide binding]; other site 640511008139 putative catalytic residue [active] 640511008140 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 640511008141 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 640511008142 Transporter associated domain; Region: CorC_HlyC; smart01091 640511008143 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 640511008144 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 640511008145 putative active site [active] 640511008146 catalytic triad [active] 640511008147 putative dimer interface [polypeptide binding]; other site 640511008148 putative glutathione S-transferase; Provisional; Region: PRK10357 640511008149 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 640511008150 putative C-terminal domain interface [polypeptide binding]; other site 640511008151 putative GSH binding site (G-site) [chemical binding]; other site 640511008152 putative dimer interface [polypeptide binding]; other site 640511008153 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 640511008154 dimer interface [polypeptide binding]; other site 640511008155 N-terminal domain interface [polypeptide binding]; other site 640511008156 putative substrate binding pocket (H-site) [chemical binding]; other site 640511008157 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 640511008158 proline aminopeptidase P II; Provisional; Region: PRK10879 640511008159 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 640511008160 active site 640511008161 hypothetical protein; Provisional; Region: PRK06996 640511008162 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 640511008163 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 640511008164 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 640511008165 FMN binding site [chemical binding]; other site 640511008166 active site 640511008167 catalytic residues [active] 640511008168 substrate binding site [chemical binding]; other site 640511008169 DNA-binding protein Fis; Provisional; Region: PRK01905 640511008170 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 640511008171 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 640511008172 purine monophosphate binding site [chemical binding]; other site 640511008173 dimer interface [polypeptide binding]; other site 640511008174 putative catalytic residues [active] 640511008175 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 640511008176 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 640511008177 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 640511008178 active site 640511008179 putative DNA-binding cleft [nucleotide binding]; other site 640511008180 dimer interface [polypeptide binding]; other site 640511008181 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 640511008182 RuvA N terminal domain; Region: RuvA_N; pfam01330 640511008183 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 640511008184 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 640511008185 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 640511008186 Walker A motif; other site 640511008187 ATP binding site [chemical binding]; other site 640511008188 Walker B motif; other site 640511008189 arginine finger; other site 640511008190 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 640511008191 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 640511008192 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 640511008193 catalytic core [active] 640511008194 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 640511008195 putative active site [active] 640511008196 dimerization interface [polypeptide binding]; other site 640511008197 putative tRNAtyr binding site [nucleotide binding]; other site 640511008198 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 640511008199 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 640511008200 active site 640511008201 HIGH motif; other site 640511008202 dimer interface [polypeptide binding]; other site 640511008203 KMSKS motif; other site 640511008204 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 640511008205 RNA binding surface [nucleotide binding]; other site 640511008206 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 640511008207 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 640511008208 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 640511008209 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 640511008210 23S rRNA interface [nucleotide binding]; other site 640511008211 L3 interface [polypeptide binding]; other site 640511008212 OsmC-like protein; Region: OsmC; cl00767 640511008213 Protein of unknown function (DUF3025); Region: DUF3025; pfam11227 640511008214 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 640511008215 active site 640511008216 substrate binding pocket [chemical binding]; other site 640511008217 dimer interface [polypeptide binding]; other site 640511008218 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 640511008219 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 640511008220 putative active site [active] 640511008221 putative dimer interface [polypeptide binding]; other site 640511008222 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 640511008223 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 640511008224 Walker A/P-loop; other site 640511008225 ATP binding site [chemical binding]; other site 640511008226 Q-loop/lid; other site 640511008227 ABC transporter signature motif; other site 640511008228 Walker B; other site 640511008229 D-loop; other site 640511008230 H-loop/switch region; other site 640511008231 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640511008232 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511008233 dimer interface [polypeptide binding]; other site 640511008234 conserved gate region; other site 640511008235 putative PBP binding loops; other site 640511008236 ABC-ATPase subunit interface; other site 640511008237 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640511008238 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511008239 dimer interface [polypeptide binding]; other site 640511008240 conserved gate region; other site 640511008241 putative PBP binding loops; other site 640511008242 ABC-ATPase subunit interface; other site 640511008243 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 640511008244 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 640511008245 substrate binding pocket [chemical binding]; other site 640511008246 membrane-bound complex binding site; other site 640511008247 hinge residues; other site 640511008248 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 640511008249 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 640511008250 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 640511008251 NAD(P) binding site [chemical binding]; other site 640511008252 cell density-dependent motility repressor; Provisional; Region: PRK10082 640511008253 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511008254 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 640511008255 dimerization interface [polypeptide binding]; other site 640511008256 adenylosuccinate lyase; Provisional; Region: PRK09285 640511008257 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 640511008258 tetramer interface [polypeptide binding]; other site 640511008259 active site 640511008260 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 640511008261 ATP-binding site [chemical binding]; other site 640511008262 Gluconate-6-phosphate binding site [chemical binding]; other site 640511008263 Shikimate kinase; Region: SKI; pfam01202 640511008264 fructuronate transporter; Provisional; Region: PRK10034; cl15264 640511008265 GntP family permease; Region: GntP_permease; pfam02447 640511008266 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 640511008267 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 640511008268 active site 640511008269 intersubunit interface [polypeptide binding]; other site 640511008270 catalytic residue [active] 640511008271 phosphogluconate dehydratase; Validated; Region: PRK09054 640511008272 6-phosphogluconate dehydratase; Region: edd; TIGR01196 640511008273 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 640511008274 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 640511008275 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 640511008276 putative active site [active] 640511008277 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 640511008278 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 640511008279 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 640511008280 putative catalytic cysteine [active] 640511008281 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 640511008282 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 640511008283 Lipopolysaccharide-assembly; Region: LptE; cl01125 640511008284 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 640511008285 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 640511008286 HIGH motif; other site 640511008287 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 640511008288 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 640511008289 active site 640511008290 KMSKS motif; other site 640511008291 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 640511008292 tRNA binding surface [nucleotide binding]; other site 640511008293 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 640511008294 TolR protein; Region: tolR; TIGR02801 640511008295 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 640511008296 dihydrodipicolinate reductase; Provisional; Region: PRK00048 640511008297 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 640511008298 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 640511008299 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 640511008300 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 640511008301 ferric uptake regulator; Provisional; Region: fur; PRK09462 640511008302 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 640511008303 metal binding site 2 [ion binding]; metal-binding site 640511008304 putative DNA binding helix; other site 640511008305 metal binding site 1 [ion binding]; metal-binding site 640511008306 dimer interface [polypeptide binding]; other site 640511008307 structural Zn2+ binding site [ion binding]; other site 640511008308 ureidoglycolate hydrolase; Provisional; Region: PRK13395 640511008309 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 640511008310 allantoicase; Provisional; Region: PRK13257 640511008311 Allantoicase repeat; Region: Allantoicase; pfam03561 640511008312 Allantoicase repeat; Region: Allantoicase; pfam03561 640511008313 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK13027 640511008314 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 640511008315 Transcriptional regulators [Transcription]; Region: FadR; COG2186 640511008316 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511008317 DNA-binding site [nucleotide binding]; DNA binding site 640511008318 FCD domain; Region: FCD; pfam07729 640511008319 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 640511008320 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 640511008321 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 640511008322 transketolase; Reviewed; Region: PRK12753 640511008323 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 640511008324 TPP-binding site [chemical binding]; other site 640511008325 dimer interface [polypeptide binding]; other site 640511008326 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 640511008327 PYR/PP interface [polypeptide binding]; other site 640511008328 dimer interface [polypeptide binding]; other site 640511008329 TPP binding site [chemical binding]; other site 640511008330 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 640511008331 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 640511008332 putative dimer interface [polypeptide binding]; other site 640511008333 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 640511008334 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 640511008335 putative RNAase interaction site [polypeptide binding]; other site 640511008336 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 640511008337 active site 640511008338 barstar interaction site; other site 640511008339 malic enzyme; Reviewed; Region: PRK12862 640511008340 Malic enzyme, N-terminal domain; Region: malic; pfam00390 640511008341 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 640511008342 putative NAD(P) binding site [chemical binding]; other site 640511008343 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 640511008344 thiamine monophosphate kinase; Provisional; Region: PRK05731 640511008345 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 640511008346 ATP binding site [chemical binding]; other site 640511008347 dimerization interface [polypeptide binding]; other site 640511008348 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 640511008349 tetramer interfaces [polypeptide binding]; other site 640511008350 binuclear metal-binding site [ion binding]; other site 640511008351 Competence-damaged protein; Region: CinA; pfam02464 640511008352 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 640511008353 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 640511008354 active site 640511008355 dimer interface [polypeptide binding]; other site 640511008356 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 640511008357 active site 640511008358 catalytic residues [active] 640511008359 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 640511008360 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 640511008361 classical (c) SDRs; Region: SDR_c; cd05233 640511008362 NAD(P) binding site [chemical binding]; other site 640511008363 active site 640511008364 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640511008365 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 640511008366 TM-ABC transporter signature motif; other site 640511008367 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 640511008368 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 640511008369 Walker A/P-loop; other site 640511008370 ATP binding site [chemical binding]; other site 640511008371 Q-loop/lid; other site 640511008372 ABC transporter signature motif; other site 640511008373 Walker B; other site 640511008374 D-loop; other site 640511008375 H-loop/switch region; other site 640511008376 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 640511008377 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 640511008378 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 640511008379 ligand binding site [chemical binding]; other site 640511008380 short chain dehydrogenase; Provisional; Region: PRK07063 640511008381 classical (c) SDRs; Region: SDR_c; cd05233 640511008382 NAD(P) binding site [chemical binding]; other site 640511008383 active site 640511008384 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 640511008385 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 640511008386 active site 640511008387 intersubunit interface [polypeptide binding]; other site 640511008388 catalytic residue [active] 640511008389 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 640511008390 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 640511008391 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640511008392 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 640511008393 Bacterial transcriptional regulator; Region: IclR; pfam01614 640511008394 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 640511008395 Transglycosylase; Region: Transgly; cl17702 640511008396 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 640511008397 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 640511008398 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 640511008399 shikimate binding site; other site 640511008400 NAD(P) binding site [chemical binding]; other site 640511008401 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 640511008402 RNB domain; Region: RNB; pfam00773 640511008403 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 640511008404 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640511008405 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 640511008406 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 640511008407 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 640511008408 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 640511008409 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 640511008410 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 640511008411 catalytic residues [active] 640511008412 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 640511008413 Dehydroquinase class II; Region: DHquinase_II; pfam01220 640511008414 active site 640511008415 trimer interface [polypeptide binding]; other site 640511008416 dimer interface [polypeptide binding]; other site 640511008417 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 640511008418 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 640511008419 carboxyltransferase (CT) interaction site; other site 640511008420 biotinylation site [posttranslational modification]; other site 640511008421 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 640511008422 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 640511008423 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 640511008424 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 640511008425 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 640511008426 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 640511008427 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 640511008428 S-adenosylmethionine binding site [chemical binding]; other site 640511008429 zinc-ribbon domain; Region: zinc_ribbon_5; pfam13719 640511008430 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 640511008431 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 640511008432 dimer interface [polypeptide binding]; other site 640511008433 catalytic triad [active] 640511008434 peroxidatic and resolving cysteines [active] 640511008435 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 640511008436 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 640511008437 substrate binding site [chemical binding]; other site 640511008438 ATP binding site [chemical binding]; other site 640511008439 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 640511008440 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 640511008441 dimer interface [polypeptide binding]; other site 640511008442 putative radical transfer pathway; other site 640511008443 diiron center [ion binding]; other site 640511008444 tyrosyl radical; other site 640511008445 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 640511008446 ATP cone domain; Region: ATP-cone; pfam03477 640511008447 Class I ribonucleotide reductase; Region: RNR_I; cd01679 640511008448 active site 640511008449 dimer interface [polypeptide binding]; other site 640511008450 catalytic residues [active] 640511008451 effector binding site; other site 640511008452 R2 peptide binding site; other site 640511008453 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 640511008454 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 640511008455 amidase catalytic site [active] 640511008456 Zn binding residues [ion binding]; other site 640511008457 substrate binding site [chemical binding]; other site 640511008458 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 640511008459 signal recognition particle protein; Provisional; Region: PRK10867 640511008460 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 640511008461 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 640511008462 P loop; other site 640511008463 GTP binding site [chemical binding]; other site 640511008464 Signal peptide binding domain; Region: SRP_SPB; pfam02978 640511008465 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 640511008466 active site 640511008467 MarC family integral membrane protein; Region: MarC; cl00919 640511008468 prolyl-tRNA synthetase; Provisional; Region: PRK09194 640511008469 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 640511008470 dimer interface [polypeptide binding]; other site 640511008471 motif 1; other site 640511008472 active site 640511008473 motif 2; other site 640511008474 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 640511008475 putative deacylase active site [active] 640511008476 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 640511008477 active site 640511008478 motif 3; other site 640511008479 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 640511008480 anticodon binding site; other site 640511008481 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 640511008482 putative active site [active] 640511008483 Ap4A binding site [chemical binding]; other site 640511008484 nudix motif; other site 640511008485 putative metal binding site [ion binding]; other site 640511008486 CNP1-like family; Region: CNP1; pfam08750 640511008487 gamma-glutamyl kinase; Provisional; Region: PRK05429 640511008488 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 640511008489 nucleotide binding site [chemical binding]; other site 640511008490 homotetrameric interface [polypeptide binding]; other site 640511008491 putative phosphate binding site [ion binding]; other site 640511008492 putative allosteric binding site; other site 640511008493 PUA domain; Region: PUA; pfam01472 640511008494 GTPase CgtA; Reviewed; Region: obgE; PRK12299 640511008495 GTP1/OBG; Region: GTP1_OBG; pfam01018 640511008496 Obg GTPase; Region: Obg; cd01898 640511008497 G1 box; other site 640511008498 GTP/Mg2+ binding site [chemical binding]; other site 640511008499 Switch I region; other site 640511008500 G2 box; other site 640511008501 G3 box; other site 640511008502 Switch II region; other site 640511008503 G4 box; other site 640511008504 G5 box; other site 640511008505 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 640511008506 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 640511008507 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 640511008508 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 640511008509 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 640511008510 substrate binding pocket [chemical binding]; other site 640511008511 chain length determination region; other site 640511008512 substrate-Mg2+ binding site; other site 640511008513 catalytic residues [active] 640511008514 aspartate-rich region 1; other site 640511008515 active site lid residues [active] 640511008516 aspartate-rich region 2; other site 640511008517 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 640511008518 Domain of unknown function DUF21; Region: DUF21; pfam01595 640511008519 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 640511008520 Transporter associated domain; Region: CorC_HlyC; smart01091 640511008521 Type II/IV secretion system protein; Region: T2SE; pfam00437 640511008522 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 640511008523 Walker A motif; other site 640511008524 ATP binding site [chemical binding]; other site 640511008525 Walker B motif; other site 640511008526 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 640511008527 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 640511008528 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 640511008529 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 640511008530 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 640511008531 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 640511008532 dephospho-CoA kinase; Provisional; Region: coaE; PRK14731 640511008533 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 640511008534 CoA-binding site [chemical binding]; other site 640511008535 ATP-binding [chemical binding]; other site 640511008536 hypothetical protein; Provisional; Region: PRK05287 640511008537 Domain of unknown function (DUF329); Region: DUF329; pfam03884 640511008538 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 640511008539 active site 640511008540 8-oxo-dGMP binding site [chemical binding]; other site 640511008541 nudix motif; other site 640511008542 metal binding site [ion binding]; metal-binding site 640511008543 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 640511008544 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 640511008545 Walker A motif; other site 640511008546 ATP binding site [chemical binding]; other site 640511008547 Walker B motif; other site 640511008548 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 640511008549 heterotetramer interface [polypeptide binding]; other site 640511008550 active site pocket [active] 640511008551 cleavage site 640511008552 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 640511008553 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 640511008554 SEC-C motif; Region: SEC-C; pfam02810 640511008555 Protein of unknown function (DUF721); Region: DUF721; cl02324 640511008556 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 640511008557 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 640511008558 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 640511008559 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 640511008560 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 640511008561 catalytic triad [active] 640511008562 dimer interface [polypeptide binding]; other site 640511008563 cell division protein FtsZ; Validated; Region: PRK09330 640511008564 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 640511008565 nucleotide binding site [chemical binding]; other site 640511008566 SulA interaction site; other site 640511008567 cell division protein FtsA; Region: ftsA; TIGR01174 640511008568 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 640511008569 nucleotide binding site [chemical binding]; other site 640511008570 Cell division protein FtsA; Region: FtsA; pfam14450 640511008571 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 640511008572 Cell division protein FtsQ; Region: FtsQ; pfam03799 640511008573 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 640511008574 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 640511008575 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 640511008576 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 640511008577 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 640511008578 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 640511008579 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 640511008580 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 640511008581 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 640511008582 active site 640511008583 homodimer interface [polypeptide binding]; other site 640511008584 cell division protein FtsW; Region: ftsW; TIGR02614 640511008585 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02006 640511008586 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 640511008587 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 640511008588 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 640511008589 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 640511008590 Mg++ binding site [ion binding]; other site 640511008591 putative catalytic motif [active] 640511008592 putative substrate binding site [chemical binding]; other site 640511008593 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 640511008594 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 640511008595 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 640511008596 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 640511008597 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 640511008598 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 640511008599 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 640511008600 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 640511008601 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 640511008602 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 640511008603 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 640511008604 Cell division protein FtsL; Region: FtsL; cl11433 640511008605 MraW methylase family; Region: Methyltransf_5; cl17771 640511008606 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 640511008607 cell division protein MraZ; Reviewed; Region: PRK00326 640511008608 MraZ protein; Region: MraZ; pfam02381 640511008609 MraZ protein; Region: MraZ; pfam02381 640511008610 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 640511008611 diiron binding motif [ion binding]; other site 640511008612 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640511008613 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 640511008614 trimer interface [polypeptide binding]; other site 640511008615 eyelet of channel; other site 640511008616 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 640511008617 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 640511008618 acyl-activating enzyme (AAE) consensus motif; other site 640511008619 putative AMP binding site [chemical binding]; other site 640511008620 putative active site [active] 640511008621 putative CoA binding site [chemical binding]; other site 640511008622 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 640511008623 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 640511008624 putative [4Fe-4S] binding site [ion binding]; other site 640511008625 putative molybdopterin cofactor binding site [chemical binding]; other site 640511008626 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 640511008627 putative molybdopterin cofactor binding site; other site 640511008628 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 640511008629 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 640511008630 metal binding site [ion binding]; metal-binding site 640511008631 putative dimer interface [polypeptide binding]; other site 640511008632 enoyl-CoA hydratase; Provisional; Region: PRK05862 640511008633 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 640511008634 substrate binding site [chemical binding]; other site 640511008635 oxyanion hole (OAH) forming residues; other site 640511008636 trimer interface [polypeptide binding]; other site 640511008637 phenylacetic acid degradation protein paaN; Region: PaaN_2; TIGR02288 640511008638 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 640511008639 NAD(P) binding site [chemical binding]; other site 640511008640 catalytic residues [active] 640511008641 enoyl-CoA hydratase; Provisional; Region: PRK08140 640511008642 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 640511008643 substrate binding site [chemical binding]; other site 640511008644 oxyanion hole (OAH) forming residues; other site 640511008645 trimer interface [polypeptide binding]; other site 640511008646 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 640511008647 CoenzymeA binding site [chemical binding]; other site 640511008648 subunit interaction site [polypeptide binding]; other site 640511008649 PHB binding site; other site 640511008650 Phenylacetate-CoA ligase (also known as PaaK); Region: PaaK; cd05913 640511008651 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 640511008652 active site 640511008653 AMP binding site [chemical binding]; other site 640511008654 homodimer interface [polypeptide binding]; other site 640511008655 acyl-activating enzyme (AAE) consensus motif; other site 640511008656 CoA binding site [chemical binding]; other site 640511008657 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 640511008658 MltA specific insert domain; Region: MltA; smart00925 640511008659 3D domain; Region: 3D; pfam06725 640511008660 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 640511008661 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 640511008662 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 640511008663 substrate binding site [chemical binding]; other site 640511008664 hexamer interface [polypeptide binding]; other site 640511008665 metal binding site [ion binding]; metal-binding site 640511008666 phosphoglycolate phosphatase; Provisional; Region: PRK13222 640511008667 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 640511008668 motif II; other site 640511008669 anthranilate synthase component I; Provisional; Region: PRK13565 640511008670 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 640511008671 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 640511008672 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 640511008673 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 640511008674 glutamine binding [chemical binding]; other site 640511008675 catalytic triad [active] 640511008676 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 640511008677 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 640511008678 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 640511008679 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 640511008680 active site 640511008681 ribulose/triose binding site [chemical binding]; other site 640511008682 phosphate binding site [ion binding]; other site 640511008683 substrate (anthranilate) binding pocket [chemical binding]; other site 640511008684 product (indole) binding pocket [chemical binding]; other site 640511008685 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 640511008686 putative active site [active] 640511008687 putative metal binding residues [ion binding]; other site 640511008688 signature motif; other site 640511008689 putative triphosphate binding site [ion binding]; other site 640511008690 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 640511008691 ligand binding site [chemical binding]; other site 640511008692 active site 640511008693 UGI interface [polypeptide binding]; other site 640511008694 catalytic site [active] 640511008695 azoreductase; Reviewed; Region: PRK00170 640511008696 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 640511008697 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 640511008698 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 640511008699 PDZ domain; Region: PDZ_2; pfam13180 640511008700 protein binding site [polypeptide binding]; other site 640511008701 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 640511008702 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 640511008703 dimerization domain [polypeptide binding]; other site 640511008704 dimer interface [polypeptide binding]; other site 640511008705 catalytic residues [active] 640511008706 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608 640511008707 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 640511008708 GTP-binding protein YchF; Reviewed; Region: PRK09601 640511008709 YchF GTPase; Region: YchF; cd01900 640511008710 G1 box; other site 640511008711 GTP/Mg2+ binding site [chemical binding]; other site 640511008712 Switch I region; other site 640511008713 G2 box; other site 640511008714 Switch II region; other site 640511008715 G3 box; other site 640511008716 G4 box; other site 640511008717 G5 box; other site 640511008718 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 640511008719 glycerol-3-phosphate transporter periplasmic binding protein; Provisional; Region: PRK10974 640511008720 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 640511008721 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 640511008722 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511008723 dimer interface [polypeptide binding]; other site 640511008724 conserved gate region; other site 640511008725 putative PBP binding loops; other site 640511008726 ABC-ATPase subunit interface; other site 640511008727 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 640511008728 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511008729 dimer interface [polypeptide binding]; other site 640511008730 conserved gate region; other site 640511008731 putative PBP binding loops; other site 640511008732 ABC-ATPase subunit interface; other site 640511008733 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 640511008734 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 640511008735 Walker A/P-loop; other site 640511008736 ATP binding site [chemical binding]; other site 640511008737 Q-loop/lid; other site 640511008738 ABC transporter signature motif; other site 640511008739 Walker B; other site 640511008740 D-loop; other site 640511008741 H-loop/switch region; other site 640511008742 TOBE domain; Region: TOBE_2; pfam08402 640511008743 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 640511008744 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640511008745 Walker A/P-loop; other site 640511008746 ATP binding site [chemical binding]; other site 640511008747 Q-loop/lid; other site 640511008748 ABC transporter signature motif; other site 640511008749 Walker B; other site 640511008750 D-loop; other site 640511008751 H-loop/switch region; other site 640511008752 ABC transporter; Region: ABC_tran_2; pfam12848 640511008753 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 640511008754 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 640511008755 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 640511008756 ?-D-glucose-1-phosphatase; Provisional; Region: PRK09456 640511008757 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 640511008758 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 640511008759 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 640511008760 active site 640511008761 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 640511008762 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511008763 active site 640511008764 phosphorylation site [posttranslational modification] 640511008765 dimerization interface [polypeptide binding]; other site 640511008766 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 640511008767 DNA binding site [nucleotide binding] 640511008768 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 640511008769 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 640511008770 tRNA; other site 640511008771 putative tRNA binding site [nucleotide binding]; other site 640511008772 putative NADP binding site [chemical binding]; other site 640511008773 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 640511008774 peptide chain release factor 1; Validated; Region: prfA; PRK00591 640511008775 This domain is found in peptide chain release factors; Region: PCRF; smart00937 640511008776 RF-1 domain; Region: RF-1; pfam00472 640511008777 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 640511008778 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 640511008779 S-adenosylmethionine binding site [chemical binding]; other site 640511008780 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 640511008781 putative GSH binding site [chemical binding]; other site 640511008782 catalytic residues [active] 640511008783 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 640511008784 Flavoprotein; Region: Flavoprotein; pfam02441 640511008785 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 640511008786 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 640511008787 putative active site [active] 640511008788 metal binding site [ion binding]; metal-binding site 640511008789 amino acid transporter; Region: 2A0306; TIGR00909 640511008790 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 640511008791 DNA-binding site [nucleotide binding]; DNA binding site 640511008792 RNA-binding motif; other site 640511008793 putative chaperone; Provisional; Region: PRK11678 640511008794 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 640511008795 nucleotide binding site [chemical binding]; other site 640511008796 putative NEF/HSP70 interaction site [polypeptide binding]; other site 640511008797 SBD interface [polypeptide binding]; other site 640511008798 benzoate transport; Region: 2A0115; TIGR00895 640511008799 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511008800 putative substrate translocation pore; other site 640511008801 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511008802 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 640511008803 putative FMN binding site [chemical binding]; other site 640511008804 D-galactonate transporter; Region: 2A0114; TIGR00893 640511008805 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511008806 putative substrate translocation pore; other site 640511008807 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640511008808 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640511008809 Protein of unknown function (DUF1415); Region: DUF1415; pfam07209 640511008810 Methyltransferase domain; Region: Methyltransf_32; pfam13679 640511008811 Methyltransferase domain; Region: Methyltransf_31; pfam13847 640511008812 Protein of unknown function (DUF1059); Region: DUF1059; cl02284 640511008813 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640511008814 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 640511008815 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 640511008816 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 640511008817 S-adenosylmethionine binding site [chemical binding]; other site 640511008818 Protein of unknown function (DUF1470); Region: DUF1470; pfam07336 640511008819 CGNR zinc finger; Region: zf-CGNR; pfam11706 640511008820 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640511008821 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 640511008822 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 640511008823 stringent starvation protein A; Provisional; Region: sspA; PRK09481 640511008824 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 640511008825 C-terminal domain interface [polypeptide binding]; other site 640511008826 putative GSH binding site (G-site) [chemical binding]; other site 640511008827 dimer interface [polypeptide binding]; other site 640511008828 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 640511008829 dimer interface [polypeptide binding]; other site 640511008830 N-terminal domain interface [polypeptide binding]; other site 640511008831 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 640511008832 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 640511008833 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 640511008834 Qi binding site; other site 640511008835 intrachain domain interface; other site 640511008836 interchain domain interface [polypeptide binding]; other site 640511008837 heme bH binding site [chemical binding]; other site 640511008838 heme bL binding site [chemical binding]; other site 640511008839 Qo binding site; other site 640511008840 interchain domain interface [polypeptide binding]; other site 640511008841 intrachain domain interface; other site 640511008842 Qi binding site; other site 640511008843 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 640511008844 Qo binding site; other site 640511008845 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 640511008846 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 640511008847 [2Fe-2S] cluster binding site [ion binding]; other site 640511008848 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 640511008849 Uncharacterized conserved protein [Function unknown]; Region: COG0327 640511008850 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 640511008851 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 640511008852 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 640511008853 protein binding site [polypeptide binding]; other site 640511008854 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 640511008855 sec-independent translocase; Provisional; Region: tatB; PRK01919 640511008856 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 640511008857 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 640511008858 nucleotide binding site/active site [active] 640511008859 HIT family signature motif; other site 640511008860 catalytic residue [active] 640511008861 Predicted membrane protein [Function unknown]; Region: COG3671 640511008862 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 640511008863 metal binding site [ion binding]; metal-binding site 640511008864 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 640511008865 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 640511008866 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 640511008867 substrate binding site [chemical binding]; other site 640511008868 glutamase interaction surface [polypeptide binding]; other site 640511008869 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 640511008870 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 640511008871 catalytic residues [active] 640511008872 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 640511008873 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 640511008874 putative active site [active] 640511008875 oxyanion strand; other site 640511008876 catalytic triad [active] 640511008877 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 640511008878 putative active site pocket [active] 640511008879 4-fold oligomerization interface [polypeptide binding]; other site 640511008880 metal binding residues [ion binding]; metal-binding site 640511008881 3-fold/trimer interface [polypeptide binding]; other site 640511008882 histidinol-phosphate aminotransferase; Provisional; Region: PRK04870 640511008883 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 640511008884 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511008885 homodimer interface [polypeptide binding]; other site 640511008886 catalytic residue [active] 640511008887 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 640511008888 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 640511008889 NAD binding site [chemical binding]; other site 640511008890 dimerization interface [polypeptide binding]; other site 640511008891 product binding site; other site 640511008892 substrate binding site [chemical binding]; other site 640511008893 zinc binding site [ion binding]; other site 640511008894 catalytic residues [active] 640511008895 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 640511008896 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 640511008897 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 640511008898 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 640511008899 hinge; other site 640511008900 active site 640511008901 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 640511008902 ABC-2 type transporter; Region: ABC2_membrane; cl17235 640511008903 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 640511008904 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 640511008905 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 640511008906 Walker A/P-loop; other site 640511008907 ATP binding site [chemical binding]; other site 640511008908 Q-loop/lid; other site 640511008909 ABC transporter signature motif; other site 640511008910 Walker B; other site 640511008911 D-loop; other site 640511008912 H-loop/switch region; other site 640511008913 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 640511008914 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 640511008915 VacJ like lipoprotein; Region: VacJ; cl01073 640511008916 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 640511008917 mce related protein; Region: MCE; pfam02470 640511008918 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 640511008919 Permease; Region: Permease; pfam02405 640511008920 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 640511008921 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 640511008922 Walker A/P-loop; other site 640511008923 ATP binding site [chemical binding]; other site 640511008924 Q-loop/lid; other site 640511008925 ABC transporter signature motif; other site 640511008926 Walker B; other site 640511008927 D-loop; other site 640511008928 H-loop/switch region; other site 640511008929 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 640511008930 thiamine phosphate binding site [chemical binding]; other site 640511008931 active site 640511008932 pyrophosphate binding site [ion binding]; other site 640511008933 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 640511008934 ThiS interaction site; other site 640511008935 putative active site [active] 640511008936 tetramer interface [polypeptide binding]; other site 640511008937 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 640511008938 thiS-thiF/thiG interaction site; other site 640511008939 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 640511008940 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 640511008941 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 640511008942 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 640511008943 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 640511008944 osmolarity response regulator; Provisional; Region: ompR; PRK09468 640511008945 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511008946 active site 640511008947 phosphorylation site [posttranslational modification] 640511008948 intermolecular recognition site; other site 640511008949 dimerization interface [polypeptide binding]; other site 640511008950 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 640511008951 DNA binding site [nucleotide binding] 640511008952 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 640511008953 Flagellar L-ring protein; Region: FlgH; pfam02107 640511008954 osmolarity response regulator; Provisional; Region: ompR; PRK09468 640511008955 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511008956 active site 640511008957 phosphorylation site [posttranslational modification] 640511008958 intermolecular recognition site; other site 640511008959 dimerization interface [polypeptide binding]; other site 640511008960 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 640511008961 DNA binding site [nucleotide binding] 640511008962 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 640511008963 dimerization interface [polypeptide binding]; other site 640511008964 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 640511008965 dimer interface [polypeptide binding]; other site 640511008966 phosphorylation site [posttranslational modification] 640511008967 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511008968 ATP binding site [chemical binding]; other site 640511008969 Mg2+ binding site [ion binding]; other site 640511008970 G-X-G motif; other site 640511008971 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 640511008972 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 640511008973 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 640511008974 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 640511008975 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 640511008976 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 640511008977 active site 640511008978 dimer interface [polypeptide binding]; other site 640511008979 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 640511008980 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 640511008981 active site 640511008982 FMN binding site [chemical binding]; other site 640511008983 substrate binding site [chemical binding]; other site 640511008984 3Fe-4S cluster binding site [ion binding]; other site 640511008985 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 640511008986 domain interface; other site 640511008987 Transposase IS200 like; Region: Y1_Tnp; cl00848 640511008988 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 640511008989 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 640511008990 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 640511008991 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 640511008992 Zn2+ binding site [ion binding]; other site 640511008993 Mg2+ binding site [ion binding]; other site 640511008994 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 640511008995 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 640511008996 active site 640511008997 dimer interface [polypeptide binding]; other site 640511008998 metal binding site [ion binding]; metal-binding site 640511008999 shikimate kinase; Reviewed; Region: aroK; PRK00131 640511009000 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 640511009001 ADP binding site [chemical binding]; other site 640511009002 magnesium binding site [ion binding]; other site 640511009003 putative shikimate binding site; other site 640511009004 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 640511009005 Secretin and TonB N terminus short domain; Region: STN; pfam07660 640511009006 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 640511009007 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 640511009008 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 640511009009 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 640511009010 Transglycosylase; Region: Transgly; pfam00912 640511009011 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 640511009012 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 640511009013 putative iron binding site [ion binding]; other site 640511009014 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; cl02361 640511009015 diaminopimelate decarboxylase; Region: lysA; TIGR01048 640511009016 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 640511009017 active site 640511009018 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 640511009019 substrate binding site [chemical binding]; other site 640511009020 catalytic residues [active] 640511009021 dimer interface [polypeptide binding]; other site 640511009022 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 640511009023 TMAO/DMSO reductase; Reviewed; Region: PRK05363 640511009024 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 640511009025 Moco binding site; other site 640511009026 metal coordination site [ion binding]; other site 640511009027 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 640511009028 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 640511009029 ResB-like family; Region: ResB; pfam05140 640511009030 Cytochrome c553 [Energy production and conversion]; Region: COG2863 640511009031 Cytochrome c; Region: Cytochrom_C; cl11414 640511009032 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 640511009033 G1 box; other site 640511009034 GTP/Mg2+ binding site [chemical binding]; other site 640511009035 Switch I region; other site 640511009036 G2 box; other site 640511009037 G3 box; other site 640511009038 Switch II region; other site 640511009039 G4 box; other site 640511009040 G5 box; other site 640511009041 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 640511009042 dimer interface [polypeptide binding]; other site 640511009043 active site 640511009044 aspartate-rich active site metal binding site; other site 640511009045 allosteric magnesium binding site [ion binding]; other site 640511009046 Schiff base residues; other site 640511009047 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 640511009048 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 640511009049 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 640511009050 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 640511009051 DsbD alpha interface [polypeptide binding]; other site 640511009052 catalytic residues [active] 640511009053 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 640511009054 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 640511009055 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 640511009056 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 640511009057 alphaNTD homodimer interface [polypeptide binding]; other site 640511009058 alphaNTD - beta interaction site [polypeptide binding]; other site 640511009059 alphaNTD - beta' interaction site [polypeptide binding]; other site 640511009060 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 640511009061 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 640511009062 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 640511009063 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 640511009064 RNA binding surface [nucleotide binding]; other site 640511009065 30S ribosomal protein S11; Validated; Region: PRK05309 640511009066 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 640511009067 30S ribosomal protein S13; Region: bact_S13; TIGR03631 640511009068 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 640511009069 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 640511009070 rRNA binding site [nucleotide binding]; other site 640511009071 predicted 30S ribosome binding site; other site 640511009072 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 640511009073 SecY translocase; Region: SecY; pfam00344 640511009074 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 640511009075 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 640511009076 23S rRNA binding site [nucleotide binding]; other site 640511009077 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 640511009078 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 640511009079 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 640511009080 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 640511009081 5S rRNA interface [nucleotide binding]; other site 640511009082 L27 interface [polypeptide binding]; other site 640511009083 23S rRNA interface [nucleotide binding]; other site 640511009084 L5 interface [polypeptide binding]; other site 640511009085 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 640511009086 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 640511009087 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 640511009088 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 640511009089 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 640511009090 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 640511009091 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 640511009092 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 640511009093 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 640511009094 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 640511009095 RNA binding site [nucleotide binding]; other site 640511009096 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 640511009097 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 640511009098 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 640511009099 23S rRNA interface [nucleotide binding]; other site 640511009100 putative translocon interaction site; other site 640511009101 signal recognition particle (SRP54) interaction site; other site 640511009102 L23 interface [polypeptide binding]; other site 640511009103 trigger factor interaction site; other site 640511009104 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 640511009105 23S rRNA interface [nucleotide binding]; other site 640511009106 5S rRNA interface [nucleotide binding]; other site 640511009107 putative antibiotic binding site [chemical binding]; other site 640511009108 L25 interface [polypeptide binding]; other site 640511009109 L27 interface [polypeptide binding]; other site 640511009110 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 640511009111 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 640511009112 G-X-X-G motif; other site 640511009113 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 640511009114 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 640511009115 putative translocon binding site; other site 640511009116 protein-rRNA interface [nucleotide binding]; other site 640511009117 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 640511009118 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 640511009119 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 640511009120 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 640511009121 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 640511009122 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 640511009123 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 640511009124 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 640511009125 elongation factor Tu; Reviewed; Region: PRK00049 640511009126 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 640511009127 G1 box; other site 640511009128 GEF interaction site [polypeptide binding]; other site 640511009129 GTP/Mg2+ binding site [chemical binding]; other site 640511009130 Switch I region; other site 640511009131 G2 box; other site 640511009132 G3 box; other site 640511009133 Switch II region; other site 640511009134 G4 box; other site 640511009135 G5 box; other site 640511009136 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 640511009137 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 640511009138 Antibiotic Binding Site [chemical binding]; other site 640511009139 elongation factor G; Reviewed; Region: PRK00007 640511009140 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 640511009141 G1 box; other site 640511009142 putative GEF interaction site [polypeptide binding]; other site 640511009143 GTP/Mg2+ binding site [chemical binding]; other site 640511009144 Switch I region; other site 640511009145 G2 box; other site 640511009146 G3 box; other site 640511009147 Switch II region; other site 640511009148 G4 box; other site 640511009149 G5 box; other site 640511009150 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 640511009151 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 640511009152 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 640511009153 30S ribosomal protein S7; Validated; Region: PRK05302 640511009154 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 640511009155 S17 interaction site [polypeptide binding]; other site 640511009156 S8 interaction site; other site 640511009157 16S rRNA interaction site [nucleotide binding]; other site 640511009158 streptomycin interaction site [chemical binding]; other site 640511009159 23S rRNA interaction site [nucleotide binding]; other site 640511009160 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 640511009161 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 640511009162 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 640511009163 ATP binding site [chemical binding]; other site 640511009164 putative Mg++ binding site [ion binding]; other site 640511009165 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 640511009166 nucleotide binding region [chemical binding]; other site 640511009167 ATP-binding site [chemical binding]; other site 640511009168 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 640511009169 HRDC domain; Region: HRDC; pfam00570 640511009170 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 640511009171 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 640511009172 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 640511009173 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 640511009174 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 640511009175 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 640511009176 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 640511009177 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 640511009178 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 640511009179 DNA binding site [nucleotide binding] 640511009180 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 640511009181 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 640511009182 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 640511009183 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 640511009184 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 640511009185 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 640511009186 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 640511009187 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 640511009188 RPB3 interaction site [polypeptide binding]; other site 640511009189 RPB1 interaction site [polypeptide binding]; other site 640511009190 RPB11 interaction site [polypeptide binding]; other site 640511009191 RPB10 interaction site [polypeptide binding]; other site 640511009192 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 640511009193 peripheral dimer interface [polypeptide binding]; other site 640511009194 core dimer interface [polypeptide binding]; other site 640511009195 L10 interface [polypeptide binding]; other site 640511009196 L11 interface [polypeptide binding]; other site 640511009197 putative EF-Tu interaction site [polypeptide binding]; other site 640511009198 putative EF-G interaction site [polypeptide binding]; other site 640511009199 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 640511009200 23S rRNA interface [nucleotide binding]; other site 640511009201 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 640511009202 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 640511009203 mRNA/rRNA interface [nucleotide binding]; other site 640511009204 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 640511009205 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 640511009206 23S rRNA interface [nucleotide binding]; other site 640511009207 L7/L12 interface [polypeptide binding]; other site 640511009208 putative thiostrepton binding site; other site 640511009209 L25 interface [polypeptide binding]; other site 640511009210 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 640511009211 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 640511009212 putative homodimer interface [polypeptide binding]; other site 640511009213 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 640511009214 heterodimer interface [polypeptide binding]; other site 640511009215 homodimer interface [polypeptide binding]; other site 640511009216 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 640511009217 elongation factor Tu; Reviewed; Region: PRK00049 640511009218 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 640511009219 G1 box; other site 640511009220 GEF interaction site [polypeptide binding]; other site 640511009221 GTP/Mg2+ binding site [chemical binding]; other site 640511009222 Switch I region; other site 640511009223 G2 box; other site 640511009224 G3 box; other site 640511009225 Switch II region; other site 640511009226 G4 box; other site 640511009227 G5 box; other site 640511009228 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 640511009229 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 640511009230 Antibiotic Binding Site [chemical binding]; other site 640511009231 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 640511009232 active site 640511009233 oxyanion hole [active] 640511009234 catalytic triad [active] 640511009235 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 640511009236 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 640511009237 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 640511009238 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 640511009239 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 640511009240 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 640511009241 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 640511009242 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 640511009243 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 640511009244 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 640511009245 FAD binding pocket [chemical binding]; other site 640511009246 FAD binding motif [chemical binding]; other site 640511009247 phosphate binding motif [ion binding]; other site 640511009248 beta-alpha-beta structure motif; other site 640511009249 NAD(p) ribose binding residues [chemical binding]; other site 640511009250 NAD binding pocket [chemical binding]; other site 640511009251 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 640511009252 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 640511009253 catalytic loop [active] 640511009254 iron binding site [ion binding]; other site 640511009255 Domain of unknown function (DUF1835); Region: DUF1835; pfam08874 640511009256 Protein of unknown function; Region: DUF3658; pfam12395 640511009257 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640511009258 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640511009259 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 640511009260 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640511009261 Coenzyme A binding pocket [chemical binding]; other site 640511009262 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 640511009263 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 640511009264 putative DNA binding site [nucleotide binding]; other site 640511009265 putative Zn2+ binding site [ion binding]; other site 640511009266 AsnC family; Region: AsnC_trans_reg; pfam01037 640511009267 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 640511009268 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 640511009269 dimer interface [polypeptide binding]; other site 640511009270 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 640511009271 active site 640511009272 Fe binding site [ion binding]; other site 640511009273 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 640511009274 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 640511009275 dimer interface [polypeptide binding]; other site 640511009276 PYR/PP interface [polypeptide binding]; other site 640511009277 TPP binding site [chemical binding]; other site 640511009278 substrate binding site [chemical binding]; other site 640511009279 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 640511009280 TPP-binding site; other site 640511009281 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 640511009282 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 640511009283 Malic enzyme, N-terminal domain; Region: malic; pfam00390 640511009284 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 640511009285 putative NAD(P) binding site [chemical binding]; other site 640511009286 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 640511009287 benzoate transport; Region: 2A0115; TIGR00895 640511009288 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511009289 putative substrate translocation pore; other site 640511009290 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 640511009291 active site 640511009292 transcriptional regulator RcsB; Provisional; Region: PRK10840 640511009293 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511009294 active site 640511009295 phosphorylation site [posttranslational modification] 640511009296 intermolecular recognition site; other site 640511009297 dimerization interface [polypeptide binding]; other site 640511009298 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 640511009299 DNA binding residues [nucleotide binding] 640511009300 dimerization interface [polypeptide binding]; other site 640511009301 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 640511009302 substrate binding site [chemical binding]; other site 640511009303 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 640511009304 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 640511009305 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 640511009306 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 640511009307 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 640511009308 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 640511009309 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 640511009310 Ub domain fused to Mut7-C; Region: Ub-Mut7C; pfam14451 640511009311 Uncharacterized conserved protein [Function unknown]; Region: COG1656 640511009312 Protein of unknown function DUF82; Region: DUF82; pfam01927 640511009313 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 640511009314 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 640511009315 Bacterial transcriptional regulator; Region: IclR; pfam01614 640511009316 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 640511009317 EamA-like transporter family; Region: EamA; pfam00892 640511009318 EamA-like transporter family; Region: EamA; pfam00892 640511009319 Uncharacterized protein conserved in bacteria (DUF2242); Region: DUF2242; pfam10001 640511009320 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 640511009321 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 640511009322 N-acetyl-D-glucosamine binding site [chemical binding]; other site 640511009323 catalytic residue [active] 640511009324 Rhomboid family; Region: Rhomboid; cl11446 640511009325 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 640511009326 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 640511009327 glutaminase active site [active] 640511009328 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 640511009329 dimer interface [polypeptide binding]; other site 640511009330 active site 640511009331 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 640511009332 dimer interface [polypeptide binding]; other site 640511009333 active site 640511009334 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 640511009335 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 640511009336 Substrate binding site; other site 640511009337 Mg++ binding site; other site 640511009338 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 640511009339 active site 640511009340 substrate binding site [chemical binding]; other site 640511009341 CoA binding site [chemical binding]; other site 640511009342 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 640511009343 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 640511009344 Ligand Binding Site [chemical binding]; other site 640511009345 Dihydroneopterin aldolase; Region: FolB; smart00905 640511009346 active site 640511009347 short chain dehydrogenase; Provisional; Region: PRK09134 640511009348 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511009349 NAD(P) binding site [chemical binding]; other site 640511009350 active site 640511009351 Uncharacterized conserved protein [Function unknown]; Region: COG1565 640511009352 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 640511009353 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 640511009354 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 640511009355 active site 640511009356 NTP binding site [chemical binding]; other site 640511009357 metal binding triad [ion binding]; metal-binding site 640511009358 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 640511009359 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cl17503 640511009360 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 640511009361 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 640511009362 putative C-terminal domain interface [polypeptide binding]; other site 640511009363 putative GSH binding site (G-site) [chemical binding]; other site 640511009364 putative dimer interface [polypeptide binding]; other site 640511009365 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 640511009366 putative substrate binding pocket (H-site) [chemical binding]; other site 640511009367 putative N-terminal domain interface [polypeptide binding]; other site 640511009368 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 640511009369 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 640511009370 putative NAD(P) binding site [chemical binding]; other site 640511009371 active site 640511009372 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 640511009373 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 640511009374 N-acetyl-D-glucosamine binding site [chemical binding]; other site 640511009375 catalytic residue [active] 640511009376 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 640511009377 MarR family; Region: MarR_2; cl17246 640511009378 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 640511009379 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 640511009380 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 640511009381 Escherichia coli putative lactam utilization protein YbgL and similar proteins; Region: LamB_YcsF_YbgL_like; cd10800 640511009382 putative active site [active] 640511009383 Protein of unknown function (DUF969); Region: DUF969; pfam06149 640511009384 Predicted membrane protein [Function unknown]; Region: COG3817 640511009385 Protein of unknown function (DUF979); Region: DUF979; pfam06166 640511009386 TraB family; Region: TraB; pfam01963 640511009387 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 640511009388 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640511009389 Walker A/P-loop; other site 640511009390 ATP binding site [chemical binding]; other site 640511009391 Q-loop/lid; other site 640511009392 ABC transporter signature motif; other site 640511009393 Walker B; other site 640511009394 D-loop; other site 640511009395 H-loop/switch region; other site 640511009396 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 640511009397 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 640511009398 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640511009399 Walker A/P-loop; other site 640511009400 ATP binding site [chemical binding]; other site 640511009401 Q-loop/lid; other site 640511009402 ABC transporter signature motif; other site 640511009403 Walker B; other site 640511009404 D-loop; other site 640511009405 H-loop/switch region; other site 640511009406 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 640511009407 dipeptide transporter; Provisional; Region: PRK10913 640511009408 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511009409 dimer interface [polypeptide binding]; other site 640511009410 conserved gate region; other site 640511009411 putative PBP binding loops; other site 640511009412 ABC-ATPase subunit interface; other site 640511009413 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 640511009414 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511009415 dimer interface [polypeptide binding]; other site 640511009416 conserved gate region; other site 640511009417 putative PBP binding loops; other site 640511009418 ABC-ATPase subunit interface; other site 640511009419 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 640511009420 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 640511009421 peptide binding site [polypeptide binding]; other site 640511009422 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 640511009423 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 640511009424 peptide binding site [polypeptide binding]; other site 640511009425 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 640511009426 FAD binding site [chemical binding]; other site 640511009427 Membrane protein of unknown function; Region: DUF360; pfam04020 640511009428 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 640511009429 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 640511009430 homotetramer interface [polypeptide binding]; other site 640511009431 ligand binding site [chemical binding]; other site 640511009432 catalytic site [active] 640511009433 NAD binding site [chemical binding]; other site 640511009434 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 640511009435 LrgA family; Region: LrgA; pfam03788 640511009436 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511009437 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511009438 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 640511009439 putative dimerization interface [polypeptide binding]; other site 640511009440 choline dehydrogenase; Validated; Region: PRK02106 640511009441 lycopene cyclase; Region: lycopene_cycl; TIGR01789 640511009442 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 640511009443 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 640511009444 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640511009445 active site 640511009446 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 640511009447 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 640511009448 NAD(P) binding site [chemical binding]; other site 640511009449 catalytic residues [active] 640511009450 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 640511009451 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 640511009452 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 640511009453 Flagellar protein FliT; Region: FliT; cl05125 640511009454 Flagellar protein FliT; Region: FliT; cl05125 640511009455 flagellar protein FliS; Validated; Region: fliS; PRK05685 640511009456 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 640511009457 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 640511009458 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 640511009459 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 640511009460 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 640511009461 FliG C-terminal domain; Region: FliG_C; pfam01706 640511009462 flagellar assembly protein H; Validated; Region: fliH; PRK05687 640511009463 Flagellar assembly protein FliH; Region: FliH; pfam02108 640511009464 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 640511009465 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 640511009466 Walker A motif/ATP binding site; other site 640511009467 Walker B motif; other site 640511009468 Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliJ; COG2882 640511009469 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 640511009470 Flagellar hook-length control protein FliK; Region: Flg_hook; cl17777 640511009471 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 640511009472 AAA domain; Region: AAA_25; pfam13481 640511009473 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 640511009474 Walker A motif; other site 640511009475 ATP binding site [chemical binding]; other site 640511009476 Walker B motif; other site 640511009477 MarR family; Region: MarR_2; pfam12802 640511009478 Helix-turn-helix domain; Region: HTH_17; pfam12728 640511009479 Domain of unknown function (DUF4102); Region: DUF4102; pfam13356 640511009480 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 640511009481 active site 640511009482 DNA binding site [nucleotide binding] 640511009483 Int/Topo IB signature motif; other site 640511009484 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07021 640511009485 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 640511009486 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 640511009487 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 640511009488 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 640511009489 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 640511009490 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 640511009491 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 640511009492 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 640511009493 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 640511009494 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 640511009495 Flagellar regulator YcgR; Region: YcgR; pfam07317 640511009496 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 640511009497 PilZ domain; Region: PilZ; pfam07238 640511009498 flagellar rod assembly protein/muramidase FlgJ; Provisional; Region: flgJ; PRK12709 640511009499 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 640511009500 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 640511009501 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 640511009502 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 640511009503 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12697 640511009504 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 640511009505 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12694 640511009506 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 640511009507 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 640511009508 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 640511009509 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 640511009510 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 640511009511 flagellar hook protein FlgE; Provisional; Region: flgE; PRK12637 640511009512 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 640511009513 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 640511009514 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 640511009515 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 640511009516 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 640511009517 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 640511009518 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 640511009519 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 640511009520 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12626 640511009521 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 640511009522 SAF-like; Region: SAF_2; pfam13144 640511009523 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 640511009524 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 640511009525 FlgN protein; Region: FlgN; pfam05130 640511009526 YcfA-like protein; Region: YcfA; pfam07927 640511009527 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 640511009528 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 640511009529 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 640511009530 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640511009531 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 640511009532 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 640511009533 DNA binding residues [nucleotide binding] 640511009534 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 640511009535 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 640511009536 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14722 640511009537 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 640511009538 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 640511009539 FHIPEP family; Region: FHIPEP; pfam00771 640511009540 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 640511009541 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 640511009542 Protein of unknown function (DUF3443); Region: DUF3443; pfam11925 640511009543 Protein of unknown function (DUF2844); Region: DUF2844; pfam11005 640511009544 chemotaxis regulator CheZ; Provisional; Region: PRK11166 640511009545 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 640511009546 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511009547 active site 640511009548 phosphorylation site [posttranslational modification] 640511009549 intermolecular recognition site; other site 640511009550 dimerization interface [polypeptide binding]; other site 640511009551 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 640511009552 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511009553 active site 640511009554 phosphorylation site [posttranslational modification] 640511009555 intermolecular recognition site; other site 640511009556 dimerization interface [polypeptide binding]; other site 640511009557 CheB methylesterase; Region: CheB_methylest; pfam01339 640511009558 chemoreceptor glutamine deamidase CheD; Provisional; Region: PRK13489 640511009559 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 640511009560 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 640511009561 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 640511009562 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 640511009563 dimer interface [polypeptide binding]; other site 640511009564 ligand binding site [chemical binding]; other site 640511009565 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 640511009566 dimerization interface [polypeptide binding]; other site 640511009567 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 640511009568 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640511009569 dimer interface [polypeptide binding]; other site 640511009570 putative CheW interface [polypeptide binding]; other site 640511009571 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 640511009572 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 640511009573 putative binding surface; other site 640511009574 active site 640511009575 CheY binding; Region: CheY-binding; pfam09078 640511009576 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 640511009577 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511009578 ATP binding site [chemical binding]; other site 640511009579 Mg2+ binding site [ion binding]; other site 640511009580 G-X-G motif; other site 640511009581 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 640511009582 Response regulator receiver domain; Region: Response_reg; pfam00072 640511009583 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511009584 active site 640511009585 phosphorylation site [posttranslational modification] 640511009586 intermolecular recognition site; other site 640511009587 dimerization interface [polypeptide binding]; other site 640511009588 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 640511009589 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 640511009590 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640511009591 ligand binding site [chemical binding]; other site 640511009592 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 640511009593 flagellar motor protein MotA; Validated; Region: PRK09110 640511009594 transcriptional activator FlhC; Provisional; Region: PRK12722 640511009595 transcriptional activator FlhD; Provisional; Region: PRK02909 640511009596 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640511009597 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 640511009598 putative ADP-binding pocket [chemical binding]; other site 640511009599 H-NS histone family; Region: Histone_HNS; pfam00816 640511009600 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 640511009601 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 640511009602 amphipathic channel; other site 640511009603 Asn-Pro-Ala signature motifs; other site 640511009604 putative hydrolase; Provisional; Region: PRK10976 640511009605 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 640511009606 active site 640511009607 motif I; other site 640511009608 motif II; other site 640511009609 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 640511009610 motif II; other site 640511009611 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 640511009612 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 640511009613 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 640511009614 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 640511009615 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 640511009616 active site 640511009617 catalytic tetrad [active] 640511009618 TPR repeat; Region: TPR_11; pfam13414 640511009619 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 640511009620 TPR motif; other site 640511009621 binding surface 640511009622 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 640511009623 binding surface 640511009624 TPR motif; other site 640511009625 TPR repeat; Region: TPR_11; pfam13414 640511009626 TPR repeat; Region: TPR_11; pfam13414 640511009627 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 640511009628 TPR motif; other site 640511009629 binding surface 640511009630 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 640511009631 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 640511009632 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 640511009633 binding surface 640511009634 TPR motif; other site 640511009635 Tetratricopeptide repeat; Region: TPR_12; pfam13424 640511009636 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 640511009637 TPR motif; other site 640511009638 binding surface 640511009639 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 640511009640 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 640511009641 Glycosyltransferase like family; Region: Glyco_tranf_2_5; pfam13712 640511009642 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 640511009643 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 640511009644 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 640511009645 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 640511009646 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 640511009647 [2Fe-2S] cluster binding site [ion binding]; other site 640511009648 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 640511009649 alpha subunit interface [polypeptide binding]; other site 640511009650 active site 640511009651 substrate binding site [chemical binding]; other site 640511009652 Fe binding site [ion binding]; other site 640511009653 Methyltransferase FkbM domain; Region: Methyltransf_21; cl17387 640511009654 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 640511009655 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 640511009656 putative trimer interface [polypeptide binding]; other site 640511009657 putative CoA binding site [chemical binding]; other site 640511009658 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640511009659 classical (c) SDRs; Region: SDR_c; cd05233 640511009660 NAD(P) binding site [chemical binding]; other site 640511009661 active site 640511009662 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 640511009663 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 640511009664 dimer interface [polypeptide binding]; other site 640511009665 active site 640511009666 CoA binding pocket [chemical binding]; other site 640511009667 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 640511009668 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 640511009669 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 640511009670 inhibitor-cofactor binding pocket; inhibition site 640511009671 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511009672 catalytic residue [active] 640511009673 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 640511009674 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 640511009675 active site 640511009676 Glycosyltransferase like family; Region: Glyco_tranf_2_5; pfam13712 640511009677 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 640511009678 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 640511009679 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 640511009680 [2Fe-2S] cluster binding site [ion binding]; other site 640511009681 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 640511009682 alpha subunit interface [polypeptide binding]; other site 640511009683 active site 640511009684 substrate binding site [chemical binding]; other site 640511009685 Fe binding site [ion binding]; other site 640511009686 flagellin; Reviewed; Region: PRK08869 640511009687 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 640511009688 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 640511009689 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 640511009690 flagellar capping protein; Reviewed; Region: fliD; PRK08032 640511009691 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 640511009692 Flagellar protein FliT; Region: FliT; pfam05400 640511009693 Cytochrome c; Region: Cytochrom_C; cl11414 640511009694 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640511009695 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 640511009696 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 640511009697 Part of AAA domain; Region: AAA_19; pfam13245 640511009698 Family description; Region: UvrD_C_2; pfam13538 640511009699 putative oxidoreductase; Provisional; Region: PRK11579 640511009700 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 640511009701 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 640511009702 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 640511009703 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 640511009704 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 640511009705 lipoyl attachment site [posttranslational modification]; other site 640511009706 glycine dehydrogenase; Provisional; Region: PRK05367 640511009707 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 640511009708 tetramer interface [polypeptide binding]; other site 640511009709 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511009710 catalytic residue [active] 640511009711 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 640511009712 tetramer interface [polypeptide binding]; other site 640511009713 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511009714 catalytic residue [active] 640511009715 Alginate lyase; Region: Alginate_lyase; pfam05426 640511009716 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 640511009717 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 640511009718 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 640511009719 thiamine pyrophosphate protein; Validated; Region: PRK08199 640511009720 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 640511009721 PYR/PP interface [polypeptide binding]; other site 640511009722 dimer interface [polypeptide binding]; other site 640511009723 TPP binding site [chemical binding]; other site 640511009724 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 640511009725 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 640511009726 TPP-binding site [chemical binding]; other site 640511009727 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 640511009728 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 640511009729 dimerization interface [polypeptide binding]; other site 640511009730 ligand binding site [chemical binding]; other site 640511009731 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 640511009732 Predicted transcriptional regulator [Transcription]; Region: COG3905 640511009733 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 640511009734 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 640511009735 Glutamate binding site [chemical binding]; other site 640511009736 NAD binding site [chemical binding]; other site 640511009737 catalytic residues [active] 640511009738 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 640511009739 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 640511009740 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 640511009741 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 640511009742 ATP binding site [chemical binding]; other site 640511009743 putative Mg++ binding site [ion binding]; other site 640511009744 helicase superfamily c-terminal domain; Region: HELICc; smart00490 640511009745 ATP-binding site [chemical binding]; other site 640511009746 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 640511009747 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 640511009748 substrate binding site [chemical binding]; other site 640511009749 active site 640511009750 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 640511009751 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 640511009752 substrate binding pocket [chemical binding]; other site 640511009753 membrane-bound complex binding site; other site 640511009754 hinge residues; other site 640511009755 AMP-binding domain protein; Validated; Region: PRK08315 640511009756 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 640511009757 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 640511009758 acyl-activating enzyme (AAE) consensus motif; other site 640511009759 putative AMP binding site [chemical binding]; other site 640511009760 putative active site [active] 640511009761 putative CoA binding site [chemical binding]; other site 640511009762 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 640511009763 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 640511009764 gamma subunit interface [polypeptide binding]; other site 640511009765 epsilon subunit interface [polypeptide binding]; other site 640511009766 LBP interface [polypeptide binding]; other site 640511009767 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 640511009768 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 640511009769 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 640511009770 alpha subunit interaction interface [polypeptide binding]; other site 640511009771 Walker A motif; other site 640511009772 ATP binding site [chemical binding]; other site 640511009773 Walker B motif; other site 640511009774 inhibitor binding site; inhibition site 640511009775 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 640511009776 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 640511009777 core domain interface [polypeptide binding]; other site 640511009778 delta subunit interface [polypeptide binding]; other site 640511009779 epsilon subunit interface [polypeptide binding]; other site 640511009780 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 640511009781 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 640511009782 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 640511009783 beta subunit interaction interface [polypeptide binding]; other site 640511009784 Walker A motif; other site 640511009785 ATP binding site [chemical binding]; other site 640511009786 Walker B motif; other site 640511009787 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 640511009788 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 640511009789 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 640511009790 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 640511009791 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 640511009792 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 640511009793 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 640511009794 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 640511009795 ATP synthase I chain; Region: ATP_synt_I; pfam03899 640511009796 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 640511009797 ParB-like nuclease domain; Region: ParBc; pfam02195 640511009798 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 640511009799 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 640511009800 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 640511009801 Magnesium ion binding site [ion binding]; other site 640511009802 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 640511009803 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 640511009804 S-adenosylmethionine binding site [chemical binding]; other site 640511009805 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 640511009806 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 640511009807 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 640511009808 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 640511009809 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 640511009810 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 640511009811 Walker A/P-loop; other site 640511009812 ATP binding site [chemical binding]; other site 640511009813 Q-loop/lid; other site 640511009814 ABC transporter signature motif; other site 640511009815 Walker B; other site 640511009816 D-loop; other site 640511009817 H-loop/switch region; other site 640511009818 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 640511009819 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 640511009820 TM-ABC transporter signature motif; other site 640511009821 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 640511009822 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 640511009823 Walker A/P-loop; other site 640511009824 ATP binding site [chemical binding]; other site 640511009825 Q-loop/lid; other site 640511009826 ABC transporter signature motif; other site 640511009827 Walker B; other site 640511009828 D-loop; other site 640511009829 H-loop/switch region; other site 640511009830 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 640511009831 TM-ABC transporter signature motif; other site 640511009832 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 640511009833 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 640511009834 putative ligand binding site [chemical binding]; other site 640511009835 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 640511009836 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 640511009837 putative ligand binding site [chemical binding]; other site 640511009838 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 640511009839 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 640511009840 TM-ABC transporter signature motif; other site 640511009841 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640511009842 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 640511009843 TM-ABC transporter signature motif; other site 640511009844 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 640511009845 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 640511009846 putative ligand binding site [chemical binding]; other site 640511009847 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 640511009848 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 640511009849 Walker A/P-loop; other site 640511009850 ATP binding site [chemical binding]; other site 640511009851 Q-loop/lid; other site 640511009852 ABC transporter signature motif; other site 640511009853 Walker B; other site 640511009854 D-loop; other site 640511009855 H-loop/switch region; other site 640511009856 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 640511009857 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 640511009858 Walker A/P-loop; other site 640511009859 ATP binding site [chemical binding]; other site 640511009860 Q-loop/lid; other site 640511009861 ABC transporter signature motif; other site 640511009862 Walker B; other site 640511009863 D-loop; other site 640511009864 H-loop/switch region; other site 640511009865 choline dehydrogenase; Validated; Region: PRK02106 640511009866 lycopene cyclase; Region: lycopene_cycl; TIGR01789 640511009867 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 640511009868 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 640511009869 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 640511009870 tetrameric interface [polypeptide binding]; other site 640511009871 NAD binding site [chemical binding]; other site 640511009872 catalytic residues [active] 640511009873 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511009874 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511009875 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 640511009876 dimerization interface [polypeptide binding]; other site 640511009877 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 640511009878 putative active site [active] 640511009879 putative metal binding residues [ion binding]; other site 640511009880 signature motif; other site 640511009881 putative triphosphate binding site [ion binding]; other site 640511009882 dimer interface [polypeptide binding]; other site 640511009883 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 640511009884 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 640511009885 putative DNA binding site [nucleotide binding]; other site 640511009886 putative Zn2+ binding site [ion binding]; other site 640511009887 AsnC family; Region: AsnC_trans_reg; pfam01037 640511009888 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 640511009889 cofactor binding site; other site 640511009890 metal binding site [ion binding]; metal-binding site 640511009891 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 640511009892 aromatic arch; other site 640511009893 DCoH dimer interaction site [polypeptide binding]; other site 640511009894 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 640511009895 DCoH tetramer interaction site [polypeptide binding]; other site 640511009896 substrate binding site [chemical binding]; other site 640511009897 Protein of unknown function (DUF3717); Region: DUF3717; pfam12512 640511009898 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 640511009899 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511009900 active site 640511009901 phosphorylation site [posttranslational modification] 640511009902 intermolecular recognition site; other site 640511009903 dimerization interface [polypeptide binding]; other site 640511009904 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 640511009905 DNA binding site [nucleotide binding] 640511009906 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 640511009907 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640511009908 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 640511009909 dimer interface [polypeptide binding]; other site 640511009910 phosphorylation site [posttranslational modification] 640511009911 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511009912 ATP binding site [chemical binding]; other site 640511009913 Mg2+ binding site [ion binding]; other site 640511009914 G-X-G motif; other site 640511009915 Proteins containing SET domain [General function prediction only]; Region: COG2940 640511009916 SET domain; Region: SET; pfam00856 640511009917 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 640511009918 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 640511009919 active site 640511009920 FMN binding site [chemical binding]; other site 640511009921 substrate binding site [chemical binding]; other site 640511009922 homotetramer interface [polypeptide binding]; other site 640511009923 catalytic residue [active] 640511009924 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 640511009925 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 640511009926 catalytic triad [active] 640511009927 Transcriptional regulators [Transcription]; Region: MarR; COG1846 640511009928 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 640511009929 putative DNA binding site [nucleotide binding]; other site 640511009930 putative Zn2+ binding site [ion binding]; other site 640511009931 gamma-glutamyl:cysteine ligase; Provisional; Region: PRK13516 640511009932 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 640511009933 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 640511009934 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 640511009935 Uncharacterized conserved protein [Function unknown]; Region: COG4121 640511009936 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 640511009937 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 640511009938 IHF dimer interface [polypeptide binding]; other site 640511009939 IHF - DNA interface [nucleotide binding]; other site 640511009940 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 640511009941 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 640511009942 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 640511009943 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 640511009944 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 640511009945 N-acetyl-D-glucosamine binding site [chemical binding]; other site 640511009946 catalytic residue [active] 640511009947 type II secretion system protein D; Region: type_II_gspD; TIGR02517 640511009948 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 640511009949 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 640511009950 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 640511009951 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 640511009952 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 640511009953 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 640511009954 type II secretion system protein E; Region: type_II_gspE; TIGR02533 640511009955 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 640511009956 Walker A motif; other site 640511009957 ATP binding site [chemical binding]; other site 640511009958 Walker B motif; other site 640511009959 type II secretion system protein F; Region: GspF; TIGR02120 640511009960 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 640511009961 Ceramidase; Region: Ceramidase; pfam05875 640511009962 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 640511009963 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 640511009964 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 640511009965 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 640511009966 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 640511009967 Type II transport protein GspH; Region: GspH; pfam12019 640511009968 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 640511009969 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 640511009970 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 640511009971 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 640511009972 GspL periplasmic domain; Region: GspL_C; pfam12693 640511009973 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 640511009974 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 640511009975 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640511009976 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640511009977 MarR family; Region: MarR_2; cl17246 640511009978 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 640511009979 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511009980 putative substrate translocation pore; other site 640511009981 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511009982 glutamate--cysteine ligase; Provisional; Region: PRK02107 640511009983 AlkA N-terminal domain; Region: AlkA_N; pfam06029 640511009984 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 640511009985 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 640511009986 minor groove reading motif; other site 640511009987 helix-hairpin-helix signature motif; other site 640511009988 substrate binding pocket [chemical binding]; other site 640511009989 active site 640511009990 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 640511009991 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 640511009992 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511009993 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 640511009994 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 640511009995 DNA binding site [nucleotide binding] 640511009996 active site 640511009997 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 640511009998 dimer interface [polypeptide binding]; other site 640511009999 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640511010000 metal binding site [ion binding]; metal-binding site 640511010001 YaeQ protein; Region: YaeQ; pfam07152 640511010002 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511010003 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511010004 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 640511010005 putative dimerization interface [polypeptide binding]; other site 640511010006 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 640511010007 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640511010008 NAD(P) binding site [chemical binding]; other site 640511010009 catalytic residues [active] 640511010010 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 640511010011 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 640511010012 ligand binding site [chemical binding]; other site 640511010013 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 640511010014 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 640511010015 Walker A/P-loop; other site 640511010016 ATP binding site [chemical binding]; other site 640511010017 Q-loop/lid; other site 640511010018 ABC transporter signature motif; other site 640511010019 Walker B; other site 640511010020 D-loop; other site 640511010021 H-loop/switch region; other site 640511010022 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 640511010023 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640511010024 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 640511010025 TM-ABC transporter signature motif; other site 640511010026 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 640511010027 HIT family signature motif; other site 640511010028 catalytic residue [active] 640511010029 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640511010030 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 640511010031 conserved cys residue [active] 640511010032 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511010033 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 640511010034 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511010035 NAD(P) binding site [chemical binding]; other site 640511010036 active site 640511010037 Response regulator receiver domain; Region: Response_reg; pfam00072 640511010038 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511010039 active site 640511010040 phosphorylation site [posttranslational modification] 640511010041 intermolecular recognition site; other site 640511010042 dimerization interface [polypeptide binding]; other site 640511010043 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640511010044 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640511010045 metal binding site [ion binding]; metal-binding site 640511010046 active site 640511010047 I-site; other site 640511010048 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 640511010049 active site 640511010050 Int/Topo IB signature motif; other site 640511010051 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 640511010052 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 640511010053 trmE is a tRNA modification GTPase; Region: trmE; cd04164 640511010054 G1 box; other site 640511010055 GTP/Mg2+ binding site [chemical binding]; other site 640511010056 Switch I region; other site 640511010057 G2 box; other site 640511010058 Switch II region; other site 640511010059 G3 box; other site 640511010060 G4 box; other site 640511010061 G5 box; other site 640511010062 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 640511010063 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 640511010064 non-specific DNA binding site [nucleotide binding]; other site 640511010065 salt bridge; other site 640511010066 sequence-specific DNA binding site [nucleotide binding]; other site 640511010067 membrane protein insertase; Provisional; Region: PRK01318 640511010068 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 640511010069 hypothetical protein; Validated; Region: PRK00041 640511010070 Ribonuclease P; Region: Ribonuclease_P; cl00457 640511010071 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 640511010072 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 640511010073 catalytic residue [active] 640511010074 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 640511010075 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 640511010076 N-terminal plug; other site 640511010077 ligand-binding site [chemical binding]; other site 640511010078 Histidine kinase; Region: HisKA_3; pfam07730 640511010079 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511010080 ATP binding site [chemical binding]; other site 640511010081 Mg2+ binding site [ion binding]; other site 640511010082 G-X-G motif; other site 640511010083 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640511010084 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511010085 active site 640511010086 phosphorylation site [posttranslational modification] 640511010087 intermolecular recognition site; other site 640511010088 dimerization interface [polypeptide binding]; other site 640511010089 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 640511010090 DNA binding residues [nucleotide binding] 640511010091 dimerization interface [polypeptide binding]; other site 640511010092 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 640511010093 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 640511010094 FeS/SAM binding site; other site 640511010095 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 640511010096 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 640511010097 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 640511010098 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 640511010099 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 640511010100 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 640511010101 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 640511010102 FwdC/FmdC. This domain of unknown function is found in the subunit C of formylmethanofuran dehydrogenase, an enzyme that catalyzes the first step in methane formation from CO2 in methanogenic archaea, hyperthermophiles and bacteria. There are two...; Region: FwdC/FmdC; cd00980 640511010103 putative subunit interface; other site 640511010104 formylmethanofuran--tetrahydromethanopterin formyltransferase; Provisional; Region: PRK02114 640511010105 Formylmethanofuran-tetrahydromethanopterin formyltransferase; Region: FTR; pfam01913 640511010106 FTR, proximal lobe; Region: FTR_C; pfam02741 640511010107 formylmethanofuran dehydrogenase subunit A; Region: one_C_dehyd_A; TIGR03121 640511010108 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 640511010109 active site 640511010110 The MopB_FmdB-FwdB CD contains the molybdenum/tungsten formylmethanofuran dehydrogenases, subunit B (FmdB/FwdB), and other related proteins. Formylmethanofuran dehydrogenase catalyzes the first step in methane formation from CO2 in methanogenic archaea...; Region: MopB_FmdB-FwdB; cd02761 640511010111 formylmethanofuran dehydrogenase subunit B; Region: one_C_dehyd_B; TIGR03129 640511010112 putative [4Fe-4S] binding site [ion binding]; other site 640511010113 putative molybdopterin cofactor binding site [chemical binding]; other site 640511010114 hisA/hisF family protein; Region: hisAF_rel; TIGR00734 640511010115 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase (HisA) and the cyclase subunit of imidazoleglycerol phosphate synthase (HisF). The ProFAR isomerase catalyzes the fourth step in histidine biosynthesis, an...; Region: HisA_HisF; cd04723 640511010116 active site 640511010117 ATP-grasp domain; Region: ATP-grasp_4; cl17255 640511010118 Predicted transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: COG1548; cl00668 640511010119 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 640511010120 nucleotide binding site [chemical binding]; other site 640511010121 substrate binding site [chemical binding]; other site 640511010122 hypothetical protein; Provisional; Region: PRK02227 640511010123 Protein of unknown function (DUF447); Region: DUF447; pfam04289 640511010124 ribulose bisophosphate carboxylase; Reviewed; Region: rbcL; PRK04208 640511010125 Ribulose bisphosphate carboxylase large chain, Form I; Region: RuBisCO_large_I; cd08212 640511010126 homodimer interface [polypeptide binding]; other site 640511010127 active site 640511010128 heterodimer interface [polypeptide binding]; other site 640511010129 catalytic residue [active] 640511010130 metal binding site [ion binding]; metal-binding site 640511010131 Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of photorespiration. Rubisco...; Region: RuBisCO_small; cd03527 640511010132 multimerization interface [polypeptide binding]; other site 640511010133 probable Rubsico expression protein CbbX; Region: cbbX_cfxQ; TIGR02880 640511010134 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 640511010135 Walker A motif; other site 640511010136 ATP binding site [chemical binding]; other site 640511010137 Walker B motif; other site 640511010138 arginine finger; other site 640511010139 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 640511010140 AMP binding site [chemical binding]; other site 640511010141 metal binding site [ion binding]; metal-binding site 640511010142 active site 640511010143 phosphoribulokinase; Provisional; Region: PRK15453 640511010144 transketolase; Reviewed; Region: PRK12753 640511010145 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 640511010146 TPP-binding site [chemical binding]; other site 640511010147 dimer interface [polypeptide binding]; other site 640511010148 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 640511010149 PYR/PP interface [polypeptide binding]; other site 640511010150 dimer interface [polypeptide binding]; other site 640511010151 TPP binding site [chemical binding]; other site 640511010152 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 640511010153 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 640511010154 intersubunit interface [polypeptide binding]; other site 640511010155 active site 640511010156 zinc binding site [ion binding]; other site 640511010157 Na+ binding site [ion binding]; other site 640511010158 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 640511010159 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 640511010160 substrate binding site [chemical binding]; other site 640511010161 hexamer interface [polypeptide binding]; other site 640511010162 metal binding site [ion binding]; metal-binding site 640511010163 dihydropteroate synthase-related protein; Region: TIGR00284 640511010164 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 640511010165 substrate binding pocket [chemical binding]; other site 640511010166 dimer interface [polypeptide binding]; other site 640511010167 inhibitor binding site; inhibition site 640511010168 Archaeal flavoproteins [Energy production and conversion]; Region: COG1036 640511010169 Flavoprotein; Region: Flavoprotein; pfam02441 640511010170 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 640511010171 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 640511010172 Walker A motif; other site 640511010173 ATP binding site [chemical binding]; other site 640511010174 Walker B motif; other site 640511010175 arginine finger; other site 640511010176 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 640511010177 Dihydroneopterin aldolase; Region: FolB; smart00905 640511010178 active site 640511010179 Formaldehyde-activating enzyme (Fae); Region: Fae; pfam08714 640511010180 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; pfam01874 640511010181 alpha-L-glutamate ligases, RimK family; Region: rimK_fam; TIGR00768 640511010182 ATP-grasp domain; Region: ATP-grasp_4; cl17255 640511010183 N(5),N(10)-methenyltetrahydromethanopterin cyclohydrolase; Provisional; Region: PRK02264 640511010184 Methenyltetrahydromethanopterin (methenyl-H4MPT) cyclohydrolase (MCH). MCH is a cytoplasmic enzyme that has been identified in methanogenic archaea, sulfate- reducing archaea, and methylotrophic bacteria. It catalyzes the reversible formation of N(5), N...; Region: MCH; cd00545 640511010185 trimer interface I [polypeptide binding]; other site 640511010186 putative substrate binding pocket [chemical binding]; other site 640511010187 trimer interface II [polypeptide binding]; other site 640511010188 Predicted ATP-dependent carboligase related to biotin carboxylase [General function prediction only]; Region: COG2232 640511010189 ATP-grasp domain; Region: ATP-grasp_4; cl17255 640511010190 Methylene-tetrahydromethanopterin dehydrogenase, N-terminal; Region: Mpt_N; pfam09176 640511010191 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 640511010192 NAD(P) binding pocket [chemical binding]; other site 640511010193 Predicted archaeal sugar kinases [General function prediction only]; Region: COG1907 640511010194 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; cd00488 640511010195 aromatic arch; other site 640511010196 DCoH dimer interaction site [polypeptide binding]; other site 640511010197 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 640511010198 DCoH tetramer interaction site [polypeptide binding]; other site 640511010199 substrate binding site [chemical binding]; other site 640511010200 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 640511010201 Large subunit of methanol dehydrogenase (moxF); Region: PQQ_MDH; cd10278 640511010202 Trp docking motif [polypeptide binding]; other site 640511010203 dimer interface [polypeptide binding]; other site 640511010204 active site 640511010205 small subunit binding site [polypeptide binding]; other site 640511010206 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 640511010207 quinoprotein dehydrogenase-associated probable ABC transporter substrate-binding protein; Region: ABC_peri_MoxJ_2; TIGR03871 640511010208 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 640511010209 membrane-bound complex binding site; other site 640511010210 hinge residues; other site 640511010211 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511010212 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511010213 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 640511010214 putative dimerization interface [polypeptide binding]; other site 640511010215 MoxR-like ATPases [General function prediction only]; Region: COG0714 640511010216 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 640511010217 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 640511010218 metal ion-dependent adhesion site (MIDAS); other site 640511010219 von Willebrand factor type A domain; Region: VWA_2; pfam13519 640511010220 metal ion-dependent adhesion site (MIDAS); other site 640511010221 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640511010222 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 640511010223 conserved cys residue [active] 640511010224 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511010225 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 640511010226 Peptidase M35-like domain of uncharacterized proteins; Region: M35_like_1; cd11007 640511010227 putative active site [active] 640511010228 putative Zn binding site [ion binding]; other site 640511010229 Mu-like prophage tail protein gpP [General function prediction only]; Region: COG4379 640511010230 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 640511010231 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 640511010232 conserved cys residue [active] 640511010233 Protein of unknown function (DUF3268); Region: DUF3268; pfam11672 640511010234 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 640511010235 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 640511010236 Walker A/P-loop; other site 640511010237 ATP binding site [chemical binding]; other site 640511010238 Q-loop/lid; other site 640511010239 ABC transporter signature motif; other site 640511010240 Walker B; other site 640511010241 D-loop; other site 640511010242 H-loop/switch region; other site 640511010243 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 640511010244 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511010245 dimer interface [polypeptide binding]; other site 640511010246 conserved gate region; other site 640511010247 putative PBP binding loops; other site 640511010248 ABC-ATPase subunit interface; other site 640511010249 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 640511010250 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 640511010251 substrate binding pocket [chemical binding]; other site 640511010252 membrane-bound complex binding site; other site 640511010253 hinge residues; other site 640511010254 ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: TauA; COG4521 640511010255 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 640511010256 substrate binding pocket [chemical binding]; other site 640511010257 membrane-bound complex binding site; other site 640511010258 hinge residues; other site 640511010259 ABC-type taurine transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG4525 640511010260 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 640511010261 Walker A/P-loop; other site 640511010262 ATP binding site [chemical binding]; other site 640511010263 Q-loop/lid; other site 640511010264 ABC transporter signature motif; other site 640511010265 Walker B; other site 640511010266 D-loop; other site 640511010267 H-loop/switch region; other site 640511010268 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 640511010269 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511010270 dimer interface [polypeptide binding]; other site 640511010271 conserved gate region; other site 640511010272 putative PBP binding loops; other site 640511010273 ABC-ATPase subunit interface; other site 640511010274 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 640511010275 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 640511010276 substrate binding pocket [chemical binding]; other site 640511010277 membrane-bound complex binding site; other site 640511010278 hinge residues; other site 640511010279 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511010280 dimer interface [polypeptide binding]; other site 640511010281 conserved gate region; other site 640511010282 putative PBP binding loops; other site 640511010283 ABC-ATPase subunit interface; other site 640511010284 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511010285 dimer interface [polypeptide binding]; other site 640511010286 conserved gate region; other site 640511010287 putative PBP binding loops; other site 640511010288 ABC-ATPase subunit interface; other site 640511010289 ectoine utilization protein EutE; Region: ectoine_eutE; TIGR02994 640511010290 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_2; cd06252 640511010291 putative active site [active] 640511010292 Zn binding site [ion binding]; other site 640511010293 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 640511010294 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 640511010295 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 640511010296 active site 640511010297 motif I; other site 640511010298 motif II; other site 640511010299 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 640511010300 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 640511010301 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 640511010302 putative NAD(P) binding site [chemical binding]; other site 640511010303 LysR family transcriptional regulator; Provisional; Region: PRK14997 640511010304 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511010305 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_6; cd08475 640511010306 putative effector binding pocket; other site 640511010307 putative dimerization interface [polypeptide binding]; other site 640511010308 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511010309 D-galactonate transporter; Region: 2A0114; TIGR00893 640511010310 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 640511010311 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511010312 DNA-binding site [nucleotide binding]; DNA binding site 640511010313 UTRA domain; Region: UTRA; pfam07702 640511010314 benzoate transport; Region: 2A0115; TIGR00895 640511010315 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511010316 putative substrate translocation pore; other site 640511010317 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 640511010318 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 640511010319 active site 640511010320 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 640511010321 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511010322 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 640511010323 dimerization interface [polypeptide binding]; other site 640511010324 substrate binding pocket [chemical binding]; other site 640511010325 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 640511010326 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 640511010327 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 640511010328 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 640511010329 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640511010330 Coenzyme A binding pocket [chemical binding]; other site 640511010331 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 640511010332 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 640511010333 substrate binding pocket [chemical binding]; other site 640511010334 membrane-bound complex binding site; other site 640511010335 hinge residues; other site 640511010336 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 640511010337 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 640511010338 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 640511010339 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 640511010340 active site 640511010341 non-prolyl cis peptide bond; other site 640511010342 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511010343 dimer interface [polypeptide binding]; other site 640511010344 conserved gate region; other site 640511010345 putative PBP binding loops; other site 640511010346 ABC-ATPase subunit interface; other site 640511010347 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 640511010348 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 640511010349 Walker A/P-loop; other site 640511010350 ATP binding site [chemical binding]; other site 640511010351 Q-loop/lid; other site 640511010352 ABC transporter signature motif; other site 640511010353 Walker B; other site 640511010354 D-loop; other site 640511010355 H-loop/switch region; other site 640511010356 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 640511010357 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 640511010358 substrate binding pocket [chemical binding]; other site 640511010359 membrane-bound complex binding site; other site 640511010360 hinge residues; other site 640511010361 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 640511010362 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 640511010363 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 640511010364 NMT1-like family; Region: NMT1_2; pfam13379 640511010365 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 640511010366 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 640511010367 Walker A/P-loop; other site 640511010368 ATP binding site [chemical binding]; other site 640511010369 Q-loop/lid; other site 640511010370 ABC transporter signature motif; other site 640511010371 Walker B; other site 640511010372 D-loop; other site 640511010373 H-loop/switch region; other site 640511010374 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 640511010375 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511010376 putative PBP binding loops; other site 640511010377 dimer interface [polypeptide binding]; other site 640511010378 ABC-ATPase subunit interface; other site 640511010379 56kDa selenium binding protein (SBP56); Region: SBP56; pfam05694 640511010380 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 640511010381 Fe-S cluster binding site [ion binding]; other site 640511010382 active site 640511010383 Protein of unknown function DUF72; Region: DUF72; pfam01904 640511010384 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 640511010385 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 640511010386 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 640511010387 putative NAD(P) binding site [chemical binding]; other site 640511010388 MarR family; Region: MarR; pfam01047 640511010389 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 640511010390 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 640511010391 iron-sulfur cluster [ion binding]; other site 640511010392 [2Fe-2S] cluster binding site [ion binding]; other site 640511010393 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 640511010394 alpha subunit interface [polypeptide binding]; other site 640511010395 active site 640511010396 substrate binding site [chemical binding]; other site 640511010397 Fe binding site [ion binding]; other site 640511010398 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 640511010399 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 640511010400 FMN-binding pocket [chemical binding]; other site 640511010401 flavin binding motif; other site 640511010402 phosphate binding motif [ion binding]; other site 640511010403 beta-alpha-beta structure motif; other site 640511010404 NAD binding pocket [chemical binding]; other site 640511010405 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 640511010406 catalytic loop [active] 640511010407 iron binding site [ion binding]; other site 640511010408 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 640511010409 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 640511010410 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 640511010411 Cytochrome c; Region: Cytochrom_C; pfam00034 640511010412 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 640511010413 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 640511010414 D-pathway; other site 640511010415 Putative ubiquinol binding site [chemical binding]; other site 640511010416 Low-spin heme (heme b) binding site [chemical binding]; other site 640511010417 Putative water exit pathway; other site 640511010418 Binuclear center (heme o3/CuB) [ion binding]; other site 640511010419 K-pathway; other site 640511010420 Putative proton exit pathway; other site 640511010421 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 640511010422 Subunit I/III interface [polypeptide binding]; other site 640511010423 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640511010424 Cytochrome c; Region: Cytochrom_C; pfam00034 640511010425 Cytochrome c; Region: Cytochrom_C; pfam00034 640511010426 acetyacetyl-CoA reductase; Provisional; Region: PRK12938 640511010427 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 640511010428 NAD(P) binding site [chemical binding]; other site 640511010429 homotetramer interface [polypeptide binding]; other site 640511010430 homodimer interface [polypeptide binding]; other site 640511010431 active site 640511010432 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 640511010433 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 640511010434 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 640511010435 PhoU domain; Region: PhoU; pfam01895 640511010436 Domain of unknown function (DUF3597); Region: DUF3597; pfam12200 640511010437 FCD domain; Region: FCD; cl11656 640511010438 benzoate transport; Region: 2A0115; TIGR00895 640511010439 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511010440 putative substrate translocation pore; other site 640511010441 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511010442 Amidohydrolase; Region: Amidohydro_2; pfam04909 640511010443 hypothetical protein; Provisional; Region: PRK09262 640511010444 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 640511010445 TupA-like ATPgrasp; Region: ATPgrasp_TupA; pfam14305 640511010446 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640511010447 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 640511010448 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511010449 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511010450 tyrosine kinase; Provisional; Region: PRK11519 640511010451 Chain length determinant protein; Region: Wzz; cl15801 640511010452 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 640511010453 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 640511010454 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 640511010455 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640511010456 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 640511010457 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 640511010458 active site 640511010459 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 640511010460 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 640511010461 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640511010462 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 640511010463 putative ADP-binding pocket [chemical binding]; other site 640511010464 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 640511010465 O-Antigen ligase; Region: Wzy_C; pfam04932 640511010466 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 640511010467 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 640511010468 Substrate binding site; other site 640511010469 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 640511010470 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 640511010471 Bacterial sugar transferase; Region: Bac_transf; pfam02397 640511010472 Sugar-transfer associated ATP-grasp; Region: ATPgrasp_ST; pfam14397 640511010473 benzoate transport; Region: 2A0115; TIGR00895 640511010474 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511010475 putative substrate translocation pore; other site 640511010476 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511010477 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_7; cd06910 640511010478 putative active site [active] 640511010479 Zn binding site [ion binding]; other site 640511010480 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 640511010481 tartrate dehydrogenase; Region: TTC; TIGR02089 640511010482 Propionate catabolism activator; Region: PrpR_N; pfam06506 640511010483 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 640511010484 PAS domain; Region: PAS; smart00091 640511010485 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 640511010486 Walker A motif; other site 640511010487 ATP binding site [chemical binding]; other site 640511010488 Walker B motif; other site 640511010489 arginine finger; other site 640511010490 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 640511010491 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 640511010492 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 640511010493 dimer interface [polypeptide binding]; other site 640511010494 active site 640511010495 citrylCoA binding site [chemical binding]; other site 640511010496 oxalacetate/citrate binding site [chemical binding]; other site 640511010497 coenzyme A binding site [chemical binding]; other site 640511010498 catalytic triad [active] 640511010499 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 640511010500 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 640511010501 substrate binding site [chemical binding]; other site 640511010502 ligand binding site [chemical binding]; other site 640511010503 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 640511010504 substrate binding site [chemical binding]; other site 640511010505 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 640511010506 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511010507 putative substrate translocation pore; other site 640511010508 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640511010509 Domain of unknown function (DUF305); Region: DUF305; cl17794 640511010510 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 640511010511 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 640511010512 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 640511010513 putative NAD(P) binding site [chemical binding]; other site 640511010514 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640511010515 Walker A/P-loop; other site 640511010516 ATP binding site [chemical binding]; other site 640511010517 ABC transporter; Region: ABC_tran; pfam00005 640511010518 Q-loop/lid; other site 640511010519 ABC transporter signature motif; other site 640511010520 Walker B; other site 640511010521 D-loop; other site 640511010522 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 640511010523 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 640511010524 shikimate binding site; other site 640511010525 NAD(P) binding site [chemical binding]; other site 640511010526 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12843 640511010527 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 640511010528 putative FAD-binding dehydrogenase; Reviewed; Region: PRK06134 640511010529 Predicted oxidoreductase [General function prediction only]; Region: COG3573 640511010530 NIPSNAP; Region: NIPSNAP; pfam07978 640511010531 NIPSNAP; Region: NIPSNAP; pfam07978 640511010532 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 640511010533 benzoate transport; Region: 2A0115; TIGR00895 640511010534 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511010535 putative substrate translocation pore; other site 640511010536 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511010537 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640511010538 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 640511010539 Bacterial transcriptional regulator; Region: IclR; pfam01614 640511010540 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 640511010541 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 640511010542 Walker A motif; other site 640511010543 ATP binding site [chemical binding]; other site 640511010544 Walker B motif; other site 640511010545 arginine finger; other site 640511010546 Peptidase family M41; Region: Peptidase_M41; pfam01434 640511010547 Predicted membrane protein [Function unknown]; Region: COG5373 640511010548 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 640511010549 OpgC protein; Region: OpgC_C; pfam10129 640511010550 Tannase and feruloyl esterase; Region: Tannase; pfam07519 640511010551 Response regulator receiver domain; Region: Response_reg; pfam00072 640511010552 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511010553 active site 640511010554 phosphorylation site [posttranslational modification] 640511010555 intermolecular recognition site; other site 640511010556 dimerization interface [polypeptide binding]; other site 640511010557 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 640511010558 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640511010559 putative active site [active] 640511010560 heme pocket [chemical binding]; other site 640511010561 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 640511010562 dimer interface [polypeptide binding]; other site 640511010563 phosphorylation site [posttranslational modification] 640511010564 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511010565 ATP binding site [chemical binding]; other site 640511010566 Mg2+ binding site [ion binding]; other site 640511010567 G-X-G motif; other site 640511010568 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511010569 Response regulator receiver domain; Region: Response_reg; pfam00072 640511010570 active site 640511010571 phosphorylation site [posttranslational modification] 640511010572 intermolecular recognition site; other site 640511010573 dimerization interface [polypeptide binding]; other site 640511010574 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 640511010575 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 640511010576 Walker A/P-loop; other site 640511010577 ATP binding site [chemical binding]; other site 640511010578 Q-loop/lid; other site 640511010579 ABC transporter signature motif; other site 640511010580 Walker B; other site 640511010581 D-loop; other site 640511010582 H-loop/switch region; other site 640511010583 ABC-2 type transporter; Region: ABC2_membrane; cl17235 640511010584 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 640511010585 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 640511010586 Autoinducer binding domain; Region: Autoind_bind; pfam03472 640511010587 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 640511010588 DNA binding residues [nucleotide binding] 640511010589 dimerization interface [polypeptide binding]; other site 640511010590 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 640511010591 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511010592 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511010593 Protein of unknown function (DUF3830); Region: DUF3830; pfam12903 640511010594 Triacylglycerol lipase-like subfamily of the SGNH hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: Triacylglycerol_lipase_like; cd01847 640511010595 active site 640511010596 catalytic triad [active] 640511010597 oxyanion hole [active] 640511010598 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 640511010599 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511010600 Transcriptional regulators [Transcription]; Region: GntR; COG1802 640511010601 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511010602 DNA-binding site [nucleotide binding]; DNA binding site 640511010603 FCD domain; Region: FCD; pfam07729 640511010604 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 640511010605 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 640511010606 PYR/PP interface [polypeptide binding]; other site 640511010607 dimer interface [polypeptide binding]; other site 640511010608 TPP binding site [chemical binding]; other site 640511010609 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 640511010610 Thiamine pyrophosphate (TPP) family, BZL_OCoD_HPCL subfamily, TPP-binding module; composed of proteins similar to benzaldehyde lyase (BZL), oxalyl-CoA decarboxylase (OCoD) and 2-hydroxyphytanoyl-CoA lyase (2-HPCL). Pseudomonas fluorescens biovar I BZL...; Region: TPP_BZL_OCoD_HPCL; cd02004 640511010611 TPP-binding site; other site 640511010612 dimer interface [polypeptide binding]; other site 640511010613 formyl-coenzyme A transferase; Provisional; Region: PRK05398 640511010614 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640511010615 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 640511010616 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 640511010617 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 640511010618 Autophagy protein Apg6; Region: APG6; pfam04111 640511010619 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511010620 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511010621 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 640511010622 putative dimerization interface [polypeptide binding]; other site 640511010623 oxalate/formate antiporter; Region: oxa_formateAnti; TIGR04259 640511010624 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511010625 putative substrate translocation pore; other site 640511010626 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511010627 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511010628 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 640511010629 putative dimerization interface [polypeptide binding]; other site 640511010630 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640511010631 Pseudomonas fluorescens 4-hydroxymuconic semialdehyde dehydrogenase-like; Region: ALDH_HMSADH_HapE; cd07115 640511010632 NAD(P) binding site [chemical binding]; other site 640511010633 catalytic residues [active] 640511010634 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 640511010635 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 640511010636 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 640511010637 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 640511010638 Uncharacterized conserved protein [Function unknown]; Region: COG1739 640511010639 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 640511010640 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 640511010641 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 640511010642 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 640511010643 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 640511010644 putative catalytic residue [active] 640511010645 Protein of unknown function (DUF2866); Region: DUF2866; pfam11065 640511010646 Protein of unknown function, DUF484; Region: DUF484; cl17449 640511010647 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640511010648 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640511010649 metal binding site [ion binding]; metal-binding site 640511010650 active site 640511010651 I-site; other site 640511010652 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 640511010653 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 640511010654 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 640511010655 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 640511010656 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 640511010657 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640511010658 dimer interface [polypeptide binding]; other site 640511010659 putative CheW interface [polypeptide binding]; other site 640511010660 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 640511010661 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 640511010662 tetramer interface [polypeptide binding]; other site 640511010663 active site 640511010664 Mg2+/Mn2+ binding site [ion binding]; other site 640511010665 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 640511010666 active site 640511010667 metal-binding site 640511010668 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 640511010669 phosphonopyruvate decarboxylase; Region: Ppyr-DeCO2ase; TIGR03297 640511010670 PYR/PP interface [polypeptide binding]; other site 640511010671 dimer interface [polypeptide binding]; other site 640511010672 TPP binding site [chemical binding]; other site 640511010673 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 640511010674 TPP-binding site; other site 640511010675 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 640511010676 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640511010677 catalytic residue [active] 640511010678 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12650 640511010679 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 640511010680 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 640511010681 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 640511010682 acyl-activating enzyme (AAE) consensus motif; other site 640511010683 AMP binding site [chemical binding]; other site 640511010684 active site 640511010685 CoA binding site [chemical binding]; other site 640511010686 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 640511010687 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 640511010688 Ligand binding site; other site 640511010689 metal-binding site 640511010690 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 640511010691 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 640511010692 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640511010693 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 640511010694 FAD binding domain; Region: FAD_binding_4; pfam01565 640511010695 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 640511010696 aldehyde oxidoreductase 2Fe-2S subunit; Provisional; Region: PRK11433 640511010697 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 640511010698 catalytic loop [active] 640511010699 iron binding site [ion binding]; other site 640511010700 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 640511010701 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 640511010702 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 640511010703 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 640511010704 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 640511010705 hydrogenase 4 subunit F; Validated; Region: PRK06458 640511010706 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 640511010707 Hydrogenase 4 membrane component (E) [Energy production and conversion]; Region: HyfE; cl17899 640511010708 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 640511010709 NADH dehydrogenase; Region: NADHdh; cl00469 640511010710 hydrogenase 4 subunit B; Validated; Region: PRK06521 640511010711 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 640511010712 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 640511010713 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 640511010714 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 640511010715 S-adenosylmethionine binding site [chemical binding]; other site 640511010716 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 640511010717 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 640511010718 PhnA protein; Region: PhnA; pfam03831 640511010719 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 640511010720 putative catalytic site [active] 640511010721 putative phosphate binding site [ion binding]; other site 640511010722 active site 640511010723 metal binding site A [ion binding]; metal-binding site 640511010724 DNA binding site [nucleotide binding] 640511010725 putative AP binding site [nucleotide binding]; other site 640511010726 putative metal binding site B [ion binding]; other site 640511010727 CsbD-like; Region: CsbD; pfam05532 640511010728 flagellar motor protein MotB; Validated; Region: motB; PRK09041 640511010729 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 640511010730 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640511010731 ligand binding site [chemical binding]; other site 640511010732 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 640511010733 Catalytic NodB homology domain of uncharacterized bacterial polysaccharide deacetylases; Region: CE4_NodB_like_3; cd10959 640511010734 NodB motif; other site 640511010735 putative active site [active] 640511010736 putative catalytic site [active] 640511010737 putative Zn binding site [ion binding]; other site 640511010738 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640511010739 classical (c) SDRs; Region: SDR_c; cd05233 640511010740 NAD(P) binding site [chemical binding]; other site 640511010741 active site 640511010742 Oxidoreductase-like protein, N-terminal; Region: Oxidored-like; pfam09791 640511010743 NAD-dependent deacetylase; Provisional; Region: PRK05333 640511010744 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 640511010745 PPOX class probable FMN-dependent enzyme, DR_2398 family; Region: PPOX_FMN_DR2398; TIGR04025 640511010746 Methyltransferase domain; Region: Methyltransf_23; pfam13489 640511010747 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 640511010748 S-adenosylmethionine binding site [chemical binding]; other site 640511010749 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 640511010750 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 640511010751 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 640511010752 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640511010753 Cupin domain; Region: Cupin_2; cl17218 640511010754 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 640511010755 Peptidase family M23; Region: Peptidase_M23; pfam01551 640511010756 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 640511010757 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 640511010758 tetramer interface [polypeptide binding]; other site 640511010759 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511010760 catalytic residue [active] 640511010761 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640511010762 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511010763 putative substrate translocation pore; other site 640511010764 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511010765 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 640511010766 homodimer interface [polypeptide binding]; other site 640511010767 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 640511010768 active site pocket [active] 640511010769 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 640511010770 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 640511010771 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 640511010772 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 640511010773 Helix-turn-helix domain; Region: HTH_18; pfam12833 640511010774 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511010775 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 640511010776 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 640511010777 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640511010778 active site 640511010779 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 640511010780 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 640511010781 Ligand binding site [chemical binding]; other site 640511010782 Electron transfer flavoprotein domain; Region: ETF; pfam01012 640511010783 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 640511010784 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 640511010785 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 640511010786 (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 640511010787 dimer interaction site [polypeptide binding]; other site 640511010788 substrate-binding tunnel; other site 640511010789 active site 640511010790 catalytic site [active] 640511010791 substrate binding site [chemical binding]; other site 640511010792 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 640511010793 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 640511010794 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 640511010795 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640511010796 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 640511010797 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511010798 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640511010799 putative substrate translocation pore; other site 640511010800 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 640511010801 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 640511010802 NADP binding site [chemical binding]; other site 640511010803 dimer interface [polypeptide binding]; other site 640511010804 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 640511010805 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 640511010806 Serine hydrolase; Region: Ser_hydrolase; pfam06821 640511010807 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640511010808 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 640511010809 [2Fe-2S] cluster binding site [ion binding]; other site 640511010810 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 640511010811 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 640511010812 dimer interface [polypeptide binding]; other site 640511010813 acyl-activating enzyme (AAE) consensus motif; other site 640511010814 putative active site [active] 640511010815 AMP binding site [chemical binding]; other site 640511010816 putative CoA binding site [chemical binding]; other site 640511010817 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640511010818 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 640511010819 trimer interface [polypeptide binding]; other site 640511010820 eyelet of channel; other site 640511010821 BON domain; Region: BON; pfam04972 640511010822 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 640511010823 putative dimer interface [polypeptide binding]; other site 640511010824 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640511010825 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 640511010826 CAAX protease self-immunity; Region: Abi; pfam02517 640511010827 Domain of unknown function (DU1801); Region: DUF1801; cl17490 640511010828 dihydroxy-acid dehydratase; Validated; Region: PRK06131 640511010829 Beta-lactamase; Region: Beta-lactamase; pfam00144 640511010830 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 640511010831 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511010832 metabolite-proton symporter; Region: 2A0106; TIGR00883 640511010833 putative substrate translocation pore; other site 640511010834 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640511010835 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 640511010836 eyelet of channel; other site 640511010837 trimer interface [polypeptide binding]; other site 640511010838 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 640511010839 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 640511010840 active site 640511010841 Zn binding site [ion binding]; other site 640511010842 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional; Region: PRK15010 640511010843 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 640511010844 substrate binding pocket [chemical binding]; other site 640511010845 membrane-bound complex binding site; other site 640511010846 hinge residues; other site 640511010847 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 640511010848 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 640511010849 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640511010850 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640511010851 metal binding site [ion binding]; metal-binding site 640511010852 active site 640511010853 I-site; other site 640511010854 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 640511010855 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 640511010856 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 640511010857 active site 640511010858 ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PhnL; COG4778 640511010859 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640511010860 Walker A/P-loop; other site 640511010861 ATP binding site [chemical binding]; other site 640511010862 Q-loop/lid; other site 640511010863 ABC transporter signature motif; other site 640511010864 Walker B; other site 640511010865 D-loop; other site 640511010866 H-loop/switch region; other site 640511010867 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 640511010868 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640511010869 Walker A/P-loop; other site 640511010870 ATP binding site [chemical binding]; other site 640511010871 Q-loop/lid; other site 640511010872 ABC transporter signature motif; other site 640511010873 Walker B; other site 640511010874 D-loop; other site 640511010875 H-loop/switch region; other site 640511010876 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640511010877 Phosphonate metabolism protein PhnJ; Region: PhnJ; pfam06007 640511010878 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; pfam05861 640511010879 carbon-phosphorus lyase complex subunit; Validated; Region: phnH; PRK10147 640511010880 Phosphonate metabolism protein PhnG; Region: PhnG; pfam06754 640511010881 phosphonates metabolism transcriptional regulator PhnF; Region: C_P_lyase_phnF; TIGR02325 640511010882 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511010883 DNA-binding site [nucleotide binding]; DNA binding site 640511010884 UTRA domain; Region: UTRA; pfam07702 640511010885 putative phosphonate metabolism protein; Region: Phn_opern_protn; TIGR03223 640511010886 Guanylate kinase; Region: Guanylate_kin; pfam00625 640511010887 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 640511010888 active site 640511010889 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 640511010890 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511010891 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 640511010892 dimerization interface [polypeptide binding]; other site 640511010893 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 640511010894 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 640511010895 metal binding site [ion binding]; metal-binding site 640511010896 putative dimer interface [polypeptide binding]; other site 640511010897 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 640511010898 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 640511010899 Bacterial transcriptional regulator; Region: IclR; pfam01614 640511010900 Transcriptional regulators [Transcription]; Region: FadR; COG2186 640511010901 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511010902 DNA-binding site [nucleotide binding]; DNA binding site 640511010903 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 640511010904 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 640511010905 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 640511010906 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 640511010907 putative aldolase; Validated; Region: PRK08130 640511010908 intersubunit interface [polypeptide binding]; other site 640511010909 active site 640511010910 Zn2+ binding site [ion binding]; other site 640511010911 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 640511010912 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 640511010913 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 640511010914 putative NAD(P) binding site [chemical binding]; other site 640511010915 active site 640511010916 putative substrate binding site [chemical binding]; other site 640511010917 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 640511010918 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 640511010919 dimer interface [polypeptide binding]; other site 640511010920 active site 640511010921 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 640511010922 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 640511010923 putative metal binding site [ion binding]; other site 640511010924 putative homodimer interface [polypeptide binding]; other site 640511010925 putative homotetramer interface [polypeptide binding]; other site 640511010926 putative homodimer-homodimer interface [polypeptide binding]; other site 640511010927 putative allosteric switch controlling residues; other site 640511010928 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 640511010929 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640511010930 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511010931 ATP binding site [chemical binding]; other site 640511010932 Mg2+ binding site [ion binding]; other site 640511010933 G-X-G motif; other site 640511010934 Response regulator receiver domain; Region: Response_reg; pfam00072 640511010935 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511010936 active site 640511010937 phosphorylation site [posttranslational modification] 640511010938 intermolecular recognition site; other site 640511010939 dimerization interface [polypeptide binding]; other site 640511010940 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511010941 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511010942 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 640511010943 putative effector binding pocket; other site 640511010944 putative dimerization interface [polypeptide binding]; other site 640511010945 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 640511010946 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 640511010947 active site 640511010948 catalytic tetrad [active] 640511010949 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511010950 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511010951 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 640511010952 putative substrate binding pocket [chemical binding]; other site 640511010953 putative dimerization interface [polypeptide binding]; other site 640511010954 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 640511010955 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 640511010956 Putative esterase; Region: Esterase; pfam00756 640511010957 S-formylglutathione hydrolase; Region: PLN02442 640511010958 aspartate carbamoyltransferase; Provisional; Region: PRK11891 640511010959 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 640511010960 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 640511010961 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 640511010962 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 640511010963 dimer interface [polypeptide binding]; other site 640511010964 active site 640511010965 catalytic residue [active] 640511010966 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 640511010967 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 640511010968 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640511010969 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640511010970 metal binding site [ion binding]; metal-binding site 640511010971 active site 640511010972 I-site; other site 640511010973 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 640511010974 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 640511010975 active site residue [active] 640511010976 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 640511010977 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 640511010978 conserved cys residue [active] 640511010979 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511010980 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4320 640511010981 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; pfam10009 640511010982 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 640511010983 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; cd00625 640511010984 transmembrane helices; other site 640511010985 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 640511010986 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 640511010987 NAD(P) binding site [chemical binding]; other site 640511010988 LDH/MDH dimer interface [polypeptide binding]; other site 640511010989 substrate binding site [chemical binding]; other site 640511010990 SnoaL-like domain; Region: SnoaL_2; pfam12680 640511010991 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 640511010992 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 640511010993 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511010994 Protein of unknown function (DUF1479); Region: DUF1479; pfam07350 640511010995 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 640511010996 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 640511010997 beta-galactosidase; Region: BGL; TIGR03356 640511010998 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 640511010999 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 640511011000 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511011001 dimer interface [polypeptide binding]; other site 640511011002 conserved gate region; other site 640511011003 putative PBP binding loops; other site 640511011004 ABC-ATPase subunit interface; other site 640511011005 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 640511011006 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511011007 dimer interface [polypeptide binding]; other site 640511011008 conserved gate region; other site 640511011009 putative PBP binding loops; other site 640511011010 ABC-ATPase subunit interface; other site 640511011011 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 640511011012 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 640511011013 Walker A/P-loop; other site 640511011014 ATP binding site [chemical binding]; other site 640511011015 Q-loop/lid; other site 640511011016 ABC transporter signature motif; other site 640511011017 Walker B; other site 640511011018 D-loop; other site 640511011019 H-loop/switch region; other site 640511011020 TOBE domain; Region: TOBE_2; pfam08402 640511011021 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640511011022 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640511011023 DNA binding site [nucleotide binding] 640511011024 domain linker motif; other site 640511011025 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 640511011026 dimerization interface (closed form) [polypeptide binding]; other site 640511011027 ligand binding site [chemical binding]; other site 640511011028 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 640511011029 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 640511011030 Sulfate transporter family; Region: Sulfate_transp; pfam00916 640511011031 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 640511011032 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 640511011033 active site 640511011034 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 640511011035 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 640511011036 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640511011037 dimer interface [polypeptide binding]; other site 640511011038 putative CheW interface [polypeptide binding]; other site 640511011039 Radical SAM superfamily; Region: Radical_SAM; pfam04055 640511011040 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 640511011041 FeS/SAM binding site; other site 640511011042 glutamine synthetase, type I; Region: GlnA; TIGR00653 640511011043 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 640511011044 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 640511011045 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 640511011046 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; cd00625 640511011047 transmembrane helices; other site 640511011048 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 640511011049 catalytic loop [active] 640511011050 iron binding site [ion binding]; other site 640511011051 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 640511011052 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 640511011053 L-aspartate oxidase; Provisional; Region: PRK06175 640511011054 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 640511011055 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 640511011056 SLBB domain; Region: SLBB; pfam10531 640511011057 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 640511011058 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 640511011059 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 640511011060 transmembrane helices; other site 640511011061 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 640511011062 TrkA-C domain; Region: TrkA_C; pfam02080 640511011063 TrkA-C domain; Region: TrkA_C; pfam02080 640511011064 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 640511011065 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 640511011066 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 640511011067 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 640511011068 L-lactate permease; Region: Lactate_perm; cl00701 640511011069 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 640511011070 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511011071 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511011072 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_2; cd08427 640511011073 putative dimerization interface [polypeptide binding]; other site 640511011074 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 640511011075 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640511011076 putative metal binding site [ion binding]; other site 640511011077 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 640511011078 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 640511011079 HlyD family secretion protein; Region: HlyD_3; pfam13437 640511011080 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640511011081 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 640511011082 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511011083 active site 640511011084 phosphorylation site [posttranslational modification] 640511011085 intermolecular recognition site; other site 640511011086 dimerization interface [polypeptide binding]; other site 640511011087 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 640511011088 DNA binding site [nucleotide binding] 640511011089 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 640511011090 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 640511011091 dimer interface [polypeptide binding]; other site 640511011092 phosphorylation site [posttranslational modification] 640511011093 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511011094 ATP binding site [chemical binding]; other site 640511011095 Mg2+ binding site [ion binding]; other site 640511011096 G-X-G motif; other site 640511011097 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 640511011098 active site 640511011099 DNA polymerase IV; Validated; Region: PRK02406 640511011100 DNA binding site [nucleotide binding] 640511011101 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 640511011102 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 640511011103 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 640511011104 Uncharacterized conserved protein [Function unknown]; Region: COG2353 640511011105 YceI-like domain; Region: YceI; smart00867 640511011106 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 640511011107 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 640511011108 transmembrane helices; other site 640511011109 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 640511011110 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 640511011111 pseudo EF-hand loop; other site 640511011112 peptide binding pocket; other site 640511011113 Ca2+ binding site [ion binding]; other site 640511011114 osmolarity response regulator; Provisional; Region: ompR; PRK09468 640511011115 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511011116 active site 640511011117 phosphorylation site [posttranslational modification] 640511011118 intermolecular recognition site; other site 640511011119 dimerization interface [polypeptide binding]; other site 640511011120 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 640511011121 DNA binding site [nucleotide binding] 640511011122 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 640511011123 dimerization interface [polypeptide binding]; other site 640511011124 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 640511011125 dimer interface [polypeptide binding]; other site 640511011126 phosphorylation site [posttranslational modification] 640511011127 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511011128 ATP binding site [chemical binding]; other site 640511011129 Mg2+ binding site [ion binding]; other site 640511011130 G-X-G motif; other site 640511011131 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 640511011132 PAS fold; Region: PAS_4; pfam08448 640511011133 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 640511011134 PAS fold; Region: PAS_3; pfam08447 640511011135 putative active site [active] 640511011136 heme pocket [chemical binding]; other site 640511011137 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640511011138 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 640511011139 dimer interface [polypeptide binding]; other site 640511011140 phosphorylation site [posttranslational modification] 640511011141 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511011142 ATP binding site [chemical binding]; other site 640511011143 G-X-G motif; other site 640511011144 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 640511011145 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511011146 active site 640511011147 phosphorylation site [posttranslational modification] 640511011148 intermolecular recognition site; other site 640511011149 dimerization interface [polypeptide binding]; other site 640511011150 Response regulator receiver domain; Region: Response_reg; pfam00072 640511011151 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511011152 active site 640511011153 phosphorylation site [posttranslational modification] 640511011154 intermolecular recognition site; other site 640511011155 dimerization interface [polypeptide binding]; other site 640511011156 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 640511011157 binding surface 640511011158 TPR motif; other site 640511011159 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 640511011160 binding surface 640511011161 TPR motif; other site 640511011162 Tetratricopeptide repeat; Region: TPR_16; pfam13432 640511011163 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 640511011164 TPR motif; other site 640511011165 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 640511011166 binding surface 640511011167 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 640511011168 TPR motif; other site 640511011169 binding surface 640511011170 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 640511011171 TPR motif; other site 640511011172 binding surface 640511011173 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 640511011174 endo-1,4-D-glucanase; Provisional; Region: PRK11097 640511011175 cellulose synthase regulator protein; Provisional; Region: PRK11114 640511011176 cellulose synthase catalytic subunit (UDP-forming); Region: CelA; TIGR03030 640511011177 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 640511011178 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 640511011179 DXD motif; other site 640511011180 PilZ domain; Region: PilZ; pfam07238 640511011181 cellulose synthase operon protein YhjQ; Region: cellulose_yhjQ; TIGR03371 640511011182 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 640511011183 Cellulose synthase subunit D; Region: Cellsynth_D; pfam03500 640511011184 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640511011185 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640511011186 metal binding site [ion binding]; metal-binding site 640511011187 active site 640511011188 I-site; other site 640511011189 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640511011190 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640511011191 metal binding site [ion binding]; metal-binding site 640511011192 active site 640511011193 I-site; other site 640511011194 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 640511011195 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 640511011196 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 640511011197 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 640511011198 putative substrate binding pocket [chemical binding]; other site 640511011199 trimer interface [polypeptide binding]; other site 640511011200 The Class III extradiol dioxygenase, homoprotocatechuate 2,3-dioxygenase, catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate; Region: HPCD; cd07370 640511011201 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 640511011202 putative active site [active] 640511011203 putative metal binding site [ion binding]; other site 640511011204 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase; Region: HpaE; TIGR02299 640511011205 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 640511011206 NAD binding site [chemical binding]; other site 640511011207 catalytic residues [active] 640511011208 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 640511011209 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 640511011210 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 640511011211 MarR family; Region: MarR_2; cl17246 640511011212 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640511011213 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 640511011214 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes Similar to D-Serine Dehydratase and D-Threonine Aldolase, Unknown Group 1; Region: PLPDE_III_DSD_D-TA_like_1; cd06812 640511011215 dimer interface [polypeptide binding]; other site 640511011216 active site 640511011217 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 640511011218 substrate binding site [chemical binding]; other site 640511011219 catalytic residue [active] 640511011220 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 640511011221 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 640511011222 motif II; other site 640511011223 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511011224 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 640511011225 putative effector binding pocket; other site 640511011226 putative dimerization interface [polypeptide binding]; other site 640511011227 Dehydroquinase class II; Region: DHquinase_II; pfam01220 640511011228 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 640511011229 trimer interface [polypeptide binding]; other site 640511011230 active site 640511011231 dimer interface [polypeptide binding]; other site 640511011232 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 640511011233 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 640511011234 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 640511011235 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511011236 metabolite-proton symporter; Region: 2A0106; TIGR00883 640511011237 putative substrate translocation pore; other site 640511011238 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511011239 transcriptional activator TtdR; Provisional; Region: PRK09801 640511011240 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 640511011241 putative effector binding pocket; other site 640511011242 putative dimerization interface [polypeptide binding]; other site 640511011243 H+ Antiporter protein; Region: 2A0121; TIGR00900 640511011244 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511011245 putative substrate translocation pore; other site 640511011246 Isochorismatase family; Region: Isochorismatase; pfam00857 640511011247 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 640511011248 catalytic triad [active] 640511011249 conserved cis-peptide bond; other site 640511011250 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640511011251 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 640511011252 putative DNA binding site [nucleotide binding]; other site 640511011253 putative Zn2+ binding site [ion binding]; other site 640511011254 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 640511011255 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 640511011256 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640511011257 Coenzyme A binding pocket [chemical binding]; other site 640511011258 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 640511011259 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 640511011260 FMN binding site [chemical binding]; other site 640511011261 active site 640511011262 substrate binding site [chemical binding]; other site 640511011263 catalytic residue [active] 640511011264 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 640511011265 putative DNA binding site [nucleotide binding]; other site 640511011266 dimerization interface [polypeptide binding]; other site 640511011267 putative Zn2+ binding site [ion binding]; other site 640511011268 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 640511011269 dimer interface [polypeptide binding]; other site 640511011270 phosphorylation site [posttranslational modification] 640511011271 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511011272 ATP binding site [chemical binding]; other site 640511011273 Mg2+ binding site [ion binding]; other site 640511011274 G-X-G motif; other site 640511011275 Response regulator receiver domain; Region: Response_reg; pfam00072 640511011276 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511011277 active site 640511011278 phosphorylation site [posttranslational modification] 640511011279 intermolecular recognition site; other site 640511011280 dimerization interface [polypeptide binding]; other site 640511011281 Hpt domain; Region: Hpt; pfam01627 640511011282 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640511011283 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 640511011284 putative DNA binding site [nucleotide binding]; other site 640511011285 putative Zn2+ binding site [ion binding]; other site 640511011286 Bacterial transcriptional regulator; Region: IclR; pfam01614 640511011287 Rieske non-heme iron oxygenase (RO) family, Phthalate 4,5-dioxygenase (PhDO)-like subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; composed of the oxygenase alpha subunits of PhDO and similar proteins including 3-chlorobenzoate 3; Region: Rieske_RO_Alpha_PhDO_like; cd03479 640511011288 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 640511011289 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 640511011290 alpha subunit interface [polypeptide binding]; other site 640511011291 active site 640511011292 substrate binding site [chemical binding]; other site 640511011293 Fe binding site [ion binding]; other site 640511011294 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640511011295 classical (c) SDRs; Region: SDR_c; cd05233 640511011296 NAD(P) binding site [chemical binding]; other site 640511011297 active site 640511011298 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 640511011299 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 640511011300 FMN-binding pocket [chemical binding]; other site 640511011301 flavin binding motif; other site 640511011302 phosphate binding motif [ion binding]; other site 640511011303 beta-alpha-beta structure motif; other site 640511011304 NAD binding pocket [chemical binding]; other site 640511011305 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 640511011306 catalytic loop [active] 640511011307 iron binding site [ion binding]; other site 640511011308 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511011309 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640511011310 putative substrate translocation pore; other site 640511011311 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640511011312 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 640511011313 trimer interface [polypeptide binding]; other site 640511011314 eyelet of channel; other site 640511011315 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640511011316 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511011317 ATP binding site [chemical binding]; other site 640511011318 Mg2+ binding site [ion binding]; other site 640511011319 G-X-G motif; other site 640511011320 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 640511011321 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511011322 active site 640511011323 phosphorylation site [posttranslational modification] 640511011324 intermolecular recognition site; other site 640511011325 dimerization interface [polypeptide binding]; other site 640511011326 Response regulator receiver domain; Region: Response_reg; pfam00072 640511011327 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511011328 active site 640511011329 phosphorylation site [posttranslational modification] 640511011330 intermolecular recognition site; other site 640511011331 dimerization interface [polypeptide binding]; other site 640511011332 Predicted dehydrogenase [General function prediction only]; Region: COG5322 640511011333 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cl00248 640511011334 substrate binding site [chemical binding]; other site 640511011335 dimerization interface [polypeptide binding]; other site 640511011336 active site 640511011337 calcium binding site [ion binding]; other site 640511011338 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 640511011339 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 640511011340 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 640511011341 active site 640511011342 LssY C-terminus; Region: LssY_C; pfam14067 640511011343 Organic hydroperoxide reductase [Secondary metabolites biosynthesis, transport and catabolism]; Region: osmC; COG1764 640511011344 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 640511011345 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 640511011346 putative DNA binding site [nucleotide binding]; other site 640511011347 putative Zn2+ binding site [ion binding]; other site 640511011348 AsnC family; Region: AsnC_trans_reg; pfam01037 640511011349 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 640511011350 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 640511011351 hypothetical protein; Provisional; Region: PRK02237 640511011352 Domain of unknown function (DUF1993); Region: DUF1993; pfam09351 640511011353 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cd11377 640511011354 peptidase domain interface [polypeptide binding]; other site 640511011355 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 640511011356 active site 640511011357 catalytic triad [active] 640511011358 calcium binding site [ion binding]; other site 640511011359 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 640511011360 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 640511011361 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 640511011362 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 640511011363 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 640511011364 homodimer interface [polypeptide binding]; other site 640511011365 NAD binding pocket [chemical binding]; other site 640511011366 ATP binding pocket [chemical binding]; other site 640511011367 Mg binding site [ion binding]; other site 640511011368 active-site loop [active] 640511011369 ABC1 family; Region: ABC1; cl17513 640511011370 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 640511011371 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 640511011372 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 640511011373 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 640511011374 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 640511011375 2-aminoethylphosphonate ABC transport system, ATP-binding component PhnT; Region: PhnT; TIGR03258 640511011376 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640511011377 Walker A/P-loop; other site 640511011378 ATP binding site [chemical binding]; other site 640511011379 Q-loop/lid; other site 640511011380 ABC transporter signature motif; other site 640511011381 Walker B; other site 640511011382 D-loop; other site 640511011383 H-loop/switch region; other site 640511011384 TOBE domain; Region: TOBE_2; pfam08402 640511011385 2-aminoethylphosphonate transport system permease PhnU; Provisional; Region: PRK15050 640511011386 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511011387 dimer interface [polypeptide binding]; other site 640511011388 conserved gate region; other site 640511011389 putative PBP binding loops; other site 640511011390 ABC-ATPase subunit interface; other site 640511011391 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511011392 dimer interface [polypeptide binding]; other site 640511011393 conserved gate region; other site 640511011394 ABC-ATPase subunit interface; other site 640511011395 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 640511011396 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511011397 DNA-binding site [nucleotide binding]; DNA binding site 640511011398 FCD domain; Region: FCD; pfam07729 640511011399 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 640511011400 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 640511011401 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 640511011402 putative phosphonoacetaldehyde dehydrogenase; Region: PhnAcAld_DH; TIGR03250 640511011403 Streptomyces putative phosphonoformaldehyde dehydrogenase PhpJ-like; Region: ALDH_PhpJ; cd07146 640511011404 NAD(P) binding site [chemical binding]; other site 640511011405 catalytic residues [active] 640511011406 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 640511011407 Zn2+ binding site [ion binding]; other site 640511011408 Mg2+ binding site [ion binding]; other site 640511011409 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511011410 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511011411 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 640511011412 putative effector binding pocket; other site 640511011413 dimerization interface [polypeptide binding]; other site 640511011414 Fusaric acid resistance protein family; Region: FUSC; pfam04632 640511011415 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 640511011416 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 640511011417 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 640511011418 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 640511011419 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 640511011420 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 640511011421 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 640511011422 putative active site [active] 640511011423 putative metal binding site [ion binding]; other site 640511011424 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 640511011425 putative FMN binding site [chemical binding]; other site 640511011426 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 640511011427 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 640511011428 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640511011429 putative ligand binding site [chemical binding]; other site 640511011430 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 640511011431 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 640511011432 Walker A/P-loop; other site 640511011433 ATP binding site [chemical binding]; other site 640511011434 Q-loop/lid; other site 640511011435 ABC transporter signature motif; other site 640511011436 Walker B; other site 640511011437 D-loop; other site 640511011438 H-loop/switch region; other site 640511011439 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 640511011440 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 640511011441 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640511011442 TM-ABC transporter signature motif; other site 640511011443 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 640511011444 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640511011445 TM-ABC transporter signature motif; other site 640511011446 polyphosphate:nucleotide phosphotransferase, PPK2 family; Region: PPK2_rel_1; TIGR03709 640511011447 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 640511011448 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 640511011449 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 640511011450 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 640511011451 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 640511011452 motif II; other site 640511011453 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 640511011454 Methyltransferase domain; Region: Methyltransf_23; pfam13489 640511011455 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 640511011456 S-adenosylmethionine binding site [chemical binding]; other site 640511011457 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 640511011458 malonate decarboxylase, epsilon subunit; Region: malonate_mdcH; TIGR03131 640511011459 phosphoribosyl-dephospho-CoA transferase; Provisional; Region: PRK01293 640511011460 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; pfam10620 640511011461 malonate decarboxylase, gamma subunit; Region: malonate_gamma; TIGR03134 640511011462 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189 640511011463 malonate decarboxylase subunit delta; Provisional; Region: PRK01220 640511011464 triphosphoribosyl-dephospho-CoA synthase; Validated; Region: PRK01237 640511011465 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 640511011466 Coenzyme A transferase; Region: CoA_trans; cl17247 640511011467 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 640511011468 Transcriptional regulators [Transcription]; Region: GntR; COG1802 640511011469 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511011470 DNA-binding site [nucleotide binding]; DNA binding site 640511011471 FCD domain; Region: FCD; pfam07729 640511011472 benzoate transport; Region: 2A0115; TIGR00895 640511011473 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511011474 putative substrate translocation pore; other site 640511011475 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 640511011476 EamA-like transporter family; Region: EamA; pfam00892 640511011477 EamA-like transporter family; Region: EamA; pfam00892 640511011478 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511011479 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 640511011480 dimerization interface [polypeptide binding]; other site 640511011481 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 640511011482 N-acetyltransferase; Region: Acetyltransf_2; pfam00797 640511011483 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 640511011484 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 640511011485 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511011486 DNA-binding site [nucleotide binding]; DNA binding site 640511011487 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 640511011488 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 640511011489 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511011490 DNA-binding site [nucleotide binding]; DNA binding site 640511011491 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 640511011492 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 640511011493 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 640511011494 Walker A/P-loop; other site 640511011495 ATP binding site [chemical binding]; other site 640511011496 Q-loop/lid; other site 640511011497 ABC transporter signature motif; other site 640511011498 Walker B; other site 640511011499 D-loop; other site 640511011500 H-loop/switch region; other site 640511011501 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511011502 dimer interface [polypeptide binding]; other site 640511011503 conserved gate region; other site 640511011504 putative PBP binding loops; other site 640511011505 ABC-ATPase subunit interface; other site 640511011506 amine acid ABC transporter, permease protein, 3-TM region, His/Glu/Gln/Arg/opine family; Region: HEQRo_perm_3TM; TIGR01726 640511011507 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511011508 putative PBP binding loops; other site 640511011509 dimer interface [polypeptide binding]; other site 640511011510 ABC-ATPase subunit interface; other site 640511011511 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 640511011512 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 640511011513 substrate binding pocket [chemical binding]; other site 640511011514 membrane-bound complex binding site; other site 640511011515 hinge residues; other site 640511011516 oxidase reductase; Provisional; Region: PTZ00273 640511011517 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 640511011518 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 640511011519 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 640511011520 FAD binding domain; Region: FAD_binding_4; pfam01565 640511011521 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 640511011522 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 640511011523 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 640511011524 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640511011525 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 640511011526 dimer interface [polypeptide binding]; other site 640511011527 phosphorylation site [posttranslational modification] 640511011528 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511011529 ATP binding site [chemical binding]; other site 640511011530 Mg2+ binding site [ion binding]; other site 640511011531 G-X-G motif; other site 640511011532 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 640511011533 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511011534 active site 640511011535 phosphorylation site [posttranslational modification] 640511011536 intermolecular recognition site; other site 640511011537 dimerization interface [polypeptide binding]; other site 640511011538 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640511011539 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511011540 active site 640511011541 phosphorylation site [posttranslational modification] 640511011542 intermolecular recognition site; other site 640511011543 dimerization interface [polypeptide binding]; other site 640511011544 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 640511011545 DNA binding residues [nucleotide binding] 640511011546 dimerization interface [polypeptide binding]; other site 640511011547 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 640511011548 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 640511011549 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 640511011550 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 640511011551 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 640511011552 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 640511011553 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511011554 NAD(P) binding site [chemical binding]; other site 640511011555 active site 640511011556 tartronate semialdehyde reductase; Provisional; Region: PRK15059 640511011557 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 640511011558 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 640511011559 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 640511011560 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 640511011561 dimer interface [polypeptide binding]; other site 640511011562 NADP binding site [chemical binding]; other site 640511011563 catalytic residues [active] 640511011564 Transcriptional regulators [Transcription]; Region: FadR; COG2186 640511011565 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511011566 DNA-binding site [nucleotide binding]; DNA binding site 640511011567 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 640511011568 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511011569 D-galactonate transporter; Region: 2A0114; TIGR00893 640511011570 putative substrate translocation pore; other site 640511011571 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511011572 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 640511011573 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 640511011574 putative active site [active] 640511011575 catalytic residue [active] 640511011576 galactarate dehydratase; Region: galactar-dH20; TIGR03248 640511011577 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 640511011578 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 640511011579 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 640511011580 extended (e) SDRs; Region: SDR_e; cd08946 640511011581 NAD(P) binding site [chemical binding]; other site 640511011582 active site 640511011583 substrate binding site [chemical binding]; other site 640511011584 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 640511011585 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 640511011586 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 640511011587 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 640511011588 DctM-like transporters; Region: DctM; pfam06808 640511011589 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 640511011590 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640511011591 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 640511011592 trimer interface [polypeptide binding]; other site 640511011593 eyelet of channel; other site 640511011594 4-oxalocrotonate tautomerase; Provisional; Region: PRK00745 640511011595 active site 1 [active] 640511011596 dimer interface [polypeptide binding]; other site 640511011597 hexamer interface [polypeptide binding]; other site 640511011598 active site 2 [active] 640511011599 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 640511011600 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 640511011601 Urea transporter; Region: UT; cl01829 640511011602 Putative glycolipid-binding; Region: Glycolipid_bind; pfam06475 640511011603 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 640511011604 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640511011605 Coenzyme A binding pocket [chemical binding]; other site 640511011606 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 640511011607 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 640511011608 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 640511011609 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 640511011610 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511011611 DNA-binding site [nucleotide binding]; DNA binding site 640511011612 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 640511011613 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511011614 homodimer interface [polypeptide binding]; other site 640511011615 catalytic residue [active] 640511011616 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 640511011617 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640511011618 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511011619 putative substrate translocation pore; other site 640511011620 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640511011621 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640511011622 hypothetical protein; Validated; Region: PRK08245 640511011623 Response regulator receiver domain; Region: Response_reg; pfam00072 640511011624 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511011625 active site 640511011626 phosphorylation site [posttranslational modification] 640511011627 intermolecular recognition site; other site 640511011628 dimerization interface [polypeptide binding]; other site 640511011629 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 640511011630 metal binding site 2 [ion binding]; metal-binding site 640511011631 putative DNA binding helix; other site 640511011632 metal binding site 1 [ion binding]; metal-binding site 640511011633 dimer interface [polypeptide binding]; other site 640511011634 structural Zn2+ binding site [ion binding]; other site 640511011635 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 640511011636 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 640511011637 putative C-terminal domain interface [polypeptide binding]; other site 640511011638 putative GSH binding site (G-site) [chemical binding]; other site 640511011639 putative dimer interface [polypeptide binding]; other site 640511011640 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 640511011641 putative N-terminal domain interface [polypeptide binding]; other site 640511011642 putative dimer interface [polypeptide binding]; other site 640511011643 putative substrate binding pocket (H-site) [chemical binding]; other site 640511011644 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 640511011645 Walker A motif; other site 640511011646 ATP binding site [chemical binding]; other site 640511011647 Family description; Region: UvrD_C_2; pfam13538 640511011648 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 640511011649 active site 640511011650 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 640511011651 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 640511011652 dimer interface [polypeptide binding]; other site 640511011653 phosphorylation site [posttranslational modification] 640511011654 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511011655 ATP binding site [chemical binding]; other site 640511011656 Mg2+ binding site [ion binding]; other site 640511011657 G-X-G motif; other site 640511011658 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511011659 active site 640511011660 phosphorylation site [posttranslational modification] 640511011661 intermolecular recognition site; other site 640511011662 dimerization interface [polypeptide binding]; other site 640511011663 BetR domain; Region: BetR; pfam08667 640511011664 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511011665 active site 640511011666 phosphorylation site [posttranslational modification] 640511011667 intermolecular recognition site; other site 640511011668 dimerization interface [polypeptide binding]; other site 640511011669 HipA N-terminal domain; Region: Couple_hipA; pfam13657 640511011670 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 640511011671 HipA-like N-terminal domain; Region: HipA_N; pfam07805 640511011672 HipA-like C-terminal domain; Region: HipA_C; pfam07804 640511011673 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 640511011674 sequence-specific DNA binding site [nucleotide binding]; other site 640511011675 salt bridge; other site 640511011676 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640511011677 hydroxyglutarate oxidase; Provisional; Region: PRK11728 640511011678 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 640511011679 ornithine cyclodeaminase; Validated; Region: PRK07340 640511011680 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 640511011681 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 640511011682 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 640511011683 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 640511011684 Inosine-uridine preferring nucleoside hydrolase; Region: IU_nuc_hydro; pfam01156 640511011685 active site 640511011686 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511011687 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511011688 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 640511011689 putative effector binding pocket; other site 640511011690 putative dimerization interface [polypeptide binding]; other site 640511011691 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 640511011692 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 640511011693 putative NAD(P) binding site [chemical binding]; other site 640511011694 putative substrate binding site [chemical binding]; other site 640511011695 catalytic Zn binding site [ion binding]; other site 640511011696 structural Zn binding site [ion binding]; other site 640511011697 dimer interface [polypeptide binding]; other site 640511011698 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 640511011699 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 640511011700 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511011701 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511011702 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 640511011703 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 640511011704 Moco binding site; other site 640511011705 metal coordination site [ion binding]; other site 640511011706 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 640511011707 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 640511011708 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511011709 active site 640511011710 phosphorylation site [posttranslational modification] 640511011711 intermolecular recognition site; other site 640511011712 dimerization interface [polypeptide binding]; other site 640511011713 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 640511011714 DNA binding site [nucleotide binding] 640511011715 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 640511011716 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 640511011717 dimerization interface [polypeptide binding]; other site 640511011718 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 640511011719 dimer interface [polypeptide binding]; other site 640511011720 phosphorylation site [posttranslational modification] 640511011721 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511011722 ATP binding site [chemical binding]; other site 640511011723 Mg2+ binding site [ion binding]; other site 640511011724 G-X-G motif; other site 640511011725 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 640511011726 PAS domain; Region: PAS_9; pfam13426 640511011727 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640511011728 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640511011729 metal binding site [ion binding]; metal-binding site 640511011730 active site 640511011731 I-site; other site 640511011732 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 640511011733 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511011734 DNA-binding site [nucleotide binding]; DNA binding site 640511011735 UTRA domain; Region: UTRA; pfam07702 640511011736 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 640511011737 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 640511011738 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 640511011739 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 640511011740 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 640511011741 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 640511011742 active site 640511011743 dimer interface [polypeptide binding]; other site 640511011744 effector binding site; other site 640511011745 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 640511011746 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 640511011747 Putative esterase; Region: Esterase; pfam00756 640511011748 OpgC protein; Region: OpgC_C; pfam10129 640511011749 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640511011750 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 640511011751 trimer interface [polypeptide binding]; other site 640511011752 eyelet of channel; other site 640511011753 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 640511011754 Peptidase family M23; Region: Peptidase_M23; pfam01551 640511011755 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 640511011756 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 640511011757 catalytic loop [active] 640511011758 iron binding site [ion binding]; other site 640511011759 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 640511011760 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640511011761 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 640511011762 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 640511011763 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640511011764 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640511011765 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640511011766 Cytochrome c; Region: Cytochrom_C; pfam00034 640511011767 short chain dehydrogenase; Validated; Region: PRK08264 640511011768 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511011769 NAD(P) binding site [chemical binding]; other site 640511011770 active site 640511011771 OsmC-like protein; Region: OsmC; cl00767 640511011772 OsmC-like protein; Region: OsmC; cl00767 640511011773 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640511011774 MarR family; Region: MarR; pfam01047 640511011775 Predicted transcriptional regulators [Transcription]; Region: COG1733 640511011776 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 640511011777 dimerization interface [polypeptide binding]; other site 640511011778 putative DNA binding site [nucleotide binding]; other site 640511011779 putative Zn2+ binding site [ion binding]; other site 640511011780 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640511011781 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511011782 dimer interface [polypeptide binding]; other site 640511011783 conserved gate region; other site 640511011784 putative PBP binding loops; other site 640511011785 ABC-ATPase subunit interface; other site 640511011786 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640511011787 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511011788 dimer interface [polypeptide binding]; other site 640511011789 conserved gate region; other site 640511011790 putative PBP binding loops; other site 640511011791 ABC-ATPase subunit interface; other site 640511011792 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 640511011793 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 640511011794 substrate binding pocket [chemical binding]; other site 640511011795 membrane-bound complex binding site; other site 640511011796 hinge residues; other site 640511011797 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 640511011798 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640511011799 Walker A/P-loop; other site 640511011800 ATP binding site [chemical binding]; other site 640511011801 Q-loop/lid; other site 640511011802 ABC transporter signature motif; other site 640511011803 Walker B; other site 640511011804 D-loop; other site 640511011805 H-loop/switch region; other site 640511011806 TOBE domain; Region: TOBE_2; pfam08402 640511011807 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 640511011808 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511011809 dimer interface [polypeptide binding]; other site 640511011810 conserved gate region; other site 640511011811 putative PBP binding loops; other site 640511011812 ABC-ATPase subunit interface; other site 640511011813 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511011814 putative PBP binding loops; other site 640511011815 ABC-ATPase subunit interface; other site 640511011816 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 640511011817 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 640511011818 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640511011819 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511011820 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 640511011821 substrate binding pocket [chemical binding]; other site 640511011822 dimerization interface [polypeptide binding]; other site 640511011823 calcium/proton exchanger; Region: caca2; TIGR00846 640511011824 BON domain; Region: BON; pfam04972 640511011825 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 640511011826 active site 640511011827 DNA binding site [nucleotide binding] 640511011828 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640511011829 FOG: CBS domain [General function prediction only]; Region: COG0517 640511011830 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 640511011831 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 640511011832 dimerization interface [polypeptide binding]; other site 640511011833 active site 640511011834 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 640511011835 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511011836 NAD(P) binding site [chemical binding]; other site 640511011837 active site 640511011838 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511011839 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640511011840 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 640511011841 Putative zinc-finger; Region: zf-HC2; pfam13490 640511011842 RNA polymerase sigma factor; Provisional; Region: PRK12547 640511011843 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640511011844 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 640511011845 DNA binding residues [nucleotide binding] 640511011846 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 640511011847 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640511011848 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 640511011849 putative heme binding pocket [chemical binding]; other site 640511011850 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 640511011851 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 640511011852 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 640511011853 ATP binding site [chemical binding]; other site 640511011854 putative Mg++ binding site [ion binding]; other site 640511011855 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 640511011856 nucleotide binding region [chemical binding]; other site 640511011857 ATP-binding site [chemical binding]; other site 640511011858 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 640511011859 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511011860 active site 640511011861 phosphorylation site [posttranslational modification] 640511011862 intermolecular recognition site; other site 640511011863 dimerization interface [polypeptide binding]; other site 640511011864 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 640511011865 DNA binding site [nucleotide binding] 640511011866 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 640511011867 FecR protein; Region: FecR; pfam04773 640511011868 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 640511011869 CHASE2 domain; Region: CHASE2; pfam05226 640511011870 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 640511011871 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 640511011872 dimer interface [polypeptide binding]; other site 640511011873 phosphorylation site [posttranslational modification] 640511011874 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511011875 ATP binding site [chemical binding]; other site 640511011876 Mg2+ binding site [ion binding]; other site 640511011877 G-X-G motif; other site 640511011878 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 640511011879 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 640511011880 putative FMN binding site [chemical binding]; other site 640511011881 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 640511011882 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 640511011883 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 640511011884 catalytic triad [active] 640511011885 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 640511011886 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 640511011887 homodimer interface [polypeptide binding]; other site 640511011888 Walker A motif; other site 640511011889 ATP binding site [chemical binding]; other site 640511011890 hydroxycobalamin binding site [chemical binding]; other site 640511011891 Walker B motif; other site 640511011892 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 640511011893 active site 640511011894 SAM binding site [chemical binding]; other site 640511011895 homodimer interface [polypeptide binding]; other site 640511011896 cobalamin biosynthesis protein CbiG; Provisional; Region: PRK07027 640511011897 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 640511011898 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 640511011899 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 640511011900 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 640511011901 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 640511011902 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 640511011903 Mg-protoporyphyrin IX chelatase; Region: chlI; CHL00081 640511011904 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 640511011905 Walker A motif; other site 640511011906 ATP binding site [chemical binding]; other site 640511011907 Walker B motif; other site 640511011908 arginine finger; other site 640511011909 Mg-chelatase subunit ChlD [Coenzyme metabolism]; Region: ChlD; COG1240 640511011910 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 640511011911 Flagellar protein YcgR; Region: YcgR_2; pfam12945 640511011912 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 640511011913 Hydroxyneurosporene synthase (CrtC); Region: CrtC; pfam07143 640511011914 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 640511011915 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 640511011916 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 640511011917 FtsX-like permease family; Region: FtsX; pfam02687 640511011918 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 640511011919 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 640511011920 Walker A/P-loop; other site 640511011921 ATP binding site [chemical binding]; other site 640511011922 Q-loop/lid; other site 640511011923 ABC transporter signature motif; other site 640511011924 Walker B; other site 640511011925 D-loop; other site 640511011926 H-loop/switch region; other site 640511011927 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 640511011928 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 640511011929 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 640511011930 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 640511011931 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 640511011932 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 640511011933 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 640511011934 D-pathway; other site 640511011935 Putative ubiquinol binding site [chemical binding]; other site 640511011936 Low-spin heme (heme b) binding site [chemical binding]; other site 640511011937 Putative water exit pathway; other site 640511011938 Binuclear center (heme o3/CuB) [ion binding]; other site 640511011939 K-pathway; other site 640511011940 Putative proton exit pathway; other site 640511011941 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 640511011942 Subunit I/III interface [polypeptide binding]; other site 640511011943 Subunit III/IV interface [polypeptide binding]; other site 640511011944 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 640511011945 Transposase; Region: HTH_Tnp_1; cl17663 640511011946 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 640511011947 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 640511011948 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 640511011949 Substrate binding site; other site 640511011950 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 640511011951 Uncharacterized conserved protein [Function unknown]; Region: COG2128 640511011952 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 640511011953 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 640511011954 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 640511011955 motif II; other site 640511011956 RNA polymerase sigma factor; Reviewed; Region: PRK05602 640511011957 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640511011958 Heavy-metal resistance; Region: Metal_resist; pfam13801 640511011959 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 640511011960 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4102 640511011961 Flavin Reductases; Region: FlaRed; cl00801 640511011962 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 640511011963 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 640511011964 active site 640511011965 non-prolyl cis peptide bond; other site 640511011966 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 640511011967 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 640511011968 non-specific DNA binding site [nucleotide binding]; other site 640511011969 salt bridge; other site 640511011970 sequence-specific DNA binding site [nucleotide binding]; other site 640511011971 BON domain; Region: BON; pfam04972 640511011972 Ferritin-CCC1, N-terminal ferritin-like diiron-binding domain; Region: Ferritin_CCC1_N; cd01044 640511011973 diiron binding motif [ion binding]; other site 640511011974 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_2; cd02433 640511011975 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 640511011976 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 640511011977 Walker A/P-loop; other site 640511011978 ATP binding site [chemical binding]; other site 640511011979 Q-loop/lid; other site 640511011980 ABC transporter signature motif; other site 640511011981 Walker B; other site 640511011982 D-loop; other site 640511011983 H-loop/switch region; other site 640511011984 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 640511011985 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511011986 dimer interface [polypeptide binding]; other site 640511011987 conserved gate region; other site 640511011988 putative PBP binding loops; other site 640511011989 ABC-ATPase subunit interface; other site 640511011990 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640511011991 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 640511011992 conserved cys residue [active] 640511011993 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511011994 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640511011995 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 640511011996 conserved cys residue [active] 640511011997 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 640511011998 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511011999 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 640511012000 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 640511012001 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 640511012002 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 640511012003 hydroxyglutarate oxidase; Provisional; Region: PRK11728 640511012004 Sarcosine oxidase, delta subunit family; Region: SoxD; pfam04267 640511012005 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 640511012006 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 640511012007 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 640511012008 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 640511012009 Sarcosine oxidase gamma subunit [Amino acid transport and metabolism]; Region: COG4583 640511012010 beta-lactamase/D-alanine carboxypeptidase; Provisional; Region: ampC; PRK11289 640511012011 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 640511012012 formaldehyde dehydrogenase, glutathione-independent; Region: fdhA_non_GSH; TIGR02819 640511012013 Pseudomonas putida aldehyde-dismutating formaldehyde dehydrogenase (PFDH); Region: PFDH_like; cd08282 640511012014 NAD binding site [chemical binding]; other site 640511012015 catalytic Zn binding site [ion binding]; other site 640511012016 structural Zn binding site [ion binding]; other site 640511012017 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640511012018 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 640511012019 conserved cys residue [active] 640511012020 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511012021 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 640511012022 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 640511012023 dimer interface [polypeptide binding]; other site 640511012024 active site 640511012025 glycine-pyridoxal phosphate binding site [chemical binding]; other site 640511012026 folate binding site [chemical binding]; other site 640511012027 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 640511012028 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 640511012029 active site 640511012030 dimer interface [polypeptide binding]; other site 640511012031 The V4R (vinyl 4 reductase) domain is a predicted small molecular binding domain, that may bind to hydrocarbons; Region: V4R; smart00989 640511012032 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 640511012033 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 640511012034 putative active site [active] 640511012035 putative FMN binding site [chemical binding]; other site 640511012036 putative substrate binding site [chemical binding]; other site 640511012037 putative catalytic residue [active] 640511012038 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 640511012039 Domain of unknown function (DUF3483); Region: DUF3483; pfam11982 640511012040 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 640511012041 Cysteine-rich domain; Region: CCG; pfam02754 640511012042 Cysteine-rich domain; Region: CCG; pfam02754 640511012043 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 640511012044 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 640511012045 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 640511012046 Electron transfer flavoprotein domain; Region: ETF; pfam01012 640511012047 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 640511012048 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 640511012049 [2Fe-2S] cluster binding site [ion binding]; other site 640511012050 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 640511012051 putative alpha subunit interface [polypeptide binding]; other site 640511012052 putative active site [active] 640511012053 putative substrate binding site [chemical binding]; other site 640511012054 Fe binding site [ion binding]; other site 640511012055 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 640511012056 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 640511012057 FAD binding pocket [chemical binding]; other site 640511012058 FAD binding motif [chemical binding]; other site 640511012059 phosphate binding motif [ion binding]; other site 640511012060 beta-alpha-beta structure motif; other site 640511012061 NAD binding pocket [chemical binding]; other site 640511012062 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 640511012063 catalytic loop [active] 640511012064 iron binding site [ion binding]; other site 640511012065 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 640511012066 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 640511012067 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 640511012068 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 640511012069 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 640511012070 putative active site [active] 640511012071 putative substrate binding site [chemical binding]; other site 640511012072 putative cosubstrate binding site; other site 640511012073 catalytic site [active] 640511012074 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511012075 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511012076 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 640511012077 putative effector binding pocket; other site 640511012078 dimerization interface [polypeptide binding]; other site 640511012079 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 640511012080 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 640511012081 putative C-terminal domain interface [polypeptide binding]; other site 640511012082 putative GSH binding site (G-site) [chemical binding]; other site 640511012083 putative dimer interface [polypeptide binding]; other site 640511012084 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 640511012085 putative N-terminal domain interface [polypeptide binding]; other site 640511012086 putative dimer interface [polypeptide binding]; other site 640511012087 putative substrate binding pocket (H-site) [chemical binding]; other site 640511012088 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 640511012089 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 640511012090 Homeodomain-like domain; Region: HTH_23; pfam13384 640511012091 Winged helix-turn helix; Region: HTH_29; pfam13551 640511012092 Winged helix-turn helix; Region: HTH_33; pfam13592 640511012093 amino acid transporter; Region: 2A0306; TIGR00909 640511012094 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 640511012095 HlyD family secretion protein; Region: HlyD_3; pfam13437 640511012096 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 640511012097 Protein export membrane protein; Region: SecD_SecF; cl14618 640511012098 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640511012099 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 640511012100 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 640511012101 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 640511012102 protein binding site [polypeptide binding]; other site 640511012103 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 640511012104 protein binding site [polypeptide binding]; other site 640511012105 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 640511012106 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511012107 D-galactonate transporter; Region: 2A0114; TIGR00893 640511012108 putative substrate translocation pore; other site 640511012109 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511012110 2-deoxy-D-gluconate 3-dehydrogenase; Region: kduD; TIGR01832 640511012111 NAD(P) binding site [chemical binding]; other site 640511012112 active site 640511012113 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640511012114 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 640511012115 Bacterial transcriptional regulator; Region: IclR; pfam01614 640511012116 rod shape-determining protein MreB; Provisional; Region: PRK13927 640511012117 MreB and similar proteins; Region: MreB_like; cd10225 640511012118 nucleotide binding site [chemical binding]; other site 640511012119 Mg binding site [ion binding]; other site 640511012120 putative protofilament interaction site [polypeptide binding]; other site 640511012121 RodZ interaction site [polypeptide binding]; other site 640511012122 hypothetical protein; Provisional; Region: PRK11239 640511012123 Protein of unknown function, DUF480; Region: DUF480; pfam04337 640511012124 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 640511012125 CoenzymeA binding site [chemical binding]; other site 640511012126 subunit interaction site [polypeptide binding]; other site 640511012127 PHB binding site; other site 640511012128 Acetokinase family; Region: Acetate_kinase; cl17229 640511012129 putative phosphoketolase; Provisional; Region: PRK05261 640511012130 Thiamine pyrophosphate (TPP) family, Phosphoketolase (PK) subfamily, TPP-binding module; PK catalyzes the conversion of D-xylulose 5-phosphate and phosphate to acetyl phosphate, D-glyceraldehyde-3-phosphate and H2O. This enzyme requires divalent...; Region: TPP_PK; cd02011 640511012131 TPP-binding site; other site 640511012132 XFP C-terminal domain; Region: XFP_C; pfam09363 640511012133 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 640511012134 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 640511012135 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 640511012136 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 640511012137 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 640511012138 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 640511012139 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511012140 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640511012141 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 640511012142 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 640511012143 catalytic residues [active] 640511012144 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 640511012145 Fructose-1,6-bisphosphate aldolase; Region: FBP_aldolase_I_a; cd00948 640511012146 active site 640511012147 intersubunit interface [polypeptide binding]; other site 640511012148 catalytic residue [active] 640511012149 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640511012150 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511012151 ATP binding site [chemical binding]; other site 640511012152 Mg2+ binding site [ion binding]; other site 640511012153 G-X-G motif; other site 640511012154 Response regulator receiver domain; Region: Response_reg; pfam00072 640511012155 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511012156 active site 640511012157 phosphorylation site [posttranslational modification] 640511012158 intermolecular recognition site; other site 640511012159 dimerization interface [polypeptide binding]; other site 640511012160 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 640511012161 iron-sulfur cluster [ion binding]; other site 640511012162 [2Fe-2S] cluster binding site [ion binding]; other site 640511012163 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 640511012164 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640511012165 Domain of unknown function DUF20; Region: UPF0118; pfam01594 640511012166 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 640511012167 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 640511012168 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 640511012169 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 640511012170 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 640511012171 active site 640511012172 catalytic site [active] 640511012173 PRC-barrel domain; Region: PRC; pfam05239 640511012174 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 640511012175 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 640511012176 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640511012177 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 640511012178 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 640511012179 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 640511012180 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 640511012181 catalytic loop [active] 640511012182 iron binding site [ion binding]; other site 640511012183 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 640511012184 short chain dehydrogenase; Provisional; Region: PRK06701 640511012185 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 640511012186 NAD binding site [chemical binding]; other site 640511012187 metal binding site [ion binding]; metal-binding site 640511012188 active site 640511012189 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 640511012190 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511012191 active site 640511012192 phosphorylation site [posttranslational modification] 640511012193 intermolecular recognition site; other site 640511012194 dimerization interface [polypeptide binding]; other site 640511012195 ATP-dependent DNA ligase; Validated; Region: PRK09247 640511012196 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 640511012197 active site 640511012198 DNA binding site [nucleotide binding] 640511012199 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of archaeal and bacterial ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_Arch_LigB; cd07972 640511012200 DNA binding site [nucleotide binding] 640511012201 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 640511012202 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 640511012203 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 640511012204 thiamine pyrophosphate protein; Provisional; Region: PRK08273 640511012205 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 640511012206 PYR/PP interface [polypeptide binding]; other site 640511012207 dimer interface [polypeptide binding]; other site 640511012208 tetramer interface [polypeptide binding]; other site 640511012209 TPP binding site [chemical binding]; other site 640511012210 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 640511012211 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 640511012212 TPP-binding site [chemical binding]; other site 640511012213 Predicted ATPase [General function prediction only]; Region: COG1485 640511012214 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640511012215 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 640511012216 active site 640511012217 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 640511012218 substrate binding site [chemical binding]; other site 640511012219 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 640511012220 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 640511012221 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511012222 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511012223 short chain dehydrogenase; Provisional; Region: PRK06180 640511012224 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 640511012225 NADP binding site [chemical binding]; other site 640511012226 active site 640511012227 steroid binding site; other site 640511012228 Cupin domain; Region: Cupin_2; pfam07883 640511012229 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 640511012230 Glutaredoxin-like domain protein; Region: GlrX_arch; TIGR02187 640511012231 catalytic residue [active] 640511012232 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 640511012233 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 640511012234 Ligand Binding Site [chemical binding]; other site 640511012235 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 640511012236 Ligand Binding Site [chemical binding]; other site 640511012237 Ferritin-like domain; Region: Ferritin; pfam00210 640511012238 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 640511012239 dinuclear metal binding motif [ion binding]; other site 640511012240 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 640511012241 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 640511012242 TPP-binding site [chemical binding]; other site 640511012243 dimer interface [polypeptide binding]; other site 640511012244 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 640511012245 PYR/PP interface [polypeptide binding]; other site 640511012246 dimer interface [polypeptide binding]; other site 640511012247 TPP binding site [chemical binding]; other site 640511012248 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 640511012249 Uncharacterized protein containing double-stranded beta helix domain [Function unknown]; Region: COG4297 640511012250 chaperone protein DnaJ; Provisional; Region: PRK14282 640511012251 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 640511012252 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 640511012253 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 640511012254 Na binding site [ion binding]; other site 640511012255 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 640511012256 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 640511012257 C-terminal domain interface [polypeptide binding]; other site 640511012258 GSH binding site (G-site) [chemical binding]; other site 640511012259 dimer interface [polypeptide binding]; other site 640511012260 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 640511012261 dimer interface [polypeptide binding]; other site 640511012262 N-terminal domain interface [polypeptide binding]; other site 640511012263 substrate binding pocket (H-site) [chemical binding]; other site 640511012264 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640511012265 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640511012266 metal binding site [ion binding]; metal-binding site 640511012267 active site 640511012268 I-site; other site 640511012269 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 640511012270 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 640511012271 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 640511012272 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 640511012273 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 640511012274 active site 640511012275 metal binding site [ion binding]; metal-binding site 640511012276 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 640511012277 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 640511012278 active site 640511012279 catalytic tetrad [active] 640511012280 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 640511012281 ?-D-glucose-1-phosphatase; Provisional; Region: PRK09456 640511012282 Epoxide hydrolase N terminus; Region: EHN; pfam06441 640511012283 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 640511012284 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 640511012285 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 640511012286 active site clefts [active] 640511012287 zinc binding site [ion binding]; other site 640511012288 dimer interface [polypeptide binding]; other site 640511012289 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 640511012290 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 640511012291 active site 640511012292 SAM binding site [chemical binding]; other site 640511012293 homodimer interface [polypeptide binding]; other site 640511012294 cobalt-precorrin-6x reductase; Reviewed; Region: PRK08057 640511012295 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 640511012296 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 640511012297 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 640511012298 active site 640511012299 putative homodimer interface [polypeptide binding]; other site 640511012300 SAM binding site [chemical binding]; other site 640511012301 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 640511012302 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 640511012303 S-adenosylmethionine binding site [chemical binding]; other site 640511012304 precorrin-3B synthase; Region: CobG; TIGR02435 640511012305 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 640511012306 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 640511012307 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 640511012308 Precorrin-8X methylmutase; Region: CbiC; pfam02570 640511012309 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 640511012310 active site 640511012311 SAM binding site [chemical binding]; other site 640511012312 homodimer interface [polypeptide binding]; other site 640511012313 Cobalamin biosynthesis protein CbiG [Coenzyme metabolism]; Region: CbiG; COG2073 640511012314 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 640511012315 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 640511012316 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 640511012317 active site 640511012318 SAM binding site [chemical binding]; other site 640511012319 homodimer interface [polypeptide binding]; other site 640511012320 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640511012321 AAA domain; Region: AAA_23; pfam13476 640511012322 Walker A/P-loop; other site 640511012323 ATP binding site [chemical binding]; other site 640511012324 Q-loop/lid; other site 640511012325 ABC transporter signature motif; other site 640511012326 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 640511012327 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 640511012328 active site 640511012329 metal binding site [ion binding]; metal-binding site 640511012330 DNA binding site [nucleotide binding] 640511012331 Predicted membrane protein [Function unknown]; Region: COG2733 640511012332 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 640511012333 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 640511012334 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 640511012335 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 640511012336 Autotransporter beta-domain; Region: Autotransporter; smart00869 640511012337 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 640511012338 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 640511012339 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 640511012340 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 640511012341 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 640511012342 aldolase II superfamily protein; Provisional; Region: PRK07044 640511012343 intersubunit interface [polypeptide binding]; other site 640511012344 active site 640511012345 Zn2+ binding site [ion binding]; other site 640511012346 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 640511012347 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 640511012348 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511012349 homodimer interface [polypeptide binding]; other site 640511012350 catalytic residue [active] 640511012351 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511012352 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511012353 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 640511012354 putative dimerization interface [polypeptide binding]; other site 640511012355 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 640511012356 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640511012357 DNA binding residues [nucleotide binding] 640511012358 dimerization interface [polypeptide binding]; other site 640511012359 Response regulator receiver domain; Region: Response_reg; pfam00072 640511012360 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511012361 active site 640511012362 phosphorylation site [posttranslational modification] 640511012363 intermolecular recognition site; other site 640511012364 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640511012365 dimerization interface [polypeptide binding]; other site 640511012366 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 640511012367 dimer interface [polypeptide binding]; other site 640511012368 phosphorylation site [posttranslational modification] 640511012369 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511012370 ATP binding site [chemical binding]; other site 640511012371 Mg2+ binding site [ion binding]; other site 640511012372 G-X-G motif; other site 640511012373 CheB methylesterase; Region: CheB_methylest; pfam01339 640511012374 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 640511012375 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 640511012376 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 640511012377 CHASE3 domain; Region: CHASE3; pfam05227 640511012378 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 640511012379 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 640511012380 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 640511012381 dimer interface [polypeptide binding]; other site 640511012382 phosphorylation site [posttranslational modification] 640511012383 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511012384 ATP binding site [chemical binding]; other site 640511012385 Mg2+ binding site [ion binding]; other site 640511012386 G-X-G motif; other site 640511012387 Response regulator receiver domain; Region: Response_reg; pfam00072 640511012388 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511012389 active site 640511012390 phosphorylation site [posttranslational modification] 640511012391 intermolecular recognition site; other site 640511012392 dimerization interface [polypeptide binding]; other site 640511012393 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 640511012394 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511012395 active site 640511012396 phosphorylation site [posttranslational modification] 640511012397 intermolecular recognition site; other site 640511012398 dimerization interface [polypeptide binding]; other site 640511012399 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 640511012400 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511012401 active site 640511012402 phosphorylation site [posttranslational modification] 640511012403 intermolecular recognition site; other site 640511012404 dimerization interface [polypeptide binding]; other site 640511012405 hydroperoxidase II; Provisional; Region: katE; PRK11249 640511012406 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 640511012407 tetramer interface [polypeptide binding]; other site 640511012408 heme binding pocket [chemical binding]; other site 640511012409 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 640511012410 domain interactions; other site 640511012411 MltA-interacting protein MipA; Region: MipA; cl01504 640511012412 methionine sulfoxide reductase A; Provisional; Region: PRK13014 640511012413 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 640511012414 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 640511012415 putative DNA binding site [nucleotide binding]; other site 640511012416 putative Zn2+ binding site [ion binding]; other site 640511012417 AsnC family; Region: AsnC_trans_reg; pfam01037 640511012418 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 640511012419 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 640511012420 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511012421 catalytic residue [active] 640511012422 LysR family transcriptional regulator; Provisional; Region: PRK14997 640511012423 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511012424 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 640511012425 putative effector binding pocket; other site 640511012426 dimerization interface [polypeptide binding]; other site 640511012427 Pirin-related protein [General function prediction only]; Region: COG1741 640511012428 Pirin; Region: Pirin; pfam02678 640511012429 Predicted membrane protein [Function unknown]; Region: COG2259 640511012430 putative transposase OrfB; Reviewed; Region: PHA02517 640511012431 HTH-like domain; Region: HTH_21; pfam13276 640511012432 Integrase core domain; Region: rve; pfam00665 640511012433 Integrase core domain; Region: rve_2; pfam13333 640511012434 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 640511012435 Helix-turn-helix domain; Region: HTH_28; pfam13518 640511012436 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 640511012437 Helix-turn-helix domain; Region: HTH_28; pfam13518 640511012438 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 640511012439 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 640511012440 catalytic residue [active] 640511012441 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 640511012442 catalytic residues [active] 640511012443 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 640511012444 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640511012445 peroxiredoxin; Region: AhpC; TIGR03137 640511012446 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 640511012447 dimer interface [polypeptide binding]; other site 640511012448 decamer (pentamer of dimers) interface [polypeptide binding]; other site 640511012449 catalytic triad [active] 640511012450 peroxidatic and resolving cysteines [active] 640511012451 Propionate catabolism activator; Region: PrpR_N; pfam06506 640511012452 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 640511012453 PAS domain; Region: PAS; smart00091 640511012454 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 640511012455 Walker A motif; other site 640511012456 ATP binding site [chemical binding]; other site 640511012457 Walker B motif; other site 640511012458 arginine finger; other site 640511012459 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 640511012460 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 640511012461 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 640511012462 tetramer interface [polypeptide binding]; other site 640511012463 active site 640511012464 Mg2+/Mn2+ binding site [ion binding]; other site 640511012465 putative transporter; Provisional; Region: PRK10504 640511012466 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511012467 putative substrate translocation pore; other site 640511012468 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640511012469 Coenzyme A binding pocket [chemical binding]; other site 640511012470 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 640511012471 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 640511012472 SnoaL-like domain; Region: SnoaL_2; pfam12680 640511012473 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511012474 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640511012475 putative substrate translocation pore; other site 640511012476 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 640511012477 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511012478 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 640511012479 dimerization interface [polypeptide binding]; other site 640511012480 substrate binding pocket [chemical binding]; other site 640511012481 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 640511012482 NifQ; Region: NifQ; pfam04891 640511012483 putative nicotinate phosphoribosyltransferase; Provisional; Region: PRK09198 640511012484 pre-B-cell colony-enhancing factor (PBEF)-like. The mammalian members of this group of nicotinate phosphoribosyltransferases (NAPRTases) were originally identified as genes whose expression is upregulated upon activation in lymphoid cells. In general; Region: PBEF_like; cd01569 640511012485 active site 640511012486 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 640511012487 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 640511012488 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 640511012489 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 640511012490 Walker A motif; other site 640511012491 ATP binding site [chemical binding]; other site 640511012492 Walker B motif; other site 640511012493 arginine finger; other site 640511012494 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 640511012495 Mechanosensitive ion channel; Region: MS_channel; pfam00924 640511012496 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 640511012497 DEAD/DEAH box helicase; Region: DEAD; pfam00270 640511012498 DEAD_2; Region: DEAD_2; pfam06733 640511012499 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 640511012500 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 640511012501 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 640511012502 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 640511012503 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 640511012504 4Fe-4S binding domain; Region: Fer4; pfam00037 640511012505 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 640511012506 Cysteine-rich domain; Region: CCG; pfam02754 640511012507 Cysteine-rich domain; Region: CCG; pfam02754 640511012508 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640511012509 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640511012510 DNA binding site [nucleotide binding] 640511012511 domain linker motif; other site 640511012512 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 640511012513 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 640511012514 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 640511012515 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 640511012516 Transcriptional regulators [Transcription]; Region: FadR; COG2186 640511012517 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511012518 DNA-binding site [nucleotide binding]; DNA binding site 640511012519 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 640511012520 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 640511012521 Stf0 sulphotransferase; Region: Sulphotransf; cl01835 640511012522 aspartate aminotransferase; Provisional; Region: PRK05764 640511012523 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 640511012524 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511012525 homodimer interface [polypeptide binding]; other site 640511012526 catalytic residue [active] 640511012527 RNA polymerase factor sigma-54; Provisional; Region: PRK12469 640511012528 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 640511012529 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 640511012530 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 640511012531 BON domain; Region: BON; pfam04972 640511012532 Domain of unknown function (DUF2383); Region: DUF2383; cl17556 640511012533 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 640511012534 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 640511012535 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 640511012536 intracellular protease, PfpI family; Region: PfpI; TIGR01382 640511012537 proposed catalytic triad [active] 640511012538 conserved cys residue [active] 640511012539 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 640511012540 DNA topoisomerase IB, C-terminal catalytic domain. Topoisomerase I promotes the relaxation of both positive and negative DNA superhelical tension by introducing a transient single-stranded break in duplex DNA. This function is vital for the processes of...; Region: Topo_IB_C; cd00659 640511012541 active site 640511012542 DNA binding site [nucleotide binding] 640511012543 Int/Topo IB signature motif; other site 640511012544 catalytic residues [active] 640511012545 PRC-barrel domain; Region: PRC; pfam05239 640511012546 Protein of unknown function (DUF3175); Region: DUF3175; pfam11373 640511012547 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 640511012548 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 640511012549 dimerization interface [polypeptide binding]; other site 640511012550 ligand binding site [chemical binding]; other site 640511012551 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 640511012552 hydroxyglutarate oxidase; Provisional; Region: PRK11728 640511012553 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 640511012554 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511012555 DNA-binding site [nucleotide binding]; DNA binding site 640511012556 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 640511012557 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511012558 homodimer interface [polypeptide binding]; other site 640511012559 catalytic residue [active] 640511012560 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 640511012561 Cupin; Region: Cupin_6; pfam12852 640511012562 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640511012563 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511012564 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 640511012565 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 640511012566 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 640511012567 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 640511012568 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 640511012569 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 640511012570 active site 640511012571 catalytic tetrad [active] 640511012572 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 640511012573 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 640511012574 ATP binding site [chemical binding]; other site 640511012575 putative Mg++ binding site [ion binding]; other site 640511012576 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 640511012577 nucleotide binding region [chemical binding]; other site 640511012578 ATP-binding site [chemical binding]; other site 640511012579 DEAD/H associated; Region: DEAD_assoc; pfam08494 640511012580 RNase II stability modulator; Provisional; Region: PRK10060 640511012581 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 640511012582 putative active site [active] 640511012583 heme pocket [chemical binding]; other site 640511012584 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640511012585 metal binding site [ion binding]; metal-binding site 640511012586 active site 640511012587 I-site; other site 640511012588 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 640511012589 putative dehydrogenase; Provisional; Region: PRK10098 640511012590 hypothetical protein; Provisional; Region: PRK07907 640511012591 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_5; cd05682 640511012592 metal binding site [ion binding]; metal-binding site 640511012593 putative dimer interface [polypeptide binding]; other site 640511012594 Superinfection immunity protein; Region: Imm_superinfect; pfam14373 640511012595 Uncharacterized small protein (DUF2158); Region: DUF2158; pfam09926 640511012596 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511012597 putative substrate translocation pore; other site 640511012598 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511012599 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640511012600 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640511012601 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 640511012602 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640511012603 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 640511012604 hypothetical protein; Provisional; Region: PRK07483 640511012605 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 640511012606 inhibitor-cofactor binding pocket; inhibition site 640511012607 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511012608 catalytic residue [active] 640511012609 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 640511012610 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 640511012611 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 640511012612 putative active site [active] 640511012613 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 640511012614 active site 1 [active] 640511012615 dimer interface [polypeptide binding]; other site 640511012616 hexamer interface [polypeptide binding]; other site 640511012617 active site 2 [active] 640511012618 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 640511012619 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640511012620 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 640511012621 NAD(P) binding site [chemical binding]; other site 640511012622 catalytic residues [active] 640511012623 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 640511012624 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 640511012625 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 640511012626 substrate binding site [chemical binding]; other site 640511012627 oxyanion hole (OAH) forming residues; other site 640511012628 trimer interface [polypeptide binding]; other site 640511012629 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 640511012630 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640511012631 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511012632 D-galactonate transporter; Region: 2A0114; TIGR00893 640511012633 putative substrate translocation pore; other site 640511012634 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640511012635 WHG domain; Region: WHG; pfam13305 640511012636 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511012637 putative substrate translocation pore; other site 640511012638 putative acyltransferase; Provisional; Region: PRK05790 640511012639 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 640511012640 dimer interface [polypeptide binding]; other site 640511012641 active site 640511012642 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 640511012643 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 640511012644 Na binding site [ion binding]; other site 640511012645 Protein of unknown function, DUF485; Region: DUF485; pfam04341 640511012646 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 640511012647 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 640511012648 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 640511012649 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 640511012650 Ligand binding site [chemical binding]; other site 640511012651 Electron transfer flavoprotein domain; Region: ETF; pfam01012 640511012652 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 640511012653 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 640511012654 FMN binding site [chemical binding]; other site 640511012655 substrate binding site [chemical binding]; other site 640511012656 putative catalytic residue [active] 640511012657 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 640511012658 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640511012659 enoyl-CoA hydratase; Provisional; Region: PRK07511 640511012660 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 640511012661 substrate binding site [chemical binding]; other site 640511012662 oxyanion hole (OAH) forming residues; other site 640511012663 trimer interface [polypeptide binding]; other site 640511012664 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 640511012665 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 640511012666 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 640511012667 active site 640511012668 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 640511012669 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640511012670 active site 640511012671 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 640511012672 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 640511012673 dimer interface [polypeptide binding]; other site 640511012674 active site 640511012675 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 640511012676 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 640511012677 substrate binding site [chemical binding]; other site 640511012678 oxyanion hole (OAH) forming residues; other site 640511012679 trimer interface [polypeptide binding]; other site 640511012680 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 640511012681 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 640511012682 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 640511012683 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511012684 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511012685 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 640511012686 putative effector binding pocket; other site 640511012687 dimerization interface [polypeptide binding]; other site 640511012688 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511012689 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 640511012690 dimerization interface [polypeptide binding]; other site 640511012691 Putative amidotransferase; Region: DUF4066; pfam13278 640511012692 conserved cys residue [active] 640511012693 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 640511012694 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511012695 DNA-binding site [nucleotide binding]; DNA binding site 640511012696 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 640511012697 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511012698 homodimer interface [polypeptide binding]; other site 640511012699 catalytic residue [active] 640511012700 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640511012701 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 640511012702 conserved cys residue [active] 640511012703 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511012704 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511012705 Epoxide hydrolase N terminus; Region: EHN; pfam06441 640511012706 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 640511012707 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 640511012708 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 640511012709 putative active site [active] 640511012710 putative catalytic site [active] 640511012711 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511012712 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 640511012713 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 640511012714 motif II; other site 640511012715 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 640511012716 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 640511012717 dimerization interface [polypeptide binding]; other site 640511012718 ligand binding site [chemical binding]; other site 640511012719 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 640511012720 Proline racemase; Region: Pro_racemase; pfam05544 640511012721 Protein of unknown function (DUF429); Region: DUF429; pfam04250 640511012722 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 640511012723 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 640511012724 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 640511012725 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 640511012726 dimer interface [polypeptide binding]; other site 640511012727 active site 640511012728 citrylCoA binding site [chemical binding]; other site 640511012729 NADH binding [chemical binding]; other site 640511012730 cationic pore residues; other site 640511012731 oxalacetate/citrate binding site [chemical binding]; other site 640511012732 coenzyme A binding site [chemical binding]; other site 640511012733 catalytic triad [active] 640511012734 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 640511012735 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 640511012736 catalytic site [active] 640511012737 rod shape-determining protein MreB; Provisional; Region: PRK13930 640511012738 MreB and similar proteins; Region: MreB_like; cd10225 640511012739 nucleotide binding site [chemical binding]; other site 640511012740 Mg binding site [ion binding]; other site 640511012741 putative protofilament interaction site [polypeptide binding]; other site 640511012742 RodZ interaction site [polypeptide binding]; other site 640511012743 Predicted esterase [General function prediction only]; Region: COG0400 640511012744 putative hydrolase; Provisional; Region: PRK11460 640511012745 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 640511012746 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511012747 putative substrate translocation pore; other site 640511012748 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511012749 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 640511012750 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511012751 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511012752 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 640511012753 NAD(P) binding site [chemical binding]; other site 640511012754 active site 640511012755 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 640511012756 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 640511012757 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 640511012758 Tar ligand binding domain homologue; Region: TarH; pfam02203 640511012759 HAMP domain; Region: HAMP; pfam00672 640511012760 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640511012761 dimer interface [polypeptide binding]; other site 640511012762 putative CheW interface [polypeptide binding]; other site 640511012763 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640511012764 classical (c) SDRs; Region: SDR_c; cd05233 640511012765 NAD(P) binding site [chemical binding]; other site 640511012766 active site 640511012767 Hemerythrin; Region: Hemerythrin; cd12107 640511012768 Fe binding site [ion binding]; other site 640511012769 Cupin domain; Region: Cupin_2; pfam07883 640511012770 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 640511012771 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 640511012772 NAD(P) binding site [chemical binding]; other site 640511012773 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640511012774 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 640511012775 trimer interface [polypeptide binding]; other site 640511012776 eyelet of channel; other site 640511012777 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 640511012778 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 640511012779 active site 640511012780 catalytic residues [active] 640511012781 metal binding site [ion binding]; metal-binding site 640511012782 DmpG-like communication domain; Region: DmpG_comm; pfam07836 640511012783 acetaldehyde dehydrogenase; Validated; Region: PRK08300 640511012784 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 640511012785 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 640511012786 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 640511012787 Subunit B of the Class III Extradiol ring-cleavage dioxygenase, 2,3-dihydroxyphenylpropionate 1,2-dioxygenase (MhpB), which catalyzes the oxidization and subsequent ring-opening of 2,3-dihydroxyphenylpropionate; Region: MhpB_like; cd07365 640511012788 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 640511012789 putative active site [active] 640511012790 Fe(II) binding site [ion binding]; other site 640511012791 putative dimer interface [polypeptide binding]; other site 640511012792 putative tetramer interface [polypeptide binding]; other site 640511012793 Lipocalin-like domain; Region: Lipocalin_5; pfam13924 640511012794 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 640511012795 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 640511012796 2,3-dihydroxybiphenyl 1,2-dioxygenase; Region: 23dbph12diox; TIGR03213 640511012797 N-terminal domain of 2,3-dihydroxybiphenyl 1,2-dioxygenase (BphC, EC 1.13.11.39) 1 from Rhodococcus globerulus P6 (BphC1-RGP6) and similar proteins; Region: BphC1-RGP6_N_like; cd07252 640511012798 C-terminal domain of 2,3-dihydroxybiphenyl 1,2-dioxygenase (BphC, EC 1.13.11.39) 1 from Rhodococcus globerulus P6 (BphC1-RGP6) and similar proteins; Region: BphC1-RGP6_C_like; cd07237 640511012799 active site 640511012800 Fe binding site [ion binding]; other site 640511012801 indole acetimide hydrolase; Validated; Region: PRK07488 640511012802 Amidase; Region: Amidase; cl11426 640511012803 M20 Peptidases, Poly(aspartic acid) hydrolase-like proteins; Region: M20_PAAh_like; cd03896 640511012804 acetylornithine deacetylase or succinyl-diaminopimelate desuccinylase; Region: DapE-ArgE; TIGR01910 640511012805 putative metal binding site [ion binding]; other site 640511012806 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 640511012807 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 640511012808 catalytic loop [active] 640511012809 iron binding site [ion binding]; other site 640511012810 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 640511012811 FAD binding pocket [chemical binding]; other site 640511012812 FAD binding motif [chemical binding]; other site 640511012813 phosphate binding motif [ion binding]; other site 640511012814 beta-alpha-beta structure motif; other site 640511012815 NAD binding pocket [chemical binding]; other site 640511012816 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 640511012817 Amidase; Region: Amidase; pfam01425 640511012818 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 640511012819 iron-sulfur cluster [ion binding]; other site 640511012820 [2Fe-2S] cluster binding site [ion binding]; other site 640511012821 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 640511012822 alpha subunit interface [polypeptide binding]; other site 640511012823 active site 640511012824 substrate binding site [chemical binding]; other site 640511012825 Fe binding site [ion binding]; other site 640511012826 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511012827 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640511012828 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511012829 acyl-CoA synthetase; Validated; Region: PRK08162 640511012830 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 640511012831 acyl-activating enzyme (AAE) consensus motif; other site 640511012832 putative active site [active] 640511012833 AMP binding site [chemical binding]; other site 640511012834 putative CoA binding site [chemical binding]; other site 640511012835 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 640511012836 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 640511012837 Transposase; Region: DDE_Tnp_ISL3; pfam01610 640511012838 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 640511012839 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 640511012840 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 640511012841 AAA domain; Region: AAA_22; pfam13401 640511012842 Integrase core domain; Region: rve; pfam00665 640511012843 TnsA endonuclease C terminal; Region: Tn7_Tnp_TnsA_C; pfam08721 640511012844 Phage integrase protein; Region: DUF3701; pfam12482 640511012845 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 640511012846 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 640511012847 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 640511012848 active site 640511012849 DNA binding site [nucleotide binding] 640511012850 Int/Topo IB signature motif; other site 640511012851 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 640511012852 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511012853 putative substrate translocation pore; other site 640511012854 Transcriptional regulators [Transcription]; Region: MarR; COG1846 640511012855 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 640511012856 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 640511012857 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 640511012858 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640511012859 dimer interface [polypeptide binding]; other site 640511012860 putative CheW interface [polypeptide binding]; other site 640511012861 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 640511012862 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 640511012863 active site 640511012864 FMN binding site [chemical binding]; other site 640511012865 substrate binding site [chemical binding]; other site 640511012866 putative catalytic residue [active] 640511012867 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640511012868 classical (c) SDRs; Region: SDR_c; cd05233 640511012869 NAD(P) binding site [chemical binding]; other site 640511012870 active site 640511012871 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 640511012872 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 640511012873 FAD binding domain; Region: FAD_binding_4; pfam01565 640511012874 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640511012875 classical (c) SDRs; Region: SDR_c; cd05233 640511012876 NAD(P) binding site [chemical binding]; other site 640511012877 active site 640511012878 succinic semialdehyde dehydrogenase; Region: PLN02278 640511012879 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 640511012880 tetramerization interface [polypeptide binding]; other site 640511012881 NAD(P) binding site [chemical binding]; other site 640511012882 catalytic residues [active] 640511012883 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 640511012884 inhibitor site; inhibition site 640511012885 active site 640511012886 dimer interface [polypeptide binding]; other site 640511012887 catalytic residue [active] 640511012888 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 640511012889 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 640511012890 Uncharacterized conserved protein [Function unknown]; Region: COG2353 640511012891 Transcriptional regulators [Transcription]; Region: FadR; COG2186 640511012892 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511012893 DNA-binding site [nucleotide binding]; DNA binding site 640511012894 FCD domain; Region: FCD; pfam07729 640511012895 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 640511012896 hypothetical protein; Provisional; Region: PRK06847 640511012897 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 640511012898 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 640511012899 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 640511012900 Cupin domain; Region: Cupin_2; pfam07883 640511012901 2,3-dihydroxybiphenyl 1,2-dioxygenase; Region: 23dbph12diox; TIGR03213 640511012902 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 640511012903 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640511012904 putative active site [active] 640511012905 putative metal binding site [ion binding]; other site 640511012906 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 640511012907 iron-sulfur cluster [ion binding]; other site 640511012908 [2Fe-2S] cluster binding site [ion binding]; other site 640511012909 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511012910 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511012911 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 640511012912 substrate binding pocket [chemical binding]; other site 640511012913 dimerization interface [polypeptide binding]; other site 640511012914 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 640511012915 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 640511012916 iron-sulfur cluster [ion binding]; other site 640511012917 [2Fe-2S] cluster binding site [ion binding]; other site 640511012918 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 640511012919 alpha subunit interface [polypeptide binding]; other site 640511012920 active site 640511012921 substrate binding site [chemical binding]; other site 640511012922 Fe binding site [ion binding]; other site 640511012923 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 640511012924 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 640511012925 FMN-binding pocket [chemical binding]; other site 640511012926 flavin binding motif; other site 640511012927 phosphate binding motif [ion binding]; other site 640511012928 beta-alpha-beta structure motif; other site 640511012929 NAD binding pocket [chemical binding]; other site 640511012930 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 640511012931 catalytic loop [active] 640511012932 iron binding site [ion binding]; other site 640511012933 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511012934 putative substrate translocation pore; other site 640511012935 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 640511012936 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640511012937 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640511012938 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 640511012939 CoenzymeA binding site [chemical binding]; other site 640511012940 subunit interaction site [polypeptide binding]; other site 640511012941 PHB binding site; other site 640511012942 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 640511012943 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 640511012944 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 640511012945 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640511012946 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640511012947 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 640511012948 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 640511012949 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 640511012950 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 640511012951 substrate binding pocket [chemical binding]; other site 640511012952 membrane-bound complex binding site; other site 640511012953 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 640511012954 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 640511012955 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511012956 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640511012957 putative substrate translocation pore; other site 640511012958 3-(3-hydroxyphenyl)propionate hydroxylase; Validated; Region: mhpA; PRK06183 640511012959 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 640511012960 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 640511012961 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 640511012962 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 640511012963 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 640511012964 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640511012965 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 640511012966 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 640511012967 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 640511012968 non-specific DNA binding site [nucleotide binding]; other site 640511012969 salt bridge; other site 640511012970 sequence-specific DNA binding site [nucleotide binding]; other site 640511012971 Protein of unknown function (DUF3732); Region: DUF3732; pfam12532 640511012972 Predicted transcriptional regulators [Transcription]; Region: COG1695 640511012973 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 640511012974 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 640511012975 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 640511012976 FAD binding pocket [chemical binding]; other site 640511012977 FAD binding motif [chemical binding]; other site 640511012978 phosphate binding motif [ion binding]; other site 640511012979 NAD binding pocket [chemical binding]; other site 640511012980 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511012981 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640511012982 putative substrate translocation pore; other site 640511012983 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 640511012984 Domain of unknown function DUF20; Region: UPF0118; pfam01594 640511012985 CsbD-like; Region: CsbD; cl17424 640511012986 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 640511012987 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 640511012988 substrate binding site [chemical binding]; other site 640511012989 oxyanion hole (OAH) forming residues; other site 640511012990 trimer interface [polypeptide binding]; other site 640511012991 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 640511012992 enoyl-CoA hydratase; Provisional; Region: PRK09076 640511012993 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 640511012994 substrate binding site [chemical binding]; other site 640511012995 oxyanion hole (OAH) forming residues; other site 640511012996 trimer interface [polypeptide binding]; other site 640511012997 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 640511012998 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 640511012999 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 640511013000 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 640511013001 tetrameric interface [polypeptide binding]; other site 640511013002 NAD binding site [chemical binding]; other site 640511013003 catalytic residues [active] 640511013004 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 640511013005 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_1; cd05974 640511013006 active site 640511013007 acyl-activating enzyme (AAE) consensus motif; other site 640511013008 putative CoA binding site [chemical binding]; other site 640511013009 AMP binding site [chemical binding]; other site 640511013010 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 640511013011 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640511013012 active site 640511013013 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 640511013014 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640511013015 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511013016 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 640511013017 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 640511013018 active site residues [active] 640511013019 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 640511013020 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 640511013021 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 640511013022 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 640511013023 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 640511013024 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640511013025 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 640511013026 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 640511013027 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 640511013028 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 640511013029 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 640511013030 catalytic loop [active] 640511013031 iron binding site [ion binding]; other site 640511013032 Protein of unknown function (DUF1653); Region: DUF1653; cl01949 640511013033 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 640511013034 YheO-like PAS domain; Region: PAS_6; pfam08348 640511013035 HTH domain; Region: HTH_22; pfam13309 640511013036 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 640511013037 rRNA binding site [nucleotide binding]; other site 640511013038 predicted 30S ribosome binding site; other site 640511013039 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 640511013040 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 640511013041 active site 640511013042 phosphorylation site [posttranslational modification] 640511013043 intermolecular recognition site; other site 640511013044 dimerization interface [polypeptide binding]; other site 640511013045 ANTAR domain; Region: ANTAR; pfam03861 640511013046 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 640511013047 NMT1-like family; Region: NMT1_2; pfam13379 640511013048 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 640511013049 rhamnose ABC transporter, rhamnose-binding protein; Region: RhaS; TIGR02637 640511013050 ligand binding site [chemical binding]; other site 640511013051 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640511013052 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 640511013053 TM-ABC transporter signature motif; other site 640511013054 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640511013055 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 640511013056 TM-ABC transporter signature motif; other site 640511013057 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 640511013058 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 640511013059 Walker A/P-loop; other site 640511013060 ATP binding site [chemical binding]; other site 640511013061 Q-loop/lid; other site 640511013062 ABC transporter signature motif; other site 640511013063 Walker B; other site 640511013064 D-loop; other site 640511013065 H-loop/switch region; other site 640511013066 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 640511013067 Amidohydrolase; Region: Amidohydro_2; pfam04909 640511013068 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 640511013069 Domain of unknown function (DUF718); Region: DUF718; pfam05336 640511013070 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 640511013071 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511013072 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 640511013073 putative dimerization interface [polypeptide binding]; other site 640511013074 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640511013075 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511013076 NAD(P) binding site [chemical binding]; other site 640511013077 active site 640511013078 L-rhamnonate dehydratase; Provisional; Region: PRK15440 640511013079 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 2. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic...; Region: MR_like_2; cd03327 640511013080 putative active site pocket [active] 640511013081 putative metal binding site [ion binding]; other site 640511013082 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640511013083 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511013084 NAD(P) binding site [chemical binding]; other site 640511013085 active site 640511013086 Xylosyltransferase C terminal; Region: Xylo_C; pfam12529 640511013087 DNA-binding protein H-NS [General function prediction only]; Region: Hns; COG2916 640511013088 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 640511013089 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 640511013090 Low molecular weight phosphatase family; Region: LMWPc; cl00105 640511013091 active site 640511013092 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 640511013093 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 640511013094 HSP70 interaction site [polypeptide binding]; other site 640511013095 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 640511013096 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 640511013097 indole acetimide hydrolase; Validated; Region: PRK07488 640511013098 Amidase; Region: Amidase; cl11426 640511013099 CDP-diacylglycerol pyrophosphatase; Region: CDH; pfam02611 640511013100 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 640511013101 putative di-iron ligands [ion binding]; other site 640511013102 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 640511013103 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 640511013104 Cation efflux family; Region: Cation_efflux; pfam01545 640511013105 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 640511013106 putative FMN binding site [chemical binding]; other site 640511013107 NADPH bind site [chemical binding]; other site 640511013108 ergothioneine biosynthesis protein EgtC; Region: TIGR03442 640511013109 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 640511013110 putative active site [active] 640511013111 putative dimer interface [polypeptide binding]; other site 640511013112 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 640511013113 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 640511013114 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 640511013115 active site 640511013116 metal binding site [ion binding]; metal-binding site 640511013117 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 640511013118 PAS fold; Region: PAS_4; pfam08448 640511013119 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 640511013120 PAS fold; Region: PAS_3; pfam08447 640511013121 putative active site [active] 640511013122 heme pocket [chemical binding]; other site 640511013123 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640511013124 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640511013125 metal binding site [ion binding]; metal-binding site 640511013126 active site 640511013127 I-site; other site 640511013128 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 640511013129 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511013130 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511013131 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 640511013132 substrate binding pocket [chemical binding]; other site 640511013133 dimerization interface [polypeptide binding]; other site 640511013134 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 640511013135 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 640511013136 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 640511013137 shikimate binding site; other site 640511013138 NAD(P) binding site [chemical binding]; other site 640511013139 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 640511013140 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640511013141 (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 640511013142 active site 640511013143 catalytic site [active] 640511013144 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640511013145 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 640511013146 active site 640511013147 metal binding site [ion binding]; metal-binding site 640511013148 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 640511013149 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 640511013150 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 640511013151 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640511013152 gluconate 5-dehydrogenase; Provisional; Region: PRK07523 640511013153 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 640511013154 NADP binding site [chemical binding]; other site 640511013155 homodimer interface [polypeptide binding]; other site 640511013156 active site 640511013157 Putative ParB-like nuclease; Region: ParBc_2; cl17538 640511013158 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 640511013159 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 640511013160 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 640511013161 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 640511013162 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3515 640511013163 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 640511013164 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 640511013165 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 640511013166 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 640511013167 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 640511013168 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 640511013169 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 640511013170 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 640511013171 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 640511013172 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 640511013173 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 640511013174 Protein of unknown function (DUF877); Region: DUF877; pfam05943 640511013175 Protein of unknown function (DUF770); Region: DUF770; pfam05591 640511013176 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 640511013177 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 640511013178 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 640511013179 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 640511013180 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640511013181 ligand binding site [chemical binding]; other site 640511013182 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 640511013183 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 640511013184 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 640511013185 Walker A motif; other site 640511013186 ATP binding site [chemical binding]; other site 640511013187 Walker B motif; other site 640511013188 arginine finger; other site 640511013189 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 640511013190 Walker A motif; other site 640511013191 ATP binding site [chemical binding]; other site 640511013192 Walker B motif; other site 640511013193 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 640511013194 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 640511013195 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 640511013196 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 640511013197 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 640511013198 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 640511013199 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 640511013200 ATP-grasp domain; Region: ATP-grasp_4; cl17255 640511013201 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 640511013202 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 640511013203 carboxyltransferase (CT) interaction site; other site 640511013204 biotinylation site [posttranslational modification]; other site 640511013205 enoyl-CoA hydratase; Provisional; Region: PRK05995 640511013206 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 640511013207 substrate binding site [chemical binding]; other site 640511013208 oxyanion hole (OAH) forming residues; other site 640511013209 trimer interface [polypeptide binding]; other site 640511013210 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 640511013211 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 640511013212 isovaleryl-CoA dehydrogenase; Region: PLN02519 640511013213 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 640511013214 substrate binding site [chemical binding]; other site 640511013215 FAD binding site [chemical binding]; other site 640511013216 catalytic base [active] 640511013217 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640511013218 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640511013219 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 640511013220 Protein of unknown function DUF72; Region: DUF72; pfam01904 640511013221 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 640511013222 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 640511013223 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 640511013224 IHF dimer interface [polypeptide binding]; other site 640511013225 IHF - DNA interface [nucleotide binding]; other site 640511013226 Predicted signal transduction protein containing a membrane domain, an EAL and a GGDEF domain [Signal transduction mechanisms]; Region: COG5001 640511013227 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640511013228 metal binding site [ion binding]; metal-binding site 640511013229 active site 640511013230 I-site; other site 640511013231 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 640511013232 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 640511013233 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640511013234 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511013235 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 640511013236 dimerization interface [polypeptide binding]; other site 640511013237 substrate binding pocket [chemical binding]; other site 640511013238 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 640511013239 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511013240 putative substrate translocation pore; other site 640511013241 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 640511013242 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 640511013243 Cupin domain; Region: Cupin_2; cl17218 640511013244 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 640511013245 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 640511013246 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 640511013247 active site residue [active] 640511013248 Peptidase C26; Region: Peptidase_C26; pfam07722 640511013249 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 640511013250 catalytic triad [active] 640511013251 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 640511013252 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 640511013253 putative aminotransferase; Validated; Region: PRK07480 640511013254 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 640511013255 inhibitor-cofactor binding pocket; inhibition site 640511013256 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511013257 catalytic residue [active] 640511013258 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640511013259 Uncharacterized conserved protein (DUF2278); Region: DUF2278; cl17857 640511013260 benzoate transport; Region: 2A0115; TIGR00895 640511013261 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511013262 putative substrate translocation pore; other site 640511013263 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511013264 benzoylformate decarboxylase; Reviewed; Region: PRK07092 640511013265 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 640511013266 PYR/PP interface [polypeptide binding]; other site 640511013267 dimer interface [polypeptide binding]; other site 640511013268 TPP binding site [chemical binding]; other site 640511013269 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 640511013270 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 640511013271 TPP-binding site [chemical binding]; other site 640511013272 dimer interface [polypeptide binding]; other site 640511013273 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511013274 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511013275 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 640511013276 putative dimerization interface [polypeptide binding]; other site 640511013277 Protein of unknown function (DUF2891); Region: DUF2891; pfam11199 640511013278 DNA polymerase II; Reviewed; Region: PRK05762 640511013279 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 640511013280 active site 640511013281 catalytic site [active] 640511013282 substrate binding site [chemical binding]; other site 640511013283 DNA polymerase type-II subfamily catalytic domain. Bacteria contain five DNA polymerases (I, II, III, IV and V). DNA polymerase II (Pol II) is a prototype for the B-family of polymerases. The role of Pol II in a variety of cellular activities, such as...; Region: POLBc_Pol_II; cd05537 640511013284 active site 640511013285 metal-binding site 640511013286 periplasmic protein; Provisional; Region: PRK10568 640511013287 BON domain; Region: BON; pfam04972 640511013288 YHS domain; Region: YHS; pfam04945 640511013289 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 640511013290 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 640511013291 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 640511013292 motif II; other site 640511013293 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cd00091 640511013294 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 640511013295 active site 640511013296 substrate binding site [chemical binding]; other site 640511013297 Mg2+ binding site [ion binding]; other site 640511013298 benzoate transport; Region: 2A0115; TIGR00895 640511013299 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511013300 putative substrate translocation pore; other site 640511013301 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511013302 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 640511013303 3-isopropylmalate dehydratase small subunit; Reviewed; Region: leuD; PRK00439 640511013304 substrate binding site [chemical binding]; other site 640511013305 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 640511013306 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 640511013307 substrate binding site [chemical binding]; other site 640511013308 ligand binding site [chemical binding]; other site 640511013309 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 640511013310 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511013311 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 640511013312 putative dimerization interface [polypeptide binding]; other site 640511013313 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3826 640511013314 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 640511013315 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 640511013316 catalytic residues [active] 640511013317 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 640511013318 BON domain; Region: BON; pfam04972 640511013319 Major royal jelly protein; Region: MRJP; pfam03022 640511013320 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 640511013321 Paraquat-inducible protein A; Region: PqiA; pfam04403 640511013322 Paraquat-inducible protein A; Region: PqiA; pfam04403 640511013323 mce related protein; Region: MCE; pfam02470 640511013324 mce related protein; Region: MCE; pfam02470 640511013325 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 640511013326 Protein of unknown function (DUF330); Region: DUF330; pfam03886 640511013327 Transcriptional regulators [Transcription]; Region: MarR; COG1846 640511013328 MarR family; Region: MarR_2; pfam12802 640511013329 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640511013330 Coenzyme A binding pocket [chemical binding]; other site 640511013331 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 640511013332 The C-terminal domain of Gallate Dioxygenase, which catalyzes the oxidization and subsequent ring-opening of gallate; Region: Gallate_dioxygenase_C; cd07923 640511013333 putative dimer interface [polypeptide binding]; other site 640511013334 putative N- and C-terminal domain interface [polypeptide binding]; other site 640511013335 The N-terminal domain of the Class III extradiol dioxygenase, Gallate Dioxygenase, which catalyzes the oxidization and subsequent ring-opening of gallate; Region: Gallate_Doxase_N; cd07950 640511013336 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 640511013337 putative active site [active] 640511013338 Fe(II) binding site [ion binding]; other site 640511013339 putative dimer interface [polypeptide binding]; other site 640511013340 Transcriptional regulators [Transcription]; Region: FadR; COG2186 640511013341 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511013342 DNA-binding site [nucleotide binding]; DNA binding site 640511013343 FCD domain; Region: FCD; pfam07729 640511013344 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511013345 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511013346 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 640511013347 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511013348 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 640511013349 putative dimerization interface [polypeptide binding]; other site 640511013350 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 640511013351 TPR motif; other site 640511013352 binding surface 640511013353 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 640511013354 binding surface 640511013355 TPR motif; other site 640511013356 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 640511013357 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 640511013358 binding surface 640511013359 TPR motif; other site 640511013360 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 640511013361 binding surface 640511013362 TPR motif; other site 640511013363 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 640511013364 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 640511013365 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 640511013366 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 640511013367 N-terminal plug; other site 640511013368 ligand-binding site [chemical binding]; other site 640511013369 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 640511013370 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 640511013371 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 640511013372 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 640511013373 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 640511013374 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 640511013375 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 640511013376 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 640511013377 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 640511013378 Peptidase family M23; Region: Peptidase_M23; pfam01551 640511013379 Uncharacterized protein conserved in bacteria (DUF2322); Region: DUF2322; pfam10084 640511013380 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 640511013381 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511013382 dimer interface [polypeptide binding]; other site 640511013383 conserved gate region; other site 640511013384 putative PBP binding loops; other site 640511013385 ABC-ATPase subunit interface; other site 640511013386 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 640511013387 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511013388 dimer interface [polypeptide binding]; other site 640511013389 conserved gate region; other site 640511013390 putative PBP binding loops; other site 640511013391 ABC-ATPase subunit interface; other site 640511013392 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 640511013393 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 640511013394 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 640511013395 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 640511013396 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 640511013397 Beta-galactosidase C-terminal domain; Region: Glyco_hydro_42C; pfam08533 640511013398 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 640511013399 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 640511013400 Walker A/P-loop; other site 640511013401 ATP binding site [chemical binding]; other site 640511013402 Q-loop/lid; other site 640511013403 ABC transporter signature motif; other site 640511013404 Walker B; other site 640511013405 D-loop; other site 640511013406 H-loop/switch region; other site 640511013407 TOBE domain; Region: TOBE_2; pfam08402 640511013408 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640511013409 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640511013410 DNA binding site [nucleotide binding] 640511013411 domain linker motif; other site 640511013412 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 640511013413 dimerization interface [polypeptide binding]; other site 640511013414 ligand binding site [chemical binding]; other site 640511013415 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511013416 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 640511013417 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 640511013418 ligand binding site [chemical binding]; other site 640511013419 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640511013420 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 640511013421 TM-ABC transporter signature motif; other site 640511013422 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 640511013423 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 640511013424 Walker A/P-loop; other site 640511013425 ATP binding site [chemical binding]; other site 640511013426 Q-loop/lid; other site 640511013427 ABC transporter signature motif; other site 640511013428 Walker B; other site 640511013429 D-loop; other site 640511013430 H-loop/switch region; other site 640511013431 MarR family; Region: MarR_2; pfam12802 640511013432 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 640511013433 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 640511013434 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 640511013435 Transglycosylase; Region: Transgly; pfam00912 640511013436 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 640511013437 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511013438 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511013439 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 640511013440 putative dimerization interface [polypeptide binding]; other site 640511013441 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 640511013442 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 640511013443 inhibitor site; inhibition site 640511013444 active site 640511013445 dimer interface [polypeptide binding]; other site 640511013446 catalytic residue [active] 640511013447 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 640511013448 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640511013449 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640511013450 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640511013451 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511013452 D-galactonate transporter; Region: 2A0114; TIGR00893 640511013453 putative substrate translocation pore; other site 640511013454 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511013455 shikimate 5-dehydrogenase; Reviewed; Region: PRK12549 640511013456 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 640511013457 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 640511013458 shikimate binding site; other site 640511013459 NAD(P) binding site [chemical binding]; other site 640511013460 Dehydroquinase class II; Region: DHquinase_II; pfam01220 640511013461 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 640511013462 active site 640511013463 trimer interface [polypeptide binding]; other site 640511013464 dimer interface [polypeptide binding]; other site 640511013465 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 640511013466 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 640511013467 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 640511013468 dimer interface [polypeptide binding]; other site 640511013469 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 640511013470 active site 640511013471 Fe binding site [ion binding]; other site 640511013472 PAS fold; Region: PAS_4; pfam08448 640511013473 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 640511013474 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511013475 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 640511013476 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 640511013477 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640511013478 hydroxyglutarate oxidase; Provisional; Region: PRK11728 640511013479 hydroxyproline-2-epimerase; Provisional; Region: PRK13970 640511013480 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 640511013481 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 640511013482 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511013483 active site 640511013484 phosphorylation site [posttranslational modification] 640511013485 dimerization interface [polypeptide binding]; other site 640511013486 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 640511013487 DNA binding site [nucleotide binding] 640511013488 metabolite-proton symporter; Region: 2A0106; TIGR00883 640511013489 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511013490 putative substrate translocation pore; other site 640511013491 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511013492 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640511013493 putative substrate translocation pore; other site 640511013494 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511013495 Predicted membrane protein [Function unknown]; Region: COG2259 640511013496 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 640511013497 dimer interface [polypeptide binding]; other site 640511013498 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640511013499 metal binding site [ion binding]; metal-binding site 640511013500 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 640511013501 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 640511013502 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 640511013503 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 640511013504 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 640511013505 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 640511013506 non-specific DNA binding site [nucleotide binding]; other site 640511013507 salt bridge; other site 640511013508 sequence-specific DNA binding site [nucleotide binding]; other site 640511013509 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 640511013510 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640511013511 Coenzyme A binding pocket [chemical binding]; other site 640511013512 transcriptional activator FlhD; Provisional; Region: PRK02909 640511013513 transcriptional activator FlhC; Provisional; Region: PRK12860 640511013514 manganese transport protein MntH; Reviewed; Region: PRK00701 640511013515 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 640511013516 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 640511013517 Flavin binding site [chemical binding]; other site 640511013518 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640511013519 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 640511013520 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 640511013521 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640511013522 HlyD family secretion protein; Region: HlyD_3; pfam13437 640511013523 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 640511013524 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 640511013525 substrate binding pocket [chemical binding]; other site 640511013526 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511013527 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511013528 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 640511013529 putative effector binding pocket; other site 640511013530 putative dimerization interface [polypeptide binding]; other site 640511013531 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640511013532 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 640511013533 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 640511013534 active site 640511013535 catalytic tetrad [active] 640511013536 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 640511013537 Cation efflux family; Region: Cation_efflux; pfam01545 640511013538 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 640511013539 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 640511013540 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 640511013541 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_7; cd03862 640511013542 putative active site [active] 640511013543 Zn binding site [ion binding]; other site 640511013544 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 640511013545 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 640511013546 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 640511013547 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 640511013548 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 640511013549 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 640511013550 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 640511013551 Walker A/P-loop; other site 640511013552 ATP binding site [chemical binding]; other site 640511013553 Q-loop/lid; other site 640511013554 ABC transporter signature motif; other site 640511013555 Walker B; other site 640511013556 D-loop; other site 640511013557 H-loop/switch region; other site 640511013558 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 640511013559 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 640511013560 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511013561 dimer interface [polypeptide binding]; other site 640511013562 conserved gate region; other site 640511013563 ABC-ATPase subunit interface; other site 640511013564 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 640511013565 active site 640511013566 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 640511013567 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 640511013568 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511013569 active site 640511013570 phosphorylation site [posttranslational modification] 640511013571 intermolecular recognition site; other site 640511013572 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 640511013573 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 640511013574 motif II; other site 640511013575 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640511013576 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 640511013577 trimer interface [polypeptide binding]; other site 640511013578 eyelet of channel; other site 640511013579 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 640511013580 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511013581 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 640511013582 dimerization interface [polypeptide binding]; other site 640511013583 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 640511013584 Protein of unknown function (DUF2894); Region: DUF2894; pfam11445 640511013585 hypothetical protein; Provisional; Region: PRK09040 640511013586 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640511013587 ligand binding site [chemical binding]; other site 640511013588 Domain of unknown function (DUF802); Region: DUF802; pfam05650 640511013589 Protein of unknown function (DUF3348); Region: DUF3348; pfam11828 640511013590 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640511013591 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 640511013592 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 640511013593 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 640511013594 N-terminal plug; other site 640511013595 ligand-binding site [chemical binding]; other site 640511013596 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 640511013597 Sel1-like repeats; Region: SEL1; smart00671 640511013598 Sel1-like repeats; Region: SEL1; smart00671 640511013599 Sel1-like repeats; Region: SEL1; smart00671 640511013600 Sel1 repeat; Region: Sel1; cl02723 640511013601 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 640511013602 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 640511013603 Na binding site [ion binding]; other site 640511013604 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 640511013605 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 640511013606 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 640511013607 Histidine kinase; Region: HisKA_3; pfam07730 640511013608 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511013609 ATP binding site [chemical binding]; other site 640511013610 Mg2+ binding site [ion binding]; other site 640511013611 G-X-G motif; other site 640511013612 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640511013613 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511013614 active site 640511013615 phosphorylation site [posttranslational modification] 640511013616 intermolecular recognition site; other site 640511013617 dimerization interface [polypeptide binding]; other site 640511013618 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 640511013619 DNA binding residues [nucleotide binding] 640511013620 dimerization interface [polypeptide binding]; other site 640511013621 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 640511013622 Sulfatase; Region: Sulfatase; cl17466 640511013623 Sulfatase; Region: Sulfatase; cl17466 640511013624 Sulfatase; Region: Sulfatase; cl17466 640511013625 Uncharacterized conserved protein [Function unknown]; Region: COG1262 640511013626 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 640511013627 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 640511013628 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 640511013629 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 640511013630 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 640511013631 putative active site [active] 640511013632 catalytic site [active] 640511013633 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 640511013634 putative active site [active] 640511013635 catalytic site [active] 640511013636 H-NS histone family; Region: Histone_HNS; pfam00816 640511013637 H-NS histone family; Region: Histone_HNS; pfam00816 640511013638 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 640511013639 Protein of unknown function, DUF488; Region: DUF488; pfam04343 640511013640 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 640511013641 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 640511013642 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 640511013643 ATP binding site [chemical binding]; other site 640511013644 putative Mg++ binding site [ion binding]; other site 640511013645 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 640511013646 nucleotide binding region [chemical binding]; other site 640511013647 ATP-binding site [chemical binding]; other site 640511013648 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 640511013649 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 640511013650 putative active site [active] 640511013651 putative metal binding site [ion binding]; other site 640511013652 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 640511013653 FAD binding domain; Region: FAD_binding_4; pfam01565 640511013654 Berberine and berberine like; Region: BBE; pfam08031 640511013655 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 640511013656 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 640511013657 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 640511013658 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640511013659 dimer interface [polypeptide binding]; other site 640511013660 putative CheW interface [polypeptide binding]; other site 640511013661 PA2301 is an uncharacterized Pseudomonas aeruginosa protein with a YbaK-like domain of unknown function. The YbaK-like domain family includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's...; Region: PA2301; cd04939 640511013662 putative deacylase active site [active] 640511013663 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 640511013664 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640511013665 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 640511013666 trimer interface [polypeptide binding]; other site 640511013667 eyelet of channel; other site 640511013668 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 640511013669 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 640511013670 active site 640511013671 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 640511013672 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 640511013673 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 640511013674 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 640511013675 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 640511013676 Uncharacterized conserved protein [Function unknown]; Region: COG2308 640511013677 IHF dimer interface [polypeptide binding]; other site 640511013678 Bacterial DNA-binding protein; Region: Bac_DNA_binding; pfam00216 640511013679 IHF - DNA interface [nucleotide binding]; other site 640511013680 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 640511013681 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511013682 DNA-binding site [nucleotide binding]; DNA binding site 640511013683 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 640511013684 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511013685 homodimer interface [polypeptide binding]; other site 640511013686 catalytic residue [active] 640511013687 Uncharacterized conserved protein [Function unknown]; Region: COG2128 640511013688 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 640511013689 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 640511013690 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 640511013691 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 640511013692 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640511013693 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 640511013694 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511013695 putative substrate translocation pore; other site 640511013696 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 640511013697 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640511013698 HlyD family secretion protein; Region: HlyD_3; pfam13437 640511013699 Transcriptional regulators [Transcription]; Region: MarR; COG1846 640511013700 MarR family; Region: MarR_2; pfam12802 640511013701 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640511013702 MarR family; Region: MarR_2; pfam12802 640511013703 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640511013704 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 640511013705 conserved cys residue [active] 640511013706 META domain; Region: META; pfam03724 640511013707 Domain of unknown function (DUF4377); Region: DUF4377; pfam14302 640511013708 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511013709 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511013710 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 640511013711 putative effector binding pocket; other site 640511013712 putative dimerization interface [polypeptide binding]; other site 640511013713 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 640511013714 active site 640511013715 EamA-like transporter family; Region: EamA; pfam00892 640511013716 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 640511013717 EamA-like transporter family; Region: EamA; pfam00892 640511013718 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640511013719 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511013720 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 640511013721 dimerization interface [polypeptide binding]; other site 640511013722 substrate binding pocket [chemical binding]; other site 640511013723 Predicted ATPase [General function prediction only]; Region: COG3910 640511013724 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640511013725 Walker A/P-loop; other site 640511013726 ATP binding site [chemical binding]; other site 640511013727 Q-loop/lid; other site 640511013728 ABC transporter signature motif; other site 640511013729 Walker B; other site 640511013730 D-loop; other site 640511013731 H-loop/switch region; other site 640511013732 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 640511013733 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 640511013734 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 640511013735 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 640511013736 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 640511013737 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 640511013738 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 640511013739 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 640511013740 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 640511013741 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 640511013742 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 640511013743 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4307 640511013744 Uncharacterized protein conserved in bacteria (DUF2248); Region: DUF2248; pfam10005 640511013745 Protein of unknown function (DUF3443); Region: DUF3443; pfam11925 640511013746 Protein of unknown function (DUF2844); Region: DUF2844; pfam11005 640511013747 Phasin protein; Region: Phasin_2; cl11491 640511013748 Domain of unknown function (DUF4410); Region: DUF4410; pfam14366 640511013749 Response regulator receiver domain; Region: Response_reg; pfam00072 640511013750 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511013751 active site 640511013752 phosphorylation site [posttranslational modification] 640511013753 intermolecular recognition site; other site 640511013754 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 640511013755 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 640511013756 N-terminal plug; other site 640511013757 ligand-binding site [chemical binding]; other site 640511013758 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 640511013759 Ligand Binding Site [chemical binding]; other site 640511013760 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 640511013761 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 640511013762 Cl- selectivity filter; other site 640511013763 Cl- binding residues [ion binding]; other site 640511013764 pore gating glutamate residue; other site 640511013765 dimer interface [polypeptide binding]; other site 640511013766 FOG: CBS domain [General function prediction only]; Region: COG0517 640511013767 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 640511013768 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 640511013769 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 640511013770 HPP family; Region: HPP; pfam04982 640511013771 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 640511013772 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 640511013773 Transcriptional regulators [Transcription]; Region: MarR; COG1846 640511013774 MarR family; Region: MarR_2; pfam12802 640511013775 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 640511013776 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 640511013777 Cl- selectivity filter; other site 640511013778 Cl- binding residues [ion binding]; other site 640511013779 pore gating glutamate residue; other site 640511013780 dimer interface [polypeptide binding]; other site 640511013781 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 640511013782 FOG: CBS domain [General function prediction only]; Region: COG0517 640511013783 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 640511013784 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 640511013785 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 640511013786 substrate binding pocket [chemical binding]; other site 640511013787 membrane-bound complex binding site; other site 640511013788 hinge residues; other site 640511013789 TniQ; Region: TniQ; pfam06527 640511013790 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 640511013791 HTH-like domain; Region: HTH_21; pfam13276 640511013792 Integrase core domain; Region: rve; pfam00665 640511013793 Integrase core domain; Region: rve_3; pfam13683 640511013794 phenylcoumaran benzylic ether reductase (PCBER) like, atypical (a) SDRs; Region: PCBER_SDR_a; cd05259 640511013795 NmrA-like family; Region: NmrA; pfam05368 640511013796 NAD(P) binding site [chemical binding]; other site 640511013797 active site lysine 640511013798 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640511013799 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 640511013800 hydroxyglutarate oxidase; Provisional; Region: PRK11728 640511013801 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 640511013802 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 640511013803 substrate binding pocket [chemical binding]; other site 640511013804 membrane-bound complex binding site; other site 640511013805 hinge residues; other site 640511013806 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 640511013807 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 640511013808 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 640511013809 YheO-like PAS domain; Region: PAS_6; pfam08348 640511013810 HTH domain; Region: HTH_22; pfam13309 640511013811 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 640511013812 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640511013813 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 640511013814 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 640511013815 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 640511013816 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640511013817 Walker A/P-loop; other site 640511013818 ATP binding site [chemical binding]; other site 640511013819 Q-loop/lid; other site 640511013820 ABC transporter signature motif; other site 640511013821 Walker B; other site 640511013822 D-loop; other site 640511013823 H-loop/switch region; other site 640511013824 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640511013825 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640511013826 Walker A/P-loop; other site 640511013827 ATP binding site [chemical binding]; other site 640511013828 Q-loop/lid; other site 640511013829 ABC transporter signature motif; other site 640511013830 Walker B; other site 640511013831 D-loop; other site 640511013832 H-loop/switch region; other site 640511013833 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640511013834 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 640511013835 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511013836 dimer interface [polypeptide binding]; other site 640511013837 conserved gate region; other site 640511013838 ABC-ATPase subunit interface; other site 640511013839 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 640511013840 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511013841 dimer interface [polypeptide binding]; other site 640511013842 conserved gate region; other site 640511013843 putative PBP binding loops; other site 640511013844 ABC-ATPase subunit interface; other site 640511013845 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 640511013846 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 640511013847 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 640511013848 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640511013849 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 640511013850 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 640511013851 motif II; other site 640511013852 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640511013853 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 640511013854 NAD(P) binding site [chemical binding]; other site 640511013855 catalytic residues [active] 640511013856 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 640511013857 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640511013858 Coenzyme A binding pocket [chemical binding]; other site 640511013859 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 640511013860 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 640511013861 putative ligand binding site [chemical binding]; other site 640511013862 NAD binding site [chemical binding]; other site 640511013863 dimerization interface [polypeptide binding]; other site 640511013864 catalytic site [active] 640511013865 hypothetical protein; Provisional; Region: PRK05965 640511013866 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 640511013867 inhibitor-cofactor binding pocket; inhibition site 640511013868 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511013869 catalytic residue [active] 640511013870 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 640511013871 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 640511013872 putative DNA binding site [nucleotide binding]; other site 640511013873 putative Zn2+ binding site [ion binding]; other site 640511013874 AsnC family; Region: AsnC_trans_reg; pfam01037 640511013875 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 640511013876 tartrate dehydrogenase; Region: TTC; TIGR02089 640511013877 succinic semialdehyde dehydrogenase; Region: PLN02278 640511013878 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 640511013879 tetramerization interface [polypeptide binding]; other site 640511013880 NAD(P) binding site [chemical binding]; other site 640511013881 catalytic residues [active] 640511013882 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_7; cd06910 640511013883 putative active site [active] 640511013884 Zn binding site [ion binding]; other site 640511013885 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 640511013886 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 640511013887 tetramer interface [polypeptide binding]; other site 640511013888 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511013889 catalytic residue [active] 640511013890 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 640511013891 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 640511013892 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 640511013893 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 640511013894 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511013895 DNA-binding site [nucleotide binding]; DNA binding site 640511013896 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 640511013897 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511013898 homodimer interface [polypeptide binding]; other site 640511013899 catalytic residue [active] 640511013900 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 640511013901 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 640511013902 inhibitor-cofactor binding pocket; inhibition site 640511013903 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511013904 catalytic residue [active] 640511013905 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 640511013906 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_Arsenic_SBP_like; cd06330 640511013907 putative ligand binding site [chemical binding]; other site 640511013908 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 640511013909 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 640511013910 Walker A/P-loop; other site 640511013911 ATP binding site [chemical binding]; other site 640511013912 Q-loop/lid; other site 640511013913 ABC transporter signature motif; other site 640511013914 Walker B; other site 640511013915 D-loop; other site 640511013916 H-loop/switch region; other site 640511013917 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 640511013918 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 640511013919 Walker A/P-loop; other site 640511013920 ATP binding site [chemical binding]; other site 640511013921 Q-loop/lid; other site 640511013922 ABC transporter signature motif; other site 640511013923 Walker B; other site 640511013924 D-loop; other site 640511013925 H-loop/switch region; other site 640511013926 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640511013927 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 640511013928 TM-ABC transporter signature motif; other site 640511013929 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 640511013930 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 640511013931 TM-ABC transporter signature motif; other site 640511013932 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 640511013933 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 640511013934 4-carboxymuconolactone decarboxylase; Region: decarb_PcaC; TIGR02425 640511013935 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 640511013936 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK09053 640511013937 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 640511013938 tetramer interface [polypeptide binding]; other site 640511013939 active site 640511013940 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 640511013941 3-oxoacid CoA-transferase, A subunit; Region: pcaI_scoA_fam; TIGR02429 640511013942 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511013943 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511013944 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 640511013945 substrate binding pocket [chemical binding]; other site 640511013946 dimerization interface [polypeptide binding]; other site 640511013947 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 640511013948 GTP cyclohydrolase I; Provisional; Region: PLN03044 640511013949 active site 640511013950 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 640511013951 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 640511013952 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 640511013953 active site residue [active] 640511013954 Cache domain; Region: Cache_1; pfam02743 640511013955 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640511013956 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640511013957 metal binding site [ion binding]; metal-binding site 640511013958 active site 640511013959 I-site; other site 640511013960 CHAD domain; Region: CHAD; pfam05235 640511013961 Lin1944 and related proteins, classical (c) SDRs; Region: Lin1944_like_SDR_c; cd11731 640511013962 putative NAD(P) binding site [chemical binding]; other site 640511013963 homodimer interface [polypeptide binding]; other site 640511013964 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 640511013965 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 640511013966 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 640511013967 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 640511013968 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640511013969 active site 640511013970 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 640511013971 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 640511013972 protein binding site [polypeptide binding]; other site 640511013973 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511013974 putative transporter; Provisional; Region: PRK10504 640511013975 putative substrate translocation pore; other site 640511013976 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511013977 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 640511013978 active site 640511013979 metal-binding site 640511013980 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 640511013981 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 640511013982 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 640511013983 CRISPR-associated protein, TIGR03984 family; Region: TIGR03984 640511013984 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 640511013985 serine O-acetyltransferase; Region: cysE; TIGR01172 640511013986 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 640511013987 trimer interface [polypeptide binding]; other site 640511013988 active site 640511013989 substrate binding site [chemical binding]; other site 640511013990 CoA binding site [chemical binding]; other site 640511013991 Transcriptional activator HlyU; Region: HlyU; cl02273 640511013992 Protein of unknown function (DUF3005); Region: DUF3005; pfam11448 640511013993 short chain dehydrogenase; Provisional; Region: PRK12827 640511013994 Lin1944 and related proteins, classical (c) SDRs; Region: Lin1944_like_SDR_c; cd11731 640511013995 putative NAD(P) binding site [chemical binding]; other site 640511013996 homodimer interface [polypeptide binding]; other site 640511013997 dihydroxy-acid dehydratase; Validated; Region: PRK06131 640511013998 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 640511013999 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511014000 dimer interface [polypeptide binding]; other site 640511014001 conserved gate region; other site 640511014002 putative PBP binding loops; other site 640511014003 ABC-ATPase subunit interface; other site 640511014004 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 640511014005 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511014006 dimer interface [polypeptide binding]; other site 640511014007 conserved gate region; other site 640511014008 putative PBP binding loops; other site 640511014009 ABC-ATPase subunit interface; other site 640511014010 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 640511014011 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640511014012 Walker A/P-loop; other site 640511014013 ATP binding site [chemical binding]; other site 640511014014 Q-loop/lid; other site 640511014015 ABC transporter signature motif; other site 640511014016 Walker B; other site 640511014017 D-loop; other site 640511014018 H-loop/switch region; other site 640511014019 TOBE domain; Region: TOBE; pfam03459 640511014020 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 640511014021 hypothetical protein; Provisional; Region: PRK11622 640511014022 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 640511014023 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 640511014024 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 640511014025 inhibitor site; inhibition site 640511014026 active site 640511014027 dimer interface [polypeptide binding]; other site 640511014028 catalytic residue [active] 640511014029 Autoinducer binding domain; Region: Autoind_bind; pfam03472 640511014030 LuxR family transcriptional regulatory, chaperone HchA-associated; Region: reg_near_HchA; TIGR03541 640511014031 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 640511014032 DNA binding residues [nucleotide binding] 640511014033 dimerization interface [polypeptide binding]; other site 640511014034 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 640511014035 non-specific DNA binding site [nucleotide binding]; other site 640511014036 salt bridge; other site 640511014037 sequence-specific DNA binding site [nucleotide binding]; other site 640511014038 Autoinducer synthetase; Region: Autoind_synth; cl17404 640511014039 Transcriptional regulators [Transcription]; Region: FadR; COG2186 640511014040 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511014041 DNA-binding site [nucleotide binding]; DNA binding site 640511014042 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 640511014043 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 640511014044 Ligand Binding Site [chemical binding]; other site 640511014045 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 640511014046 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 640511014047 ligand binding site [chemical binding]; other site 640511014048 flexible hinge region; other site 640511014049 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 640511014050 putative switch regulator; other site 640511014051 non-specific DNA interactions [nucleotide binding]; other site 640511014052 DNA binding site [nucleotide binding] 640511014053 sequence specific DNA binding site [nucleotide binding]; other site 640511014054 putative cAMP binding site [chemical binding]; other site 640511014055 5-histidylcysteine sulfoxide synthase; Region: ovoA_Nterm; TIGR04344 640511014056 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 640511014057 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640511014058 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640511014059 Isochorismatase family; Region: Isochorismatase; pfam00857 640511014060 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 640511014061 catalytic triad [active] 640511014062 conserved cis-peptide bond; other site 640511014063 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 640511014064 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511014065 active site 640511014066 phosphorylation site [posttranslational modification] 640511014067 intermolecular recognition site; other site 640511014068 dimerization interface [polypeptide binding]; other site 640511014069 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 640511014070 DNA binding residues [nucleotide binding] 640511014071 dimerization interface [polypeptide binding]; other site 640511014072 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511014073 active site 640511014074 phosphorylation site [posttranslational modification] 640511014075 intermolecular recognition site; other site 640511014076 dimerization interface [polypeptide binding]; other site 640511014077 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 640511014078 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 640511014079 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 640511014080 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 640511014081 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 640511014082 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 640511014083 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 640511014084 IS2 transposase TnpB; Reviewed; Region: PRK09409 640511014085 HTH-like domain; Region: HTH_21; pfam13276 640511014086 Integrase core domain; Region: rve; pfam00665 640511014087 Integrase core domain; Region: rve_3; pfam13683 640511014088 Transposase; Region: HTH_Tnp_1; cl17663 640511014089 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 640511014090 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 640511014091 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511014092 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511014093 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 640511014094 putative effector binding pocket; other site 640511014095 dimerization interface [polypeptide binding]; other site 640511014096 short chain dehydrogenase; Provisional; Region: PRK06500 640511014097 classical (c) SDRs; Region: SDR_c; cd05233 640511014098 NAD(P) binding site [chemical binding]; other site 640511014099 active site 640511014100 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511014101 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511014102 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 640511014103 putative effector binding pocket; other site 640511014104 dimerization interface [polypeptide binding]; other site 640511014105 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 640511014106 Catalytic domain of Protein Kinases; Region: PKc; cd00180 640511014107 substrate binding site [chemical binding]; other site 640511014108 activation loop (A-loop); other site 640511014109 AAA ATPase domain; Region: AAA_16; pfam13191 640511014110 Predicted ATPase [General function prediction only]; Region: COG3899 640511014111 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 640511014112 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 640511014113 PAS domain S-box; Region: sensory_box; TIGR00229 640511014114 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 640511014115 putative active site [active] 640511014116 heme pocket [chemical binding]; other site 640511014117 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511014118 ATP binding site [chemical binding]; other site 640511014119 Mg2+ binding site [ion binding]; other site 640511014120 G-X-G motif; other site 640511014121 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 640511014122 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 640511014123 tetramer interface [polypeptide binding]; other site 640511014124 heme binding pocket [chemical binding]; other site 640511014125 NADPH binding site [chemical binding]; other site 640511014126 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511014127 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511014128 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 640511014129 dimerization interface [polypeptide binding]; other site 640511014130 Cupin domain; Region: Cupin_2; pfam07883 640511014131 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 640511014132 Uncharacterized conserved protein [Function unknown]; Region: COG2128 640511014133 Cytochrome c; Region: Cytochrom_C; cl11414 640511014134 Cytochrome c; Region: Cytochrom_C; cl11414 640511014135 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 640511014136 Putative D-pathway homolog; other site 640511014137 Low-spin heme binding site [chemical binding]; other site 640511014138 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 640511014139 Subunit I/II interface [polypeptide binding]; other site 640511014140 Putative Q-pathway; other site 640511014141 Putative alternate electron transfer pathway; other site 640511014142 Putative water exit pathway; other site 640511014143 Binuclear center (active site) [active] 640511014144 Putative K-pathway homolog; other site 640511014145 Putative proton exit pathway; other site 640511014146 Subunit I/IIa interface [polypeptide binding]; other site 640511014147 Electron transfer pathway; other site 640511014148 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 640511014149 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640511014150 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640511014151 Cytochrome c; Region: Cytochrom_C; pfam00034 640511014152 Cytochrome c; Region: Cytochrom_C; cl11414 640511014153 Cytochrome c; Region: Cytochrom_C; cl11414 640511014154 Isochorismatase family; Region: Isochorismatase; pfam00857 640511014155 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 640511014156 catalytic triad [active] 640511014157 conserved cis-peptide bond; other site 640511014158 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 640511014159 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511014160 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 640511014161 putative effector binding pocket; other site 640511014162 dimerization interface [polypeptide binding]; other site 640511014163 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 640511014164 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511014165 DNA-binding site [nucleotide binding]; DNA binding site 640511014166 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 640511014167 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511014168 homodimer interface [polypeptide binding]; other site 640511014169 catalytic residue [active] 640511014170 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 640511014171 classical (c) SDRs; Region: SDR_c; cd05233 640511014172 NAD(P) binding site [chemical binding]; other site 640511014173 active site 640511014174 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 640511014175 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511014176 active site 640511014177 phosphorylation site [posttranslational modification] 640511014178 intermolecular recognition site; other site 640511014179 dimerization interface [polypeptide binding]; other site 640511014180 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 640511014181 DNA binding residues [nucleotide binding] 640511014182 dimerization interface [polypeptide binding]; other site 640511014183 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511014184 Response regulator receiver domain; Region: Response_reg; pfam00072 640511014185 active site 640511014186 phosphorylation site [posttranslational modification] 640511014187 intermolecular recognition site; other site 640511014188 dimerization interface [polypeptide binding]; other site 640511014189 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 640511014190 substrate binding site [chemical binding]; other site 640511014191 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 640511014192 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 640511014193 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 640511014194 MEKHLA domain; Region: MEKHLA; pfam08670 640511014195 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 640511014196 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511014197 NADH(P)-binding; Region: NAD_binding_10; pfam13460 640511014198 NAD(P) binding site [chemical binding]; other site 640511014199 active site 640511014200 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 640511014201 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640511014202 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640511014203 metal binding site [ion binding]; metal-binding site 640511014204 active site 640511014205 I-site; other site 640511014206 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 640511014207 CHRD domain; Region: CHRD; pfam07452 640511014208 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640511014209 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640511014210 metal binding site [ion binding]; metal-binding site 640511014211 active site 640511014212 I-site; other site 640511014213 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 640511014214 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 640511014215 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 640511014216 dimerization interface [polypeptide binding]; other site 640511014217 ligand binding site [chemical binding]; other site 640511014218 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_24; cd04683 640511014219 nudix motif; other site 640511014220 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 640511014221 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 640511014222 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 640511014223 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640511014224 ligand binding site [chemical binding]; other site 640511014225 Leucine rich repeat; Region: LRR_8; pfam13855 640511014226 Protein kinase; unclassified specificity; Region: STYKc; smart00221 640511014227 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 640511014228 active site 640511014229 ATP binding site [chemical binding]; other site 640511014230 substrate binding site [chemical binding]; other site 640511014231 activation loop (A-loop); other site 640511014232 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 640511014233 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 640511014234 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 640511014235 DNA binding site [nucleotide binding] 640511014236 active site 640511014237 allantoate amidohydrolase; Reviewed; Region: PRK12893 640511014238 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 640511014239 active site 640511014240 metal binding site [ion binding]; metal-binding site 640511014241 dimer interface [polypeptide binding]; other site 640511014242 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 640511014243 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511014244 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 640511014245 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 640511014246 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 640511014247 dimerization interface [polypeptide binding]; other site 640511014248 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640511014249 dimer interface [polypeptide binding]; other site 640511014250 putative CheW interface [polypeptide binding]; other site 640511014251 Transcriptional regulators [Transcription]; Region: MarR; COG1846 640511014252 MarR family; Region: MarR_2; cl17246 640511014253 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640511014254 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 640511014255 trimer interface [polypeptide binding]; other site 640511014256 eyelet of channel; other site 640511014257 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 640511014258 putative transporter; Provisional; Region: PRK10504 640511014259 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511014260 putative substrate translocation pore; other site 640511014261 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 640511014262 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 640511014263 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 640511014264 G2 box; other site 640511014265 Switch I region; other site 640511014266 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640511014267 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 640511014268 trimer interface [polypeptide binding]; other site 640511014269 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640511014270 eyelet of channel; other site 640511014271 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 640511014272 Muconate lactonizing enzyme (MLE) like subgroup of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and residues that can...; Region: MLE_like; cd03315 640511014273 active site 640511014274 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511014275 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640511014276 putative substrate translocation pore; other site 640511014277 hypothetical protein; Validated; Region: PRK07121 640511014278 Predicted oxidoreductase [General function prediction only]; Region: COG3573 640511014279 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 640511014280 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 640511014281 iron-sulfur cluster [ion binding]; other site 640511014282 [2Fe-2S] cluster binding site [ion binding]; other site 640511014283 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 640511014284 alpha subunit interface [polypeptide binding]; other site 640511014285 active site 640511014286 substrate binding site [chemical binding]; other site 640511014287 Fe binding site [ion binding]; other site 640511014288 Amidohydrolase; Region: Amidohydro_2; pfam04909 640511014289 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 640511014290 active site 640511014291 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 640511014292 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 640511014293 NAD(P) binding site [chemical binding]; other site 640511014294 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 640511014295 Amidohydrolase; Region: Amidohydro_2; pfam04909 640511014296 active site 640511014297 Rieske non-heme iron oxygenase (RO) family, Phthalate 4,5-dioxygenase (PhDO)-like subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; composed of the oxygenase alpha subunits of PhDO and similar proteins including 3-chlorobenzoate 3; Region: Rieske_RO_Alpha_PhDO_like; cd03479 640511014298 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 640511014299 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 640511014300 alpha subunit interface [polypeptide binding]; other site 640511014301 active site 640511014302 substrate binding site [chemical binding]; other site 640511014303 Fe binding site [ion binding]; other site 640511014304 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 640511014305 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640511014306 active site 640511014307 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 640511014308 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 640511014309 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 640511014310 FMN-binding pocket [chemical binding]; other site 640511014311 flavin binding motif; other site 640511014312 phosphate binding motif [ion binding]; other site 640511014313 beta-alpha-beta structure motif; other site 640511014314 NAD binding pocket [chemical binding]; other site 640511014315 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 640511014316 catalytic loop [active] 640511014317 iron binding site [ion binding]; other site 640511014318 Amidohydrolase; Region: Amidohydro_2; pfam04909 640511014319 Subunit B of the Class III Extradiol ring-cleavage dioxygenase, 3-O-Methylgallate Dioxygenase, which catalyzes the oxidization and subsequent ring-opening of 3-O-Methylgallate; Region: 3MGA_Dioxygenase; cd07366 640511014320 putative active site [active] 640511014321 putative Fe(II) binding site [ion binding]; other site 640511014322 putative dimer interface [polypeptide binding]; other site 640511014323 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 640511014324 putative tetramer interface [polypeptide binding]; other site 640511014325 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 640511014326 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 640511014327 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 640511014328 hypothetical protein; Validated; Region: PRK06201 640511014329 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 640511014330 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 640511014331 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511014332 DNA-binding site [nucleotide binding]; DNA binding site 640511014333 FCD domain; Region: FCD; pfam07729 640511014334 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 640511014335 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640511014336 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 640511014337 trimer interface [polypeptide binding]; other site 640511014338 eyelet of channel; other site 640511014339 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511014340 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640511014341 putative substrate translocation pore; other site 640511014342 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511014343 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 640511014344 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 640511014345 Probable beta-xylosidase; Provisional; Region: PLN03080 640511014346 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 640511014347 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 640511014348 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 640511014349 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 640511014350 active site 640511014351 tetramer interface [polypeptide binding]; other site 640511014352 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511014353 D-galactonate transporter; Region: 2A0114; TIGR00893 640511014354 putative substrate translocation pore; other site 640511014355 Transcriptional regulators [Transcription]; Region: FadR; COG2186 640511014356 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511014357 DNA-binding site [nucleotide binding]; DNA binding site 640511014358 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 640511014359 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 640511014360 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 640511014361 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511014362 D-galactonate transporter; Region: 2A0114; TIGR00893 640511014363 putative substrate translocation pore; other site 640511014364 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640511014365 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640511014366 DNA binding site [nucleotide binding] 640511014367 domain linker motif; other site 640511014368 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 640511014369 dimerization interface [polypeptide binding]; other site 640511014370 ligand binding site [chemical binding]; other site 640511014371 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 640511014372 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 640511014373 putative 3-hydroxyphenylpropionic transporter MhpT; Provisional; Region: PRK11551 640511014374 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511014375 putative substrate translocation pore; other site 640511014376 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 640511014377 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 640511014378 active site 640511014379 catalytic residues [active] 640511014380 metal binding site [ion binding]; metal-binding site 640511014381 DmpG-like communication domain; Region: DmpG_comm; pfam07836 640511014382 acetaldehyde dehydrogenase; Validated; Region: PRK08300 640511014383 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 640511014384 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 640511014385 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 640511014386 3-(2,3-dihydroxyphenyl)propionate dioxygenase; Provisional; Region: mhpB; PRK13370 640511014387 active site 640511014388 metal binding site [ion binding]; metal-binding site 640511014389 FAD binding domain; Region: FAD_binding_3; pfam01494 640511014390 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 640511014391 DNA-binding transcriptional activator MhpR; Provisional; Region: PRK09834 640511014392 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 640511014393 Bacterial transcriptional regulator; Region: IclR; pfam01614 640511014394 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 640511014395 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 640511014396 NMT1/THI5 like; Region: NMT1; pfam09084 640511014397 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 640511014398 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640511014399 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 640511014400 dimer interface [polypeptide binding]; other site 640511014401 phosphorylation site [posttranslational modification] 640511014402 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511014403 ATP binding site [chemical binding]; other site 640511014404 Mg2+ binding site [ion binding]; other site 640511014405 G-X-G motif; other site 640511014406 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 640511014407 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511014408 active site 640511014409 phosphorylation site [posttranslational modification] 640511014410 intermolecular recognition site; other site 640511014411 dimerization interface [polypeptide binding]; other site 640511014412 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 640511014413 DNA binding site [nucleotide binding] 640511014414 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 640511014415 NMT1/THI5 like; Region: NMT1; pfam09084 640511014416 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 640511014417 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 640511014418 Walker A/P-loop; other site 640511014419 ATP binding site [chemical binding]; other site 640511014420 Q-loop/lid; other site 640511014421 ABC transporter signature motif; other site 640511014422 Walker B; other site 640511014423 D-loop; other site 640511014424 H-loop/switch region; other site 640511014425 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 640511014426 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511014427 dimer interface [polypeptide binding]; other site 640511014428 conserved gate region; other site 640511014429 putative PBP binding loops; other site 640511014430 ABC-ATPase subunit interface; other site 640511014431 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 640511014432 binding surface 640511014433 TPR motif; other site 640511014434 TPR repeat; Region: TPR_11; pfam13414 640511014435 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 640511014436 binding surface 640511014437 TPR motif; other site 640511014438 Tetratricopeptide repeat; Region: TPR_16; pfam13432 640511014439 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 640511014440 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 640511014441 Phosphoesterase family; Region: Phosphoesterase; pfam04185 640511014442 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640511014443 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 640511014444 active site lid residues [active] 640511014445 substrate binding pocket [chemical binding]; other site 640511014446 catalytic residues [active] 640511014447 substrate-Mg2+ binding site; other site 640511014448 aspartate-rich region 1; other site 640511014449 aspartate-rich region 2; other site 640511014450 circadian clock protein KaiC; Reviewed; Region: PRK09302 640511014451 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 640511014452 ATP binding site [chemical binding]; other site 640511014453 Walker A motif; other site 640511014454 Walker B motif; other site 640511014455 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 640511014456 Walker A motif; other site 640511014457 ATP binding site [chemical binding]; other site 640511014458 Walker B motif; other site 640511014459 Response regulator receiver domain; Region: Response_reg; pfam00072 640511014460 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511014461 active site 640511014462 phosphorylation site [posttranslational modification] 640511014463 intermolecular recognition site; other site 640511014464 dimerization interface [polypeptide binding]; other site 640511014465 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes TehA protein; Region: TDT_TehA; cd09324 640511014466 gating phenylalanine in ion channel; other site 640511014467 Predicted membrane protein [Function unknown]; Region: COG3918 640511014468 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640511014469 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511014470 The C-terminal substrate-binding domain of LysR-type trnascriptional regulator BlaA which involved in control of the beta-lactamase gene expression; contains the type 2 periplasmic binding fold; Region: PBP2_BlaA; cd08487 640511014471 putative dimerization interface [polypeptide binding]; other site 640511014472 putative substrate binding pocket [chemical binding]; other site 640511014473 Lecithin retinol acyltransferase; Region: LRAT; pfam04970 640511014474 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 640511014475 active site 640511014476 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 640511014477 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 640511014478 Walker A motif; other site 640511014479 ATP binding site [chemical binding]; other site 640511014480 Walker B motif; other site 640511014481 arginine finger; other site 640511014482 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 640511014483 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 640511014484 ligand binding site [chemical binding]; other site 640511014485 flexible hinge region; other site 640511014486 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 640511014487 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 640511014488 ligand binding site [chemical binding]; other site 640511014489 flexible hinge region; other site 640511014490 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39B; cd02418 640511014491 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 640511014492 putative active site [active] 640511014493 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 640511014494 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640511014495 Walker A/P-loop; other site 640511014496 ATP binding site [chemical binding]; other site 640511014497 Q-loop/lid; other site 640511014498 ABC transporter signature motif; other site 640511014499 Walker B; other site 640511014500 D-loop; other site 640511014501 H-loop/switch region; other site 640511014502 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 640511014503 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 640511014504 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 640511014505 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640511014506 HlyD family secretion protein; Region: HlyD_3; pfam13437 640511014507 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 640511014508 phosphopeptide binding site; other site 640511014509 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 640511014510 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 640511014511 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 640511014512 phosphopeptide binding site; other site 640511014513 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640511014514 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 640511014515 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 640511014516 Caspase domain; Region: Peptidase_C14; pfam00656 640511014517 Uncharacterized conserved protein [Function unknown]; Region: COG1262 640511014518 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 640511014519 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 640511014520 Catalytic domain of Protein Kinases; Region: PKc; cd00180 640511014521 active site 640511014522 ATP binding site [chemical binding]; other site 640511014523 substrate binding site [chemical binding]; other site 640511014524 activation loop (A-loop); other site 640511014525 Domain of unknown function (DUF4384); Region: DUF4384; pfam14326 640511014526 Protein of unknown function (DUF3309); Region: DUF3309; pfam11752 640511014527 glucose-1-dehydrogenase; Provisional; Region: PRK08936 640511014528 glucose 1 dehydrogenase (GlcDH), classical (c) SDRs; Region: GlcDH_SDR_c; cd05358 640511014529 NAD binding site [chemical binding]; other site 640511014530 homodimer interface [polypeptide binding]; other site 640511014531 active site 640511014532 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 640511014533 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 640511014534 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 640511014535 putative DNA binding site [nucleotide binding]; other site 640511014536 putative Zn2+ binding site [ion binding]; other site 640511014537 AsnC family; Region: AsnC_trans_reg; pfam01037 640511014538 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640511014539 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 640511014540 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640511014541 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640511014542 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 640511014543 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 640511014544 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 640511014545 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 640511014546 TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA...; Region: TlpA_like_DipZ_like; cd03012 640511014547 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 640511014548 catalytic residues [active] 640511014549 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 640511014550 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 640511014551 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_A; cd01299 640511014552 active site 640511014553 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 640511014554 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 640511014555 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 640511014556 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 640511014557 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 640511014558 Peptidase family M23; Region: Peptidase_M23; pfam01551 640511014559 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 640511014560 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 640511014561 non-specific DNA binding site [nucleotide binding]; other site 640511014562 salt bridge; other site 640511014563 sequence-specific DNA binding site [nucleotide binding]; other site 640511014564 Cupin domain; Region: Cupin_2; cl17218 640511014565 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640511014566 Coenzyme A binding pocket [chemical binding]; other site 640511014567 MarR family; Region: MarR_2; pfam12802 640511014568 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 640511014569 Predicted membrane protein [Function unknown]; Region: COG2860 640511014570 UPF0126 domain; Region: UPF0126; pfam03458 640511014571 UPF0126 domain; Region: UPF0126; pfam03458 640511014572 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 640511014573 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 640511014574 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 640511014575 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 640511014576 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 640511014577 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 640511014578 ATP binding site [chemical binding]; other site 640511014579 Walker A motif; other site 640511014580 hexamer interface [polypeptide binding]; other site 640511014581 Walker B motif; other site 640511014582 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 640511014583 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 640511014584 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 640511014585 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 640511014586 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 640511014587 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 640511014588 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 640511014589 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 640511014590 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 640511014591 Flp/Fap pilin component; Region: Flp_Fap; cl01585 640511014592 Flp/Fap pilin component; Region: Flp_Fap; cl01585 640511014593 Flp/Fap pilin component; Region: Flp_Fap; cl01585 640511014594 Protein of unknown function (DUF2029); Region: DUF2029; pfam09594 640511014595 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 640511014596 Ligand binding site; other site 640511014597 Putative Catalytic site; other site 640511014598 DXD motif; other site 640511014599 Methyltransferase domain; Region: Methyltransf_23; pfam13489 640511014600 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 640511014601 S-adenosylmethionine binding site [chemical binding]; other site 640511014602 GtrA-like protein; Region: GtrA; pfam04138 640511014603 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 640511014604 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 640511014605 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 640511014606 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 640511014607 putative active site [active] 640511014608 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 640511014609 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 640511014610 Walker A/P-loop; other site 640511014611 ATP binding site [chemical binding]; other site 640511014612 Q-loop/lid; other site 640511014613 ABC transporter signature motif; other site 640511014614 Walker B; other site 640511014615 D-loop; other site 640511014616 H-loop/switch region; other site 640511014617 TOBE domain; Region: TOBE_2; pfam08402 640511014618 short chain dehydrogenase; Provisional; Region: PRK07074 640511014619 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511014620 NAD(P) binding site [chemical binding]; other site 640511014621 active site 640511014622 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 640511014623 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 640511014624 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 640511014625 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511014626 dimer interface [polypeptide binding]; other site 640511014627 conserved gate region; other site 640511014628 putative PBP binding loops; other site 640511014629 ABC-ATPase subunit interface; other site 640511014630 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 640511014631 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511014632 dimer interface [polypeptide binding]; other site 640511014633 conserved gate region; other site 640511014634 putative PBP binding loops; other site 640511014635 ABC-ATPase subunit interface; other site 640511014636 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 640511014637 Predicted amidohydrolase [General function prediction only]; Region: COG0388 640511014638 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 640511014639 active site 640511014640 catalytic triad [active] 640511014641 dimer interface [polypeptide binding]; other site 640511014642 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 640511014643 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511014644 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 640511014645 dimerization interface [polypeptide binding]; other site 640511014646 substrate binding pocket [chemical binding]; other site 640511014647 Uncharacterized conserved protein [Function unknown]; Region: COG3391 640511014648 NHL repeat; Region: NHL; pfam01436 640511014649 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640511014650 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640511014651 metal binding site [ion binding]; metal-binding site 640511014652 active site 640511014653 I-site; other site 640511014654 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 640511014655 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 640511014656 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640511014657 putative ligand binding site [chemical binding]; other site 640511014658 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640511014659 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 640511014660 TM-ABC transporter signature motif; other site 640511014661 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 640511014662 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 640511014663 Walker A/P-loop; other site 640511014664 ATP binding site [chemical binding]; other site 640511014665 Q-loop/lid; other site 640511014666 ABC transporter signature motif; other site 640511014667 Walker B; other site 640511014668 D-loop; other site 640511014669 H-loop/switch region; other site 640511014670 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 640511014671 Transcriptional regulators [Transcription]; Region: GntR; COG1802 640511014672 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511014673 DNA-binding site [nucleotide binding]; DNA binding site 640511014674 FCD domain; Region: FCD; pfam07729 640511014675 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 640511014676 Human rTS beta is encoded by the rTS gene which, through alternative RNA splicing, also encodes rTS alpha whose mRNA is complementary to thymidylate synthase mRNA. rTS beta expression is associated with the production of small molecules that appear to...; Region: rTSbeta_L-fuconate_dehydratase; cd03324 640511014677 putative active site pocket [active] 640511014678 metal binding site [ion binding]; metal-binding site 640511014679 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640511014680 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511014681 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 640511014682 dimerization interface [polypeptide binding]; other site 640511014683 substrate binding pocket [chemical binding]; other site 640511014684 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 640511014685 homotrimer interaction site [polypeptide binding]; other site 640511014686 putative active site [active] 640511014687 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 640511014688 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 640511014689 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640511014690 catalytic residue [active] 640511014691 D-cysteine desulfhydrase; Validated; Region: PRK03910 640511014692 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 640511014693 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640511014694 catalytic residue [active] 640511014695 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 640511014696 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 640511014697 Predicted membrane protein (DUF2231); Region: DUF2231; pfam09990 640511014698 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 640511014699 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 640511014700 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 640511014701 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 640511014702 D-pathway; other site 640511014703 Putative ubiquinol binding site [chemical binding]; other site 640511014704 Low-spin heme (heme b) binding site [chemical binding]; other site 640511014705 Putative water exit pathway; other site 640511014706 Binuclear center (heme o3/CuB) [ion binding]; other site 640511014707 K-pathway; other site 640511014708 Putative proton exit pathway; other site 640511014709 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]; Region: COG4700 640511014710 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 640511014711 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511014712 metabolite-proton symporter; Region: 2A0106; TIGR00883 640511014713 putative substrate translocation pore; other site 640511014714 esterase, PHB depolymerase family; Region: esterase_phb; TIGR01840 640511014715 esterase, PHB depolymerase family; Region: esterase_phb; TIGR01840 640511014716 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 640511014717 amine acid ABC transporter, permease protein, 3-TM region, His/Glu/Gln/Arg/opine family; Region: HEQRo_perm_3TM; TIGR01726 640511014718 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511014719 putative PBP binding loops; other site 640511014720 dimer interface [polypeptide binding]; other site 640511014721 ABC-ATPase subunit interface; other site 640511014722 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640511014723 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511014724 dimer interface [polypeptide binding]; other site 640511014725 conserved gate region; other site 640511014726 putative PBP binding loops; other site 640511014727 ABC-ATPase subunit interface; other site 640511014728 ectoine/hydroxyectoine ABC transporter solute-binding protein; Region: ectoine_ehuB; TIGR02995 640511014729 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 640511014730 substrate binding pocket [chemical binding]; other site 640511014731 membrane-bound complex binding site; other site 640511014732 hinge residues; other site 640511014733 ectoine/hydroxyectoine ABC transporter, ATP-binding protein; Region: ectoine_ehuA; TIGR03005 640511014734 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640511014735 Walker A/P-loop; other site 640511014736 ATP binding site [chemical binding]; other site 640511014737 Q-loop/lid; other site 640511014738 ABC transporter signature motif; other site 640511014739 Walker B; other site 640511014740 D-loop; other site 640511014741 H-loop/switch region; other site 640511014742 ectoine utilization protein EutD; Region: ectoine_eutD; TIGR02993 640511014743 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 640511014744 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 640511014745 active site 640511014746 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR9; cd08274 640511014747 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 640511014748 putative NAD(P) binding site [chemical binding]; other site 640511014749 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 640511014750 catalytic residue [active] 640511014751 hypothetical protein; Provisional; Region: PRK07482 640511014752 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 640511014753 inhibitor-cofactor binding pocket; inhibition site 640511014754 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511014755 catalytic residue [active] 640511014756 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 640511014757 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640511014758 tetramerization interface [polypeptide binding]; other site 640511014759 NAD(P) binding site [chemical binding]; other site 640511014760 catalytic residues [active] 640511014761 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 640511014762 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 640511014763 putative DNA binding site [nucleotide binding]; other site 640511014764 putative Zn2+ binding site [ion binding]; other site 640511014765 AsnC family; Region: AsnC_trans_reg; pfam01037 640511014766 ectoine utilization protein EutE; Region: ectoine_eutE; TIGR02994 640511014767 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_2; cd06252 640511014768 putative active site [active] 640511014769 Zn binding site [ion binding]; other site 640511014770 ectoine utilization protein EutC; Validated; Region: PRK08291 640511014771 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 640511014772 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 640511014773 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 640511014774 tetramer interface [polypeptide binding]; other site 640511014775 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511014776 catalytic residue [active] 640511014777 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511014778 DNA-binding site [nucleotide binding]; DNA binding site 640511014779 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 640511014780 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 640511014781 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511014782 homodimer interface [polypeptide binding]; other site 640511014783 catalytic residue [active] 640511014784 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 640511014785 Chromate transporter; Region: Chromate_transp; pfam02417 640511014786 Chromate transporter; Region: Chromate_transp; pfam02417 640511014787 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640511014788 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 640511014789 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 640511014790 Protein export membrane protein; Region: SecD_SecF; cl14618 640511014791 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 640511014792 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640511014793 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 640511014794 Response regulator receiver domain; Region: Response_reg; pfam00072 640511014795 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511014796 active site 640511014797 phosphorylation site [posttranslational modification] 640511014798 intermolecular recognition site; other site 640511014799 dimerization interface [polypeptide binding]; other site 640511014800 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511014801 active site 640511014802 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640511014803 phosphorylation site [posttranslational modification] 640511014804 intermolecular recognition site; other site 640511014805 dimerization interface [polypeptide binding]; other site 640511014806 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 640511014807 dimer interface [polypeptide binding]; other site 640511014808 phosphorylation site [posttranslational modification] 640511014809 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511014810 ATP binding site [chemical binding]; other site 640511014811 G-X-G motif; other site 640511014812 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 640511014813 dimer interface [polypeptide binding]; other site 640511014814 phosphorylation site [posttranslational modification] 640511014815 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511014816 ATP binding site [chemical binding]; other site 640511014817 Mg2+ binding site [ion binding]; other site 640511014818 G-X-G motif; other site 640511014819 Methyltransferase domain; Region: Methyltransf_25; pfam13649 640511014820 Protein of unknown function (DUF2000); Region: DUF2000; pfam09391 640511014821 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 640511014822 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511014823 Helix-turn-helix domain; Region: HTH_18; pfam12833 640511014824 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511014825 Isochorismatase family; Region: Isochorismatase; pfam00857 640511014826 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 640511014827 catalytic triad [active] 640511014828 conserved cis-peptide bond; other site 640511014829 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 640511014830 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 640511014831 active site 640511014832 catalytic tetrad [active] 640511014833 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511014834 putative substrate translocation pore; other site 640511014835 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511014836 hypothetical protein; Provisional; Region: PRK05939 640511014837 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 640511014838 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640511014839 catalytic residue [active] 640511014840 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 640511014841 nudix motif; other site 640511014842 CHAD domain; Region: CHAD; pfam05235 640511014843 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 640511014844 putative DNA binding site [nucleotide binding]; other site 640511014845 putative Zn2+ binding site [ion binding]; other site 640511014846 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 640511014847 short chain dehydrogenase; Provisional; Region: PRK12939 640511014848 classical (c) SDRs; Region: SDR_c; cd05233 640511014849 NAD(P) binding site [chemical binding]; other site 640511014850 active site 640511014851 Domain of unknown function DUF302; Region: DUF302; pfam03625 640511014852 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 640511014853 putative heme binding pocket [chemical binding]; other site 640511014854 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511014855 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640511014856 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511014857 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 640511014858 Autotransporter beta-domain; Region: Autotransporter; smart00869 640511014859 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511014860 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511014861 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 640511014862 dimerization interface [polypeptide binding]; other site 640511014863 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 640511014864 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 640511014865 NADP binding site [chemical binding]; other site 640511014866 dimer interface [polypeptide binding]; other site 640511014867 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 640511014868 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 640511014869 Coenzyme A binding pocket [chemical binding]; other site 640511014870 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 640511014871 Endonuclease related to archaeal Holliday junction resolvase; Region: Endonuc_Holl; cl01958 640511014872 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 640511014873 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 640511014874 DNA binding site [nucleotide binding] 640511014875 Predicted ATPase [General function prediction only]; Region: COG3903 640511014876 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 640511014877 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 640511014878 Predicted membrane protein [Function unknown]; Region: COG2259 640511014879 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 640511014880 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 640511014881 active site 640511014882 Protein of unknown function (DUF1427); Region: DUF1427; pfam07235 640511014883 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 640511014884 Isochorismatase family; Region: Isochorismatase; pfam00857 640511014885 catalytic triad [active] 640511014886 dimer interface [polypeptide binding]; other site 640511014887 conserved cis-peptide bond; other site 640511014888 Protein of unknown function (DUF1427); Region: DUF1427; pfam07235 640511014889 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 640511014890 Pirin-related protein [General function prediction only]; Region: COG1741 640511014891 Pirin; Region: Pirin; pfam02678 640511014892 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 640511014893 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 640511014894 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 640511014895 ligand binding site [chemical binding]; other site 640511014896 flexible hinge region; other site 640511014897 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 640511014898 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 640511014899 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640511014900 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511014901 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511014902 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 640511014903 dimerization interface [polypeptide binding]; other site 640511014904 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 640511014905 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 640511014906 DNA binding site [nucleotide binding] 640511014907 Predicted ATPase [General function prediction only]; Region: COG3903 640511014908 Cupin domain; Region: Cupin_2; cl17218 640511014909 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640511014910 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511014911 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 640511014912 putative effector binding pocket; other site 640511014913 dimerization interface [polypeptide binding]; other site 640511014914 short chain dehydrogenase; Provisional; Region: PRK06500 640511014915 classical (c) SDRs; Region: SDR_c; cd05233 640511014916 NAD(P) binding site [chemical binding]; other site 640511014917 active site 640511014918 Pirin-related protein [General function prediction only]; Region: COG1741 640511014919 Pirin; Region: Pirin; pfam02678 640511014920 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]; Region: COG4454 640511014921 TupA-like ATPgrasp; Region: ATPgrasp_TupA; pfam14305 640511014922 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 640511014923 S-adenosylmethionine binding site [chemical binding]; other site 640511014924 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 640511014925 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 640511014926 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640511014927 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 640511014928 DNA binding residues [nucleotide binding] 640511014929 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 640511014930 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 640511014931 substrate binding pocket [chemical binding]; other site 640511014932 membrane-bound complex binding site; other site 640511014933 hinge residues; other site 640511014934 TIGR03118 family protein; Region: PEPCTERM_chp_1 640511014935 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 640511014936 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511014937 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511014938 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 640511014939 substrate binding pocket [chemical binding]; other site 640511014940 dimerization interface [polypeptide binding]; other site 640511014941 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 640511014942 EamA-like transporter family; Region: EamA; pfam00892 640511014943 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 640511014944 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 640511014945 active site residue [active] 640511014946 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 640511014947 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 640511014948 dimer interface [polypeptide binding]; other site 640511014949 decamer (pentamer of dimers) interface [polypeptide binding]; other site 640511014950 catalytic triad [active] 640511014951 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 640511014952 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 640511014953 active site 640511014954 tetramer interface; other site 640511014955 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 640511014956 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 640511014957 dimer interface [polypeptide binding]; other site 640511014958 active site 640511014959 heme binding site [chemical binding]; other site 640511014960 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 640511014961 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 640511014962 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 640511014963 active site 640511014964 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 640511014965 Isochorismatase family; Region: Isochorismatase; pfam00857 640511014966 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 640511014967 catalytic triad [active] 640511014968 dimer interface [polypeptide binding]; other site 640511014969 conserved cis-peptide bond; other site 640511014970 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 640511014971 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 640511014972 DNA binding site [nucleotide binding] 640511014973 Predicted ATPase [General function prediction only]; Region: COG3903 640511014974 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640511014975 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511014976 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640511014977 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511014978 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 640511014979 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 640511014980 DNA binding site [nucleotide binding] 640511014981 AAA ATPase domain; Region: AAA_16; pfam13191 640511014982 Predicted ATPase [General function prediction only]; Region: COG3903 640511014983 Response regulator receiver domain; Region: Response_reg; pfam00072 640511014984 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511014985 active site 640511014986 phosphorylation site [posttranslational modification] 640511014987 intermolecular recognition site; other site 640511014988 dimerization interface [polypeptide binding]; other site 640511014989 response regulator FixJ; Provisional; Region: fixJ; PRK09390 640511014990 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511014991 active site 640511014992 phosphorylation site [posttranslational modification] 640511014993 intermolecular recognition site; other site 640511014994 dimerization interface [polypeptide binding]; other site 640511014995 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 640511014996 DNA binding residues [nucleotide binding] 640511014997 dimerization interface [polypeptide binding]; other site 640511014998 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 640511014999 substrate binding site [chemical binding]; other site 640511015000 activation loop (A-loop); other site 640511015001 AAA ATPase domain; Region: AAA_16; pfam13191 640511015002 Predicted ATPase [General function prediction only]; Region: COG3899 640511015003 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 640511015004 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 640511015005 PAS domain S-box; Region: sensory_box; TIGR00229 640511015006 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 640511015007 putative active site [active] 640511015008 heme pocket [chemical binding]; other site 640511015009 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 640511015010 dimer interface [polypeptide binding]; other site 640511015011 phosphorylation site [posttranslational modification] 640511015012 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511015013 ATP binding site [chemical binding]; other site 640511015014 Mg2+ binding site [ion binding]; other site 640511015015 G-X-G motif; other site 640511015016 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 640511015017 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 640511015018 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 640511015019 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 640511015020 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 640511015021 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 640511015022 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 640511015023 Protein of unknown function (DUF1427); Region: DUF1427; pfam07235 640511015024 DoxX; Region: DoxX; pfam07681 640511015025 Isochorismatase family; Region: Isochorismatase; pfam00857 640511015026 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 640511015027 catalytic triad [active] 640511015028 dimer interface [polypeptide binding]; other site 640511015029 conserved cis-peptide bond; other site 640511015030 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 640511015031 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 640511015032 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 640511015033 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511015034 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511015035 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 640511015036 putative effector binding pocket; other site 640511015037 dimerization interface [polypeptide binding]; other site 640511015038 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 640511015039 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511015040 putative substrate translocation pore; other site 640511015041 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 640511015042 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 640511015043 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 640511015044 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 640511015045 PAS domain S-box; Region: sensory_box; TIGR00229 640511015046 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 640511015047 putative active site [active] 640511015048 heme pocket [chemical binding]; other site 640511015049 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 640511015050 dimer interface [polypeptide binding]; other site 640511015051 phosphorylation site [posttranslational modification] 640511015052 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511015053 ATP binding site [chemical binding]; other site 640511015054 G-X-G motif; other site 640511015055 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 640511015056 substrate binding pocket [chemical binding]; other site 640511015057 membrane-bound complex binding site; other site 640511015058 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 640511015059 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 640511015060 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 640511015061 Moco binding site; other site 640511015062 metal coordination site [ion binding]; other site 640511015063 salicylyl-CoA 5-hydroxylase; Reviewed; Region: PRK08255 640511015064 hypothetical protein; Provisional; Region: PRK07236 640511015065 hypothetical protein; Provisional; Region: PRK07236 640511015066 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 640511015067 active site 640511015068 FMN binding site [chemical binding]; other site 640511015069 substrate binding site [chemical binding]; other site 640511015070 homotetramer interface [polypeptide binding]; other site 640511015071 catalytic residue [active] 640511015072 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640511015073 classical (c) SDRs; Region: SDR_c; cd05233 640511015074 NAD(P) binding site [chemical binding]; other site 640511015075 active site 640511015076 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640511015077 MarR family; Region: MarR; pfam01047 640511015078 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 640511015079 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 640511015080 substrate binding site [chemical binding]; other site 640511015081 oxyanion hole (OAH) forming residues; other site 640511015082 trimer interface [polypeptide binding]; other site 640511015083 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 640511015084 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640511015085 active site 640511015086 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 640511015087 active site 640511015088 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 640511015089 homotrimer interaction site [polypeptide binding]; other site 640511015090 putative active site [active] 640511015091 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 640511015092 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 640511015093 acyl-activating enzyme (AAE) consensus motif; other site 640511015094 AMP binding site [chemical binding]; other site 640511015095 active site 640511015096 CoA binding site [chemical binding]; other site 640511015097 Dienelactone hydrolase family; Region: DLH; pfam01738 640511015098 SnoaL-like domain; Region: SnoaL_2; pfam12680 640511015099 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511015100 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640511015101 putative substrate translocation pore; other site 640511015102 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511015103 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640511015104 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511015105 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 640511015106 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511015107 metabolite-proton symporter; Region: 2A0106; TIGR00883 640511015108 putative substrate translocation pore; other site 640511015109 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640511015110 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511015111 DNA gyrase inhibitor [DNA replication, recombination, and repair]; Region: COG3449 640511015112 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 640511015113 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640511015114 Coenzyme A binding pocket [chemical binding]; other site 640511015115 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 640511015116 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 640511015117 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511015118 DNA-binding site [nucleotide binding]; DNA binding site 640511015119 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 640511015120 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511015121 homodimer interface [polypeptide binding]; other site 640511015122 catalytic residue [active] 640511015123 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 640511015124 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 640511015125 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640511015126 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 640511015127 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640511015128 HlyD family secretion protein; Region: HlyD_3; pfam13437 640511015129 multidrug efflux protein; Reviewed; Region: PRK09579 640511015130 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 640511015131 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 640511015132 putative NAD(P) binding site [chemical binding]; other site 640511015133 Domain of unknown function (DUF4337); Region: DUF4337; pfam14235 640511015134 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 640511015135 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 640511015136 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640511015137 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 640511015138 YCII-related domain; Region: YCII; cl00999 640511015139 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 640511015140 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 640511015141 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640511015142 Coenzyme A binding pocket [chemical binding]; other site 640511015143 Dopa 4,5-dioxygenase family; Region: DOPA_dioxygen; pfam08883 640511015144 High potential iron-sulfur protein; Region: HIPIP; pfam01355 640511015145 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 640511015146 putative FMN binding site [chemical binding]; other site 640511015147 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 640511015148 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 640511015149 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 640511015150 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 640511015151 N-terminal plug; other site 640511015152 ligand-binding site [chemical binding]; other site 640511015153 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 640511015154 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 640511015155 active site 640511015156 catalytic tetrad [active] 640511015157 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 640511015158 substrate binding site [chemical binding]; other site 640511015159 Domain of unknown function (DUF4285); Region: DUF4285; pfam14113 640511015160 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 640511015161 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 640511015162 nucleotide binding site [chemical binding]; other site 640511015163 glucose-6-phosphate 1-dehydrogenase; Provisional; Region: PRK12853 640511015164 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 640511015165 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 640511015166 Mannosyl oligosaccharide glucosidase; Region: Glyco_hydro_63; pfam03200 640511015167 glycogen debranching enzyme, archaeal type, putative; Region: gde_arch; TIGR01561 640511015168 Glycogen debranching enzyme N terminal; Region: GDE_N; pfam12439 640511015169 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 640511015170 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 640511015171 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 640511015172 inhibitor site; inhibition site 640511015173 active site 640511015174 dimer interface [polypeptide binding]; other site 640511015175 catalytic residue [active] 640511015176 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 640511015177 Predicted deacylase [General function prediction only]; Region: COG3608 640511015178 active site 640511015179 Zn binding site [ion binding]; other site 640511015180 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 640511015181 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 640511015182 substrate binding pocket [chemical binding]; other site 640511015183 membrane-bound complex binding site; other site 640511015184 hinge residues; other site 640511015185 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 640511015186 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511015187 LysR substrate binding domain; Region: LysR_substrate; pfam03466 640511015188 dimerization interface [polypeptide binding]; other site 640511015189 diaminopimelate decarboxylase; Provisional; Region: PRK11165 640511015190 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 640511015191 active site 640511015192 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 640511015193 substrate binding site [chemical binding]; other site 640511015194 catalytic residues [active] 640511015195 dimer interface [polypeptide binding]; other site 640511015196 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 640511015197 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511015198 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 640511015199 dimerization interface [polypeptide binding]; other site 640511015200 short chain dehydrogenase; Provisional; Region: PRK06180 640511015201 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 640511015202 NADP binding site [chemical binding]; other site 640511015203 active site 640511015204 steroid binding site; other site 640511015205 Rubredoxin [Energy production and conversion]; Region: COG1773 640511015206 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 640511015207 iron binding site [ion binding]; other site 640511015208 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 640511015209 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 640511015210 [2Fe-2S] cluster binding site [ion binding]; other site 640511015211 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 640511015212 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 640511015213 DXD motif; other site 640511015214 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 640511015215 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 640511015216 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640511015217 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640511015218 glutathionine S-transferase; Provisional; Region: PRK10542 640511015219 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 640511015220 C-terminal domain interface [polypeptide binding]; other site 640511015221 GSH binding site (G-site) [chemical binding]; other site 640511015222 dimer interface [polypeptide binding]; other site 640511015223 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 640511015224 N-terminal domain interface [polypeptide binding]; other site 640511015225 dimer interface [polypeptide binding]; other site 640511015226 substrate binding pocket (H-site) [chemical binding]; other site 640511015227 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 640511015228 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511015229 putative substrate translocation pore; other site 640511015230 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511015231 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 640511015232 putative substrate translocation pore; other site 640511015233 short chain dehydrogenase; Provisional; Region: PRK07041 640511015234 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511015235 NAD(P) binding site [chemical binding]; other site 640511015236 active site 640511015237 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511015238 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511015239 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_2; cd08464 640511015240 putative substrate binding pocket [chemical binding]; other site 640511015241 putative dimerization interface [polypeptide binding]; other site 640511015242 Protein of unknown function (DUF3224); Region: DUF3224; pfam11528 640511015243 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511015244 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511015245 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 640511015246 dimerization interface [polypeptide binding]; other site 640511015247 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 640511015248 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511015249 putative substrate translocation pore; other site 640511015250 Uncharacterized conserved protein [Function unknown]; Region: COG5476 640511015251 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 640511015252 MlrC C-terminus; Region: MlrC_C; pfam07171 640511015253 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640511015254 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511015255 D-galactonate transporter; Region: 2A0114; TIGR00893 640511015256 putative substrate translocation pore; other site 640511015257 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 640511015258 tartrate dehydrogenase; Region: TTC; TIGR02089 640511015259 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511015260 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 640511015261 putative effector binding pocket; other site 640511015262 putative dimerization interface [polypeptide binding]; other site 640511015263 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 640511015264 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 640511015265 Protein of unknown function (DUF3562); Region: DUF3562; pfam12085 640511015266 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 640511015267 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640511015268 Coenzyme A binding pocket [chemical binding]; other site 640511015269 Phospholipase C [Cell envelope biogenesis, outer membrane]; Region: PlcC; COG3511 640511015270 acid phosphatase, Burkholderia-type; Region: acid_phos_Burk; TIGR03397 640511015271 Protein of unknown function (DUF3564); Region: DUF3564; pfam12087 640511015272 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cd00091 640511015273 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 640511015274 active site 640511015275 substrate binding site [chemical binding]; other site 640511015276 Mg2+ binding site [ion binding]; other site 640511015277 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the GGDEF (DiGuanylate-Cyclase (DGC)) domain. The GGDEF domain has been suggested to be homologous to the adenylyl cyclase catalytic domain and...; Region: CBS_pair_GGDEF_assoc; cd04598 640511015278 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 640511015279 Domain of unknown function (DUF1987); Region: DUF1987; pfam09345 640511015280 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640511015281 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640511015282 metal binding site [ion binding]; metal-binding site 640511015283 active site 640511015284 I-site; other site 640511015285 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640511015286 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640511015287 metal binding site [ion binding]; metal-binding site 640511015288 active site 640511015289 I-site; other site 640511015290 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 640511015291 Predicted membrane protein [Function unknown]; Region: COG4539 640511015292 Predicted permeases [General function prediction only]; Region: RarD; COG2962 640511015293 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 640511015294 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 640511015295 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 640511015296 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 640511015297 acylphosphatase; Provisional; Region: PRK14424 640511015298 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 640511015299 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 640511015300 putative NADP binding site [chemical binding]; other site 640511015301 putative substrate binding site [chemical binding]; other site 640511015302 active site 640511015303 hopene-associated glycosyltransferase HpnB; Region: HpnB; TIGR03469 640511015304 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 640511015305 active site 640511015306 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 640511015307 squalene synthase HpnC; Region: HpnC; TIGR03464 640511015308 substrate binding pocket [chemical binding]; other site 640511015309 substrate-Mg2+ binding site; other site 640511015310 aspartate-rich region 1; other site 640511015311 aspartate-rich region 2; other site 640511015312 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 640511015313 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 640511015314 hopanoid biosynthesis associated radical SAM protein HpnH; Region: HpnH; TIGR03470 640511015315 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 640511015316 FeS/SAM binding site; other site 640511015317 Domain of unknown function (DUF3463); Region: DUF3463; pfam11946 640511015318 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 640511015319 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 640511015320 VacJ like lipoprotein; Region: VacJ; cl01073 640511015321 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 640511015322 Protein of unknown function (DUF3828); Region: DUF3828; pfam12883 640511015323 hypothetical protein; Provisional; Region: PRK07077 640511015324 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 640511015325 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 640511015326 Active site cavity [active] 640511015327 catalytic acid [active] 640511015328 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 640511015329 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 640511015330 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 640511015331 active site lid residues [active] 640511015332 substrate binding pocket [chemical binding]; other site 640511015333 catalytic residues [active] 640511015334 substrate-Mg2+ binding site; other site 640511015335 aspartate-rich region 1; other site 640511015336 aspartate-rich region 2; other site 640511015337 PAS fold; Region: PAS; pfam00989 640511015338 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 640511015339 putative active site [active] 640511015340 heme pocket [chemical binding]; other site 640511015341 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640511015342 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640511015343 metal binding site [ion binding]; metal-binding site 640511015344 active site 640511015345 I-site; other site 640511015346 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 640511015347 CheC-like family; Region: CheC; pfam04509 640511015348 Response regulator receiver domain; Region: Response_reg; pfam00072 640511015349 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511015350 active site 640511015351 phosphorylation site [posttranslational modification] 640511015352 intermolecular recognition site; other site 640511015353 dimerization interface [polypeptide binding]; other site 640511015354 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640511015355 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511015356 ATP binding site [chemical binding]; other site 640511015357 Mg2+ binding site [ion binding]; other site 640511015358 G-X-G motif; other site 640511015359 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 640511015360 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511015361 active site 640511015362 phosphorylation site [posttranslational modification] 640511015363 intermolecular recognition site; other site 640511015364 dimerization interface [polypeptide binding]; other site 640511015365 Predicted flavoprotein [General function prediction only]; Region: COG0431 640511015366 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 640511015367 RNA polymerase sigma factor; Provisional; Region: PRK12545 640511015368 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 640511015369 DNA binding residues [nucleotide binding] 640511015370 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3813 640511015371 Protein of unknown function (DUF1272); Region: DUF1272; pfam06906 640511015372 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 640511015373 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 640511015374 substrate binding pocket [chemical binding]; other site 640511015375 membrane-bound complex binding site; other site 640511015376 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 640511015377 ArsC family; Region: ArsC; pfam03960 640511015378 catalytic residues [active] 640511015379 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 640511015380 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 640511015381 P-loop; other site 640511015382 Magnesium ion binding site [ion binding]; other site 640511015383 ParB-like nuclease domain; Region: ParB; smart00470 640511015384 Initiator Replication protein; Region: Rep_3; pfam01051 640511015385 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 640511015386 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 640511015387 active site 640511015388 catalytic residues [active] 640511015389 Int/Topo IB signature motif; other site 640511015390 DNA binding site [nucleotide binding] 640511015391 Protein of unknown function (DUF2471); Region: DUF2471; pfam10616 640511015392 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 640511015393 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 640511015394 non-specific DNA binding site [nucleotide binding]; other site 640511015395 salt bridge; other site 640511015396 sequence-specific DNA binding site [nucleotide binding]; other site 640511015397 Cupin domain; Region: Cupin_2; pfam07883 640511015398 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 640511015399 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 640511015400 substrate-cofactor binding pocket; other site 640511015401 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511015402 catalytic residue [active] 640511015403 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 640511015404 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 640511015405 NAD(P) binding site [chemical binding]; other site 640511015406 YceI-like domain; Region: YceI; smart00867 640511015407 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640511015408 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640511015409 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 640511015410 SnoaL-like domain; Region: SnoaL_2; pfam12680 640511015411 metabolite-proton symporter; Region: 2A0106; TIGR00883 640511015412 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511015413 putative substrate translocation pore; other site 640511015414 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511015415 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640511015416 putative substrate translocation pore; other site 640511015417 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 640511015418 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 640511015419 FMN-binding pocket [chemical binding]; other site 640511015420 flavin binding motif; other site 640511015421 phosphate binding motif [ion binding]; other site 640511015422 beta-alpha-beta structure motif; other site 640511015423 NAD binding pocket [chemical binding]; other site 640511015424 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 640511015425 catalytic loop [active] 640511015426 iron binding site [ion binding]; other site 640511015427 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511015428 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511015429 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 640511015430 dimerization interface [polypeptide binding]; other site 640511015431 substrate binding pocket [chemical binding]; other site 640511015432 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 640511015433 [2Fe-2S] cluster binding site [ion binding]; other site 640511015434 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 640511015435 putative alpha subunit interface [polypeptide binding]; other site 640511015436 putative active site [active] 640511015437 putative substrate binding site [chemical binding]; other site 640511015438 Fe binding site [ion binding]; other site 640511015439 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 640511015440 Tautomerase enzyme; Region: Tautomerase; pfam01361 640511015441 active site 1 [active] 640511015442 dimer interface [polypeptide binding]; other site 640511015443 hexamer interface [polypeptide binding]; other site 640511015444 active site 2 [active] 640511015445 PAS domain; Region: PAS_9; pfam13426 640511015446 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 640511015447 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 640511015448 putative active site [active] 640511015449 heme pocket [chemical binding]; other site 640511015450 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 640511015451 dimer interface [polypeptide binding]; other site 640511015452 phosphorylation site [posttranslational modification] 640511015453 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511015454 ATP binding site [chemical binding]; other site 640511015455 Mg2+ binding site [ion binding]; other site 640511015456 G-X-G motif; other site 640511015457 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 640511015458 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640511015459 active site 640511015460 SnoaL-like domain; Region: SnoaL_4; pfam13577 640511015461 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 640511015462 Amidase; Region: Amidase; cl11426 640511015463 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 640511015464 classical (c) SDRs; Region: SDR_c; cd05233 640511015465 NAD(P) binding site [chemical binding]; other site 640511015466 active site 640511015467 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 640511015468 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511015469 active site 640511015470 phosphorylation site [posttranslational modification] 640511015471 intermolecular recognition site; other site 640511015472 dimerization interface [polypeptide binding]; other site 640511015473 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 640511015474 DNA binding residues [nucleotide binding] 640511015475 dimerization interface [polypeptide binding]; other site 640511015476 Flavin Reductases; Region: FlaRed; cl00801 640511015477 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 640511015478 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 640511015479 BON domain; Region: BON; pfam04972 640511015480 short chain dehydrogenase; Provisional; Region: PRK07023 640511015481 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511015482 NAD(P) binding site [chemical binding]; other site 640511015483 active site 640511015484 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640511015485 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 640511015486 conserved cys residue [active] 640511015487 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511015488 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511015489 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 640511015490 Zn2+ binding site [ion binding]; other site 640511015491 Mg2+ binding site [ion binding]; other site 640511015492 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511015493 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511015494 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 640511015495 putative dimerization interface [polypeptide binding]; other site 640511015496 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 640511015497 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640511015498 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 640511015499 active site 640511015500 catalytic residues [active] 640511015501 metal binding site [ion binding]; metal-binding site 640511015502 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511015503 D-galactonate transporter; Region: 2A0114; TIGR00893 640511015504 putative substrate translocation pore; other site 640511015505 Transcriptional regulators [Transcription]; Region: GntR; COG1802 640511015506 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511015507 DNA-binding site [nucleotide binding]; DNA binding site 640511015508 FCD domain; Region: FCD; pfam07729 640511015509 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 640511015510 homodimer interface [polypeptide binding]; other site 640511015511 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511015512 catalytic residue [active] 640511015513 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511015514 D-galactonate transporter; Region: 2A0114; TIGR00893 640511015515 putative substrate translocation pore; other site 640511015516 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 640511015517 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 640511015518 FAD binding domain; Region: FAD_binding_4; pfam01565 640511015519 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 640511015520 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640511015521 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511015522 EamA-like transporter family; Region: EamA; pfam00892 640511015523 EamA-like transporter family; Region: EamA; pfam00892 640511015524 haloacid dehalogenase-like hydrolase family protein; Region: PLN02919 640511015525 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 640511015526 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 640511015527 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 640511015528 ligand binding site [chemical binding]; other site 640511015529 flexible hinge region; other site 640511015530 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 640511015531 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 640511015532 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640511015533 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 640511015534 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 640511015535 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 640511015536 active site residue [active] 640511015537 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 640511015538 PAS fold; Region: PAS_4; pfam08448 640511015539 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 640511015540 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 640511015541 Walker A motif; other site 640511015542 ATP binding site [chemical binding]; other site 640511015543 Walker B motif; other site 640511015544 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 640511015545 arginine finger; other site 640511015546 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 640511015547 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 640511015548 Beta-lactamase; Region: Beta-lactamase; pfam00144 640511015549 H-NS histone family; Region: Histone_HNS; pfam00816 640511015550 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 640511015551 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 640511015552 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 640511015553 G1 box; other site 640511015554 putative GEF interaction site [polypeptide binding]; other site 640511015555 GTP/Mg2+ binding site [chemical binding]; other site 640511015556 Switch I region; other site 640511015557 G2 box; other site 640511015558 G3 box; other site 640511015559 Switch II region; other site 640511015560 G4 box; other site 640511015561 G5 box; other site 640511015562 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 640511015563 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 640511015564 CoA binding domain; Region: CoA_binding_2; pfam13380 640511015565 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 640511015566 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 640511015567 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 640511015568 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640511015569 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 640511015570 Bacterial transcriptional regulator; Region: IclR; pfam01614 640511015571 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 640511015572 active site 640511015573 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 640511015574 catalytic tetrad [active] 640511015575 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 640511015576 Amidohydrolase; Region: Amidohydro_2; pfam04909 640511015577 active site 640511015578 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 640511015579 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 640511015580 NAD binding site [chemical binding]; other site 640511015581 homotetramer interface [polypeptide binding]; other site 640511015582 homodimer interface [polypeptide binding]; other site 640511015583 active site 640511015584 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 640511015585 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 640511015586 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 640511015587 CoenzymeA binding site [chemical binding]; other site 640511015588 subunit interaction site [polypeptide binding]; other site 640511015589 PHB binding site; other site 640511015590 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 640511015591 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 640511015592 dimer interface [polypeptide binding]; other site 640511015593 ligand binding site [chemical binding]; other site 640511015594 HAMP domain; Region: HAMP; pfam00672 640511015595 dimerization interface [polypeptide binding]; other site 640511015596 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640511015597 dimer interface [polypeptide binding]; other site 640511015598 putative CheW interface [polypeptide binding]; other site 640511015599 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 640511015600 DNA-binding site [nucleotide binding]; DNA binding site 640511015601 RNA-binding motif; other site 640511015602 dimerization interface [polypeptide binding]; other site 640511015603 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 640511015604 putative active cleft [active] 640511015605 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 640511015606 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 640511015607 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 640511015608 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 640511015609 polyhydroxyalkanoate depolymerase, intracellular; Region: PHB_depoly_PhaZ; TIGR01849 640511015610 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 640511015611 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 640511015612 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 640511015613 putative C-terminal domain interface [polypeptide binding]; other site 640511015614 putative GSH binding site (G-site) [chemical binding]; other site 640511015615 putative dimer interface [polypeptide binding]; other site 640511015616 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 640511015617 putative N-terminal domain interface [polypeptide binding]; other site 640511015618 putative dimer interface [polypeptide binding]; other site 640511015619 putative substrate binding pocket (H-site) [chemical binding]; other site 640511015620 Cache domain; Region: Cache_1; pfam02743 640511015621 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 640511015622 dimerization interface [polypeptide binding]; other site 640511015623 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640511015624 dimer interface [polypeptide binding]; other site 640511015625 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 640511015626 putative CheW interface [polypeptide binding]; other site 640511015627 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 640511015628 metal-binding site [ion binding] 640511015629 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 640511015630 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 640511015631 metal-binding site [ion binding] 640511015632 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 640511015633 Transcriptional regulator [Transcription]; Region: PaiB; COG2808 640511015634 Uncharacterized conserved protein [Function unknown]; Region: COG5361 640511015635 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 640511015636 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 640511015637 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 640511015638 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 640511015639 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 640511015640 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 640511015641 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 640511015642 aconitate hydratase; Provisional; Region: acnA; PRK12881 640511015643 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 640511015644 substrate binding site [chemical binding]; other site 640511015645 ligand binding site [chemical binding]; other site 640511015646 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 640511015647 substrate binding site [chemical binding]; other site 640511015648 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 640511015649 2-methylcitrate dehydratase; Region: prpD; TIGR02330 640511015650 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 640511015651 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 640511015652 dimer interface [polypeptide binding]; other site 640511015653 active site 640511015654 citrylCoA binding site [chemical binding]; other site 640511015655 oxalacetate/citrate binding site [chemical binding]; other site 640511015656 coenzyme A binding site [chemical binding]; other site 640511015657 catalytic triad [active] 640511015658 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 640511015659 malate dehydrogenase; Provisional; Region: PRK05442 640511015660 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 640511015661 NAD(P) binding site [chemical binding]; other site 640511015662 dimer interface [polypeptide binding]; other site 640511015663 malate binding site [chemical binding]; other site 640511015664 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 640511015665 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511015666 DNA-binding site [nucleotide binding]; DNA binding site 640511015667 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 640511015668 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 640511015669 Iron-sulfur protein interface; other site 640511015670 proximal quinone binding site [chemical binding]; other site 640511015671 SdhD (CybS) interface [polypeptide binding]; other site 640511015672 proximal heme binding site [chemical binding]; other site 640511015673 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 640511015674 SdhC subunit interface [polypeptide binding]; other site 640511015675 proximal heme binding site [chemical binding]; other site 640511015676 cardiolipin binding site; other site 640511015677 Iron-sulfur protein interface; other site 640511015678 proximal quinone binding site [chemical binding]; other site 640511015679 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 640511015680 L-aspartate oxidase; Provisional; Region: PRK06175 640511015681 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 640511015682 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 640511015683 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 640511015684 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 640511015685 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 640511015686 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 640511015687 dimer interface [polypeptide binding]; other site 640511015688 active site 640511015689 citrylCoA binding site [chemical binding]; other site 640511015690 NADH binding [chemical binding]; other site 640511015691 cationic pore residues; other site 640511015692 oxalacetate/citrate binding site [chemical binding]; other site 640511015693 coenzyme A binding site [chemical binding]; other site 640511015694 catalytic triad [active] 640511015695 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 640511015696 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 640511015697 substrate binding site [chemical binding]; other site 640511015698 ligand binding site [chemical binding]; other site 640511015699 Predicted small secreted protein [Function unknown]; Region: COG5510 640511015700 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 640511015701 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 640511015702 substrate binding site [chemical binding]; other site 640511015703 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 640511015704 tartrate dehydrogenase; Region: TTC; TIGR02089 640511015705 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 640511015706 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 640511015707 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 640511015708 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 640511015709 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 640511015710 dimerization interface 3.5A [polypeptide binding]; other site 640511015711 active site 640511015712 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 640511015713 active site 640511015714 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 640511015715 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 640511015716 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511015717 catalytic residue [active] 640511015718 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 640511015719 DNA methylase; Region: N6_N4_Mtase; pfam01555 640511015720 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 640511015721 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 640511015722 substrate binding site [chemical binding]; other site 640511015723 active site 640511015724 catalytic residues [active] 640511015725 heterodimer interface [polypeptide binding]; other site 640511015726 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 640511015727 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 640511015728 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 640511015729 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 640511015730 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 640511015731 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 640511015732 Sporulation related domain; Region: SPOR; pfam05036 640511015733 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 640511015734 Colicin V production protein; Region: Colicin_V; pfam02674 640511015735 amidophosphoribosyltransferase; Provisional; Region: PRK09246 640511015736 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 640511015737 active site 640511015738 tetramer interface [polypeptide binding]; other site 640511015739 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 640511015740 active site 640511015741 Cupin domain; Region: Cupin_2; pfam07883 640511015742 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511015743 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640511015744 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511015745 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 640511015746 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 640511015747 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640511015748 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 640511015749 dimer interface [polypeptide binding]; other site 640511015750 phosphorylation site [posttranslational modification] 640511015751 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 640511015752 Domain of unknown function DUF21; Region: DUF21; pfam01595 640511015753 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 640511015754 Transporter associated domain; Region: CorC_HlyC; smart01091 640511015755 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 640511015756 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 640511015757 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 640511015758 active site 640511015759 catalytic site [active] 640511015760 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 640511015761 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 640511015762 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 640511015763 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 640511015764 catalytic site [active] 640511015765 active site 640511015766 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 640511015767 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 640511015768 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 640511015769 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 640511015770 active site 640511015771 catalytic site [active] 640511015772 glycogen branching enzyme; Provisional; Region: PRK05402 640511015773 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 640511015774 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 640511015775 active site 640511015776 catalytic site [active] 640511015777 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 640511015778 trehalose synthase; Region: treS_nterm; TIGR02456 640511015779 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 640511015780 active site 640511015781 catalytic site [active] 640511015782 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 640511015783 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 640511015784 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 640511015785 active site 640511015786 catalytic site [active] 640511015787 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 640511015788 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 640511015789 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 640511015790 active site 640511015791 homodimer interface [polypeptide binding]; other site 640511015792 catalytic site [active] 640511015793 acceptor binding site [chemical binding]; other site 640511015794 Protein of unknown function (DUF1345); Region: DUF1345; pfam07077 640511015795 Membrane bound FAD containing D-sorbitol dehydrogenase; Region: FAD-SLDH; pfam12318 640511015796 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 640511015797 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 640511015798 Cytochrome c; Region: Cytochrom_C; pfam00034 640511015799 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640511015800 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640511015801 Cytochrome c; Region: Cytochrom_C; pfam00034 640511015802 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 640511015803 active site 640511015804 metal binding site [ion binding]; metal-binding site 640511015805 RES domain; Region: RES; smart00953 640511015806 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 640511015807 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511015808 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 640511015809 dimerization interface [polypeptide binding]; other site 640511015810 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 640511015811 active site 1 [active] 640511015812 dimer interface [polypeptide binding]; other site 640511015813 hexamer interface [polypeptide binding]; other site 640511015814 active site 2 [active] 640511015815 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 640511015816 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 640511015817 putative DNA binding site [nucleotide binding]; other site 640511015818 putative Zn2+ binding site [ion binding]; other site 640511015819 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 640511015820 Low molecular weight phosphatase family; Region: LMWPc; cd00115 640511015821 active site 640511015822 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 640511015823 Sodium Bile acid symporter family; Region: SBF; cl17470 640511015824 putative bacillithiol system oxidoreductase, YpdA family; Region: Bthiol_YpdA; TIGR04018 640511015825 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 640511015826 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640511015827 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511015828 putative substrate translocation pore; other site 640511015829 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 640511015830 TOBE domain; Region: TOBE; cl01440 640511015831 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 640511015832 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640511015833 thiamine ABC transporter, ATP-binding protein; Region: thiQ; TIGR01277 640511015834 Walker A/P-loop; other site 640511015835 ATP binding site [chemical binding]; other site 640511015836 Q-loop/lid; other site 640511015837 ABC transporter signature motif; other site 640511015838 Walker B; other site 640511015839 D-loop; other site 640511015840 H-loop/switch region; other site 640511015841 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511015842 putative PBP binding loops; other site 640511015843 dimer interface [polypeptide binding]; other site 640511015844 ABC-ATPase subunit interface; other site 640511015845 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 640511015846 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 640511015847 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 640511015848 active site 640511015849 Esterase PHB depolymerase; Region: Esterase_phd; pfam10503 640511015850 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 640511015851 Protein of unknown function (DUF3563); Region: DUF3563; pfam12086 640511015852 TspO/MBR family; Region: TspO_MBR; pfam03073 640511015853 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 640511015854 DNA photolyase; Region: DNA_photolyase; pfam00875 640511015855 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 640511015856 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640511015857 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 640511015858 putative Zn2+ binding site [ion binding]; other site 640511015859 putative DNA binding site [nucleotide binding]; other site 640511015860 Elongation Factor G-like domain IV. This family includes the translational elongation factor termed EF-2 (for Archaea and Eukarya) and EF-G (for Bacteria), ribosomal protection proteins that mediate tetracycline resistance and, an evolutionarily...; Region: EFG_like_IV; cl02789 640511015861 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 640511015862 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 640511015863 putative active site [active] 640511015864 putative substrate binding site [chemical binding]; other site 640511015865 ATP binding site [chemical binding]; other site 640511015866 AMP nucleosidase; Provisional; Region: PRK08292 640511015867 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 640511015868 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 640511015869 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 640511015870 DNA polymerase I; Provisional; Region: PRK05755 640511015871 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 640511015872 active site 640511015873 metal binding site 1 [ion binding]; metal-binding site 640511015874 putative 5' ssDNA interaction site; other site 640511015875 metal binding site 3; metal-binding site 640511015876 metal binding site 2 [ion binding]; metal-binding site 640511015877 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 640511015878 putative DNA binding site [nucleotide binding]; other site 640511015879 putative metal binding site [ion binding]; other site 640511015880 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 640511015881 active site 640511015882 catalytic site [active] 640511015883 substrate binding site [chemical binding]; other site 640511015884 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 640511015885 active site 640511015886 DNA binding site [nucleotide binding] 640511015887 catalytic site [active] 640511015888 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 640511015889 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640511015890 Dienelactone hydrolase family; Region: DLH; pfam01738 640511015891 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 640511015892 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 640511015893 active site residue [active] 640511015894 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 640511015895 active site residue [active] 640511015896 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 640511015897 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 640511015898 [2Fe-2S] cluster binding site [ion binding]; other site 640511015899 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 640511015900 alpha subunit interface [polypeptide binding]; other site 640511015901 active site 640511015902 substrate binding site [chemical binding]; other site 640511015903 Fe binding site [ion binding]; other site 640511015904 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 640511015905 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 640511015906 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 640511015907 substrate binding pocket [chemical binding]; other site 640511015908 chain length determination region; other site 640511015909 substrate-Mg2+ binding site; other site 640511015910 catalytic residues [active] 640511015911 aspartate-rich region 1; other site 640511015912 active site lid residues [active] 640511015913 aspartate-rich region 2; other site 640511015914 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 640511015915 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 640511015916 TPP-binding site; other site 640511015917 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 640511015918 PYR/PP interface [polypeptide binding]; other site 640511015919 dimer interface [polypeptide binding]; other site 640511015920 TPP binding site [chemical binding]; other site 640511015921 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 640511015922 putative GTP cyclohydrolase; Provisional; Region: PRK13674 640511015923 UGMP family protein; Validated; Region: PRK09604 640511015924 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 640511015925 HI0933-like protein; Region: HI0933_like; pfam03486 640511015926 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 640511015927 Yqey-like protein; Region: YqeY; pfam09424 640511015928 DNA primase; Validated; Region: dnaG; PRK05667 640511015929 CHC2 zinc finger; Region: zf-CHC2; pfam01807 640511015930 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 640511015931 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 640511015932 active site 640511015933 metal binding site [ion binding]; metal-binding site 640511015934 interdomain interaction site; other site 640511015935 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 640511015936 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 640511015937 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 640511015938 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 640511015939 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 640511015940 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640511015941 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 640511015942 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 640511015943 DNA binding residues [nucleotide binding] 640511015944 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640511015945 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 640511015946 eyelet of channel; other site 640511015947 trimer interface [polypeptide binding]; other site 640511015948 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 640511015949 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 640511015950 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 640511015951 ligand binding site [chemical binding]; other site 640511015952 flexible hinge region; other site 640511015953 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 640511015954 acyl-CoA synthetase; Validated; Region: PRK08162 640511015955 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 640511015956 acyl-activating enzyme (AAE) consensus motif; other site 640511015957 putative active site [active] 640511015958 AMP binding site [chemical binding]; other site 640511015959 putative CoA binding site [chemical binding]; other site 640511015960 LysE type translocator; Region: LysE; cl00565 640511015961 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 640511015962 Protocatechuate 3,4-dioxygenase (3,4-PCD) , alpha subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_alpha; cd03463 640511015963 heterodimer interface [polypeptide binding]; other site 640511015964 active site 640511015965 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 640511015966 heterodimer interface [polypeptide binding]; other site 640511015967 multimer interface [polypeptide binding]; other site 640511015968 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 640511015969 active site 640511015970 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 640511015971 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511015972 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 640511015973 putative dimerization interface [polypeptide binding]; other site 640511015974 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 640511015975 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 640511015976 dimer interface [polypeptide binding]; other site 640511015977 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 640511015978 active site 640511015979 Fe binding site [ion binding]; other site 640511015980 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640511015981 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511015982 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 640511015983 dimerization interface [polypeptide binding]; other site 640511015984 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 640511015985 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 640511015986 FAD binding domain; Region: FAD_binding_4; pfam01565 640511015987 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 640511015988 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 640511015989 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 640511015990 non-specific DNA binding site [nucleotide binding]; other site 640511015991 salt bridge; other site 640511015992 sequence-specific DNA binding site [nucleotide binding]; other site 640511015993 Cupin domain; Region: Cupin_2; pfam07883 640511015994 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 640511015995 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 640511015996 tetramer interface [polypeptide binding]; other site 640511015997 active site 640511015998 Mg2+/Mn2+ binding site [ion binding]; other site 640511015999 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640511016000 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640511016001 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 640511016002 active site 640511016003 catalytic residues [active] 640511016004 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 640511016005 putative dimerization interface [polypeptide binding]; other site 640511016006 putative ligand binding site [chemical binding]; other site 640511016007 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640511016008 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640511016009 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511016010 xylose isomerase; Provisional; Region: PRK05474 640511016011 xylose isomerase; Region: xylose_isom_A; TIGR02630 640511016012 D-xylose ABC transporter, substrate-binding protein; Region: xylF; TIGR02634 640511016013 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 640511016014 putative ligand binding site [chemical binding]; other site 640511016015 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 640511016016 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 640511016017 Walker A/P-loop; other site 640511016018 ATP binding site [chemical binding]; other site 640511016019 Q-loop/lid; other site 640511016020 ABC transporter signature motif; other site 640511016021 Walker B; other site 640511016022 D-loop; other site 640511016023 H-loop/switch region; other site 640511016024 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 640511016025 Ribose/xylose/arabinose/galactoside ABC-type transport systems, permease components [Carbohydrate transport and metabolism]; Region: AraH; COG1172 640511016026 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 640511016027 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640511016028 TM-ABC transporter signature motif; other site 640511016029 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 640511016030 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 640511016031 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640511016032 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640511016033 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 640511016034 4-hydroxybenzoyl-CoA reductase, gamma subunit; Region: 4hydroxCoAred; TIGR03193 640511016035 catalytic loop [active] 640511016036 iron binding site [ion binding]; other site 640511016037 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 640511016038 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640511016039 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 640511016040 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640511016041 HlyD family secretion protein; Region: HlyD_3; pfam13437 640511016042 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 640511016043 Fusaric acid resistance protein family; Region: FUSC; pfam04632 640511016044 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 640511016045 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 640511016046 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 640511016047 dimer interface [polypeptide binding]; other site 640511016048 phosphorylation site [posttranslational modification] 640511016049 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511016050 ATP binding site [chemical binding]; other site 640511016051 Mg2+ binding site [ion binding]; other site 640511016052 G-X-G motif; other site 640511016053 Response regulator receiver domain; Region: Response_reg; pfam00072 640511016054 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511016055 active site 640511016056 phosphorylation site [posttranslational modification] 640511016057 intermolecular recognition site; other site 640511016058 dimerization interface [polypeptide binding]; other site 640511016059 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]; Region: RAD55; COG0467 640511016060 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 640511016061 Walker A motif; other site 640511016062 ATP binding site [chemical binding]; other site 640511016063 Walker B motif; other site 640511016064 KaiC; Region: KaiC; pfam06745 640511016065 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 640511016066 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 640511016067 Walker A motif; other site 640511016068 Walker A motif; other site 640511016069 ATP binding site [chemical binding]; other site 640511016070 Walker B motif; other site 640511016071 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 640511016072 catalytic core [active] 640511016073 Probable cobalt transporter subunit (CbtA); Region: CbtA; cl02266 640511016074 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 640511016075 Uncharacterized bacterial subgroup of the Salmonella typhimurium Zn2+ transporter ZntB-like subfamily; Region: ZntB_u1; cd12834 640511016076 Cl binding site [ion binding]; other site 640511016077 oligomer interface [polypeptide binding]; other site 640511016078 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 640511016079 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 640511016080 heme-binding site [chemical binding]; other site 640511016081 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 640511016082 FAD binding pocket [chemical binding]; other site 640511016083 FAD binding motif [chemical binding]; other site 640511016084 phosphate binding motif [ion binding]; other site 640511016085 beta-alpha-beta structure motif; other site 640511016086 NAD binding pocket [chemical binding]; other site 640511016087 Heme binding pocket [chemical binding]; other site 640511016088 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 640511016089 GAF domain; Region: GAF; pfam01590 640511016090 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 640511016091 Walker A motif; other site 640511016092 ATP binding site [chemical binding]; other site 640511016093 Walker B motif; other site 640511016094 arginine finger; other site 640511016095 Uncharacterized conserved protein [Function unknown]; Region: COG3777 640511016096 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 640511016097 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 640511016098 active site 2 [active] 640511016099 active site 1 [active] 640511016100 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 640511016101 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640511016102 active site 640511016103 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 640511016104 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640511016105 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 640511016106 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 640511016107 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 640511016108 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 640511016109 inhibitor binding site; inhibition site 640511016110 active site 640511016111 D-galactonate transporter; Region: 2A0114; TIGR00893 640511016112 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511016113 putative substrate translocation pore; other site 640511016114 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511016115 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511016116 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 640511016117 putative effector binding pocket; other site 640511016118 dimerization interface [polypeptide binding]; other site 640511016119 PAS domain; Region: PAS_9; pfam13426 640511016120 PAS domain S-box; Region: sensory_box; TIGR00229 640511016121 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 640511016122 putative active site [active] 640511016123 heme pocket [chemical binding]; other site 640511016124 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640511016125 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640511016126 metal binding site [ion binding]; metal-binding site 640511016127 active site 640511016128 I-site; other site 640511016129 benzoate transport; Region: 2A0115; TIGR00895 640511016130 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511016131 putative substrate translocation pore; other site 640511016132 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511016133 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511016134 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511016135 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 640511016136 putative dimerization interface [polypeptide binding]; other site 640511016137 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 640511016138 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640511016139 tetrameric interface [polypeptide binding]; other site 640511016140 NAD binding site [chemical binding]; other site 640511016141 catalytic residues [active] 640511016142 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640511016143 hydroxyglutarate oxidase; Provisional; Region: PRK11728 640511016144 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 640511016145 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 640511016146 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511016147 homodimer interface [polypeptide binding]; other site 640511016148 catalytic residue [active] 640511016149 Bacterial protein of unknown function (DUF898); Region: DUF898; pfam05987 640511016150 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 640511016151 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 640511016152 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 640511016153 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 640511016154 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640511016155 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 640511016156 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 640511016157 DNA binding residues [nucleotide binding] 640511016158 Uncharacterized conserved protein [Function unknown]; Region: COG5476 640511016159 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 640511016160 MlrC C-terminus; Region: MlrC_C; pfam07171 640511016161 dihydroxyacetone kinase; Provisional; Region: PRK14479 640511016162 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 640511016163 DAK2 domain; Region: Dak2; pfam02734 640511016164 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 640511016165 Predicted permease; Region: DUF318; cl17795 640511016166 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 640511016167 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 640511016168 active site residue [active] 640511016169 selenophosphate synthetase; Provisional; Region: PRK00943 640511016170 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 640511016171 dimerization interface [polypeptide binding]; other site 640511016172 putative ATP binding site [chemical binding]; other site 640511016173 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 640511016174 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 640511016175 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 640511016176 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 640511016177 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 640511016178 molybdopterin cofactor binding site; other site 640511016179 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 640511016180 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 640511016181 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 640511016182 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 640511016183 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 640511016184 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 640511016185 selenocysteine synthase; Provisional; Region: PRK04311 640511016186 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 640511016187 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 640511016188 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640511016189 catalytic residue [active] 640511016190 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 640511016191 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 640511016192 G1 box; other site 640511016193 putative GEF interaction site [polypeptide binding]; other site 640511016194 GTP/Mg2+ binding site [chemical binding]; other site 640511016195 Switch I region; other site 640511016196 G2 box; other site 640511016197 G3 box; other site 640511016198 Switch II region; other site 640511016199 G4 box; other site 640511016200 G5 box; other site 640511016201 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 640511016202 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 640511016203 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 640511016204 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 640511016205 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 640511016206 active site 640511016207 Int/Topo IB signature motif; other site 640511016208 Protein of unknown function DUF91; Region: DUF91; cl00709 640511016209 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 640511016210 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511016211 putative substrate translocation pore; other site 640511016212 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 640511016213 Amidase; Region: Amidase; cl11426 640511016214 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 640511016215 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 640511016216 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640511016217 Uncharacterized conserved protein [Function unknown]; Region: COG3777 640511016218 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 640511016219 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 640511016220 active site 2 [active] 640511016221 active site 1 [active] 640511016222 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 640511016223 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 640511016224 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 640511016225 Ligand binding site [chemical binding]; other site 640511016226 Electron transfer flavoprotein domain; Region: ETF; pfam01012 640511016227 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 640511016228 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 640511016229 active site 640511016230 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511016231 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511016232 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 640511016233 putative dimerization interface [polypeptide binding]; other site 640511016234 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640511016235 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 640511016236 trimer interface [polypeptide binding]; other site 640511016237 eyelet of channel; other site 640511016238 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511016239 D-galactonate transporter; Region: 2A0114; TIGR00893 640511016240 putative substrate translocation pore; other site 640511016241 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 640511016242 Helix-turn-helix domain; Region: HTH_18; pfam12833 640511016243 Catalytic domain of Helicobacter pylori peptidoglycan deacetylase (HpPgdA) and similar proteins; Region: CE4_HpPgdA_like; cd10938 640511016244 active site 640511016245 catalytic site [active] 640511016246 Zn binding site [ion binding]; other site 640511016247 tetramer interface [polypeptide binding]; other site 640511016248 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 640511016249 Uncharacterized conserved protein [Function unknown]; Region: COG5476 640511016250 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 640511016251 MlrC C-terminus; Region: MlrC_C; pfam07171 640511016252 2-oxoacid dehydrogenase subunit E1; Provisional; Region: PRK13012 640511016253 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 640511016254 dimer interface [polypeptide binding]; other site 640511016255 TPP-binding site [chemical binding]; other site 640511016256 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511016257 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640511016258 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640511016259 Old yellow enzyme (OYE)-related FMN binding domain, group 5. 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_5_FMN; cd04747 640511016260 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 640511016261 putative active site [active] 640511016262 putative FMN binding site [chemical binding]; other site 640511016263 putative substrate binding site [chemical binding]; other site 640511016264 putative catalytic residue [active] 640511016265 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 640511016266 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 640511016267 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 640511016268 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 640511016269 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 640511016270 putative molybdopterin cofactor binding site [chemical binding]; other site 640511016271 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 640511016272 putative molybdopterin cofactor binding site; other site 640511016273 formate dehydrogenase; Provisional; Region: PRK07574 640511016274 NAD-dependent Formate Dehydrogenase (FDH); Region: FDH; cd05302 640511016275 dimerization interface [polypeptide binding]; other site 640511016276 ligand binding site [chemical binding]; other site 640511016277 NAD binding site [chemical binding]; other site 640511016278 catalytic site [active] 640511016279 Catalytic domain of Protein Kinases; Region: PKc; cd00180 640511016280 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 640511016281 active site 640511016282 ATP binding site [chemical binding]; other site 640511016283 substrate binding site [chemical binding]; other site 640511016284 activation loop (A-loop); other site 640511016285 AAA ATPase domain; Region: AAA_16; pfam13191 640511016286 Predicted ATPase [General function prediction only]; Region: COG3899 640511016287 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 640511016288 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 640511016289 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 640511016290 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 640511016291 putative active site [active] 640511016292 heme pocket [chemical binding]; other site 640511016293 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 640511016294 dimer interface [polypeptide binding]; other site 640511016295 phosphorylation site [posttranslational modification] 640511016296 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511016297 ATP binding site [chemical binding]; other site 640511016298 Mg2+ binding site [ion binding]; other site 640511016299 G-X-G motif; other site 640511016300 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 640511016301 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511016302 active site 640511016303 phosphorylation site [posttranslational modification] 640511016304 intermolecular recognition site; other site 640511016305 dimerization interface [polypeptide binding]; other site 640511016306 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 640511016307 DNA binding residues [nucleotide binding] 640511016308 dimerization interface [polypeptide binding]; other site 640511016309 short chain dehydrogenase; Provisional; Region: PRK07326 640511016310 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 640511016311 NADP binding site [chemical binding]; other site 640511016312 active site 640511016313 steroid binding site; other site 640511016314 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511016315 metabolite-proton symporter; Region: 2A0106; TIGR00883 640511016316 putative substrate translocation pore; other site 640511016317 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640511016318 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511016319 ATP binding site [chemical binding]; other site 640511016320 Mg2+ binding site [ion binding]; other site 640511016321 G-X-G motif; other site 640511016322 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 640511016323 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 640511016324 active site 640511016325 catalytic tetrad [active] 640511016326 High-affinity nickel permease [Inorganic ion transport and metabolism]; Region: HoxN; COG3376 640511016327 Domain of unknown function (DUF4331); Region: DUF4331; pfam14224 640511016328 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511016329 Response regulator receiver domain; Region: Response_reg; pfam00072 640511016330 active site 640511016331 phosphorylation site [posttranslational modification] 640511016332 intermolecular recognition site; other site 640511016333 dimerization interface [polypeptide binding]; other site 640511016334 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 640511016335 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511016336 active site 640511016337 phosphorylation site [posttranslational modification] 640511016338 intermolecular recognition site; other site 640511016339 dimerization interface [polypeptide binding]; other site 640511016340 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 640511016341 DNA binding residues [nucleotide binding] 640511016342 dimerization interface [polypeptide binding]; other site 640511016343 short chain dehydrogenase; Provisional; Region: PRK12937 640511016344 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 640511016345 NADP binding site [chemical binding]; other site 640511016346 homodimer interface [polypeptide binding]; other site 640511016347 active site 640511016348 substrate binding site [chemical binding]; other site 640511016349 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640511016350 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511016351 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 640511016352 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 640511016353 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 640511016354 Serine hydrolase; Region: Ser_hydrolase; cl17834 640511016355 TAP-like protein; Region: Abhydrolase_4; pfam08386 640511016356 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 640511016357 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 640511016358 substrate binding pocket [chemical binding]; other site 640511016359 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 640511016360 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 640511016361 SnoaL-like domain; Region: SnoaL_2; pfam12680 640511016362 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 640511016363 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511016364 Response regulator receiver domain; Region: Response_reg; pfam00072 640511016365 active site 640511016366 phosphorylation site [posttranslational modification] 640511016367 intermolecular recognition site; other site 640511016368 dimerization interface [polypeptide binding]; other site 640511016369 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 640511016370 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 640511016371 putative active site [active] 640511016372 heme pocket [chemical binding]; other site 640511016373 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 640511016374 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 640511016375 putative active site [active] 640511016376 heme pocket [chemical binding]; other site 640511016377 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 640511016378 putative active site [active] 640511016379 heme pocket [chemical binding]; other site 640511016380 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 640511016381 dimer interface [polypeptide binding]; other site 640511016382 phosphorylation site [posttranslational modification] 640511016383 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511016384 ATP binding site [chemical binding]; other site 640511016385 Mg2+ binding site [ion binding]; other site 640511016386 G-X-G motif; other site 640511016387 Dyp-type peroxidase family; Region: Dyp_perox; pfam04261 640511016388 Encapsulating protein for peroxidase; Region: Linocin_M18; pfam04454 640511016389 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 640511016390 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511016391 active site 640511016392 phosphorylation site [posttranslational modification] 640511016393 intermolecular recognition site; other site 640511016394 dimerization interface [polypeptide binding]; other site 640511016395 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 640511016396 DNA binding site [nucleotide binding] 640511016397 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 640511016398 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 640511016399 dimerization interface [polypeptide binding]; other site 640511016400 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 640511016401 dimer interface [polypeptide binding]; other site 640511016402 phosphorylation site [posttranslational modification] 640511016403 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511016404 ATP binding site [chemical binding]; other site 640511016405 Mg2+ binding site [ion binding]; other site 640511016406 G-X-G motif; other site 640511016407 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640511016408 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 640511016409 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640511016410 HlyD family secretion protein; Region: HlyD_3; pfam13437 640511016411 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 640511016412 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640511016413 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 640511016414 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640511016415 Coenzyme A binding pocket [chemical binding]; other site 640511016416 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 640511016417 active site 640511016418 NTP binding site [chemical binding]; other site 640511016419 metal binding triad [ion binding]; metal-binding site 640511016420 antibiotic binding site [chemical binding]; other site 640511016421 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 640511016422 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 640511016423 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 640511016424 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640511016425 Coenzyme A binding pocket [chemical binding]; other site 640511016426 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640511016427 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 640511016428 active site 640511016429 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 640511016430 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640511016431 Coenzyme A binding pocket [chemical binding]; other site 640511016432 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 640511016433 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 640511016434 non-specific DNA binding site [nucleotide binding]; other site 640511016435 salt bridge; other site 640511016436 sequence-specific DNA binding site [nucleotide binding]; other site 640511016437 Cupin domain; Region: Cupin_2; pfam07883 640511016438 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 640511016439 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 640511016440 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 640511016441 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 640511016442 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 640511016443 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 640511016444 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 640511016445 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 640511016446 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 640511016447 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 640511016448 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 640511016449 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 640511016450 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 640511016451 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511016452 dimer interface [polypeptide binding]; other site 640511016453 conserved gate region; other site 640511016454 putative PBP binding loops; other site 640511016455 ABC-ATPase subunit interface; other site 640511016456 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 640511016457 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 640511016458 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511016459 dimer interface [polypeptide binding]; other site 640511016460 conserved gate region; other site 640511016461 putative PBP binding loops; other site 640511016462 ABC-ATPase subunit interface; other site 640511016463 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 640511016464 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640511016465 Walker A/P-loop; other site 640511016466 ATP binding site [chemical binding]; other site 640511016467 Q-loop/lid; other site 640511016468 ABC transporter signature motif; other site 640511016469 Walker B; other site 640511016470 D-loop; other site 640511016471 H-loop/switch region; other site 640511016472 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640511016473 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640511016474 Walker A/P-loop; other site 640511016475 ATP binding site [chemical binding]; other site 640511016476 Q-loop/lid; other site 640511016477 ABC transporter signature motif; other site 640511016478 Walker B; other site 640511016479 D-loop; other site 640511016480 H-loop/switch region; other site 640511016481 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640511016482 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 640511016483 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 640511016484 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 640511016485 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 640511016486 putative acetyltransferase YhhY; Provisional; Region: PRK10140 640511016487 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 640511016488 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 640511016489 Protein export membrane protein; Region: SecD_SecF; cl14618 640511016490 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG3571 640511016491 Ketosteroid isomerase-related protein [General function prediction only]; Region: COG3631 640511016492 Protein of unknown function (DUF770); Region: DUF770; pfam05591 640511016493 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 640511016494 Protein of unknown function (DUF877); Region: DUF877; pfam05943 640511016495 Protein of unknown function (DUF796); Region: DUF796; pfam05638 640511016496 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 640511016497 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 640511016498 type VI secretion protein, VC_A0110 family; Region: VI_chp_6; TIGR03359 640511016499 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 640511016500 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 640511016501 Clp amino terminal domain; Region: Clp_N; pfam02861 640511016502 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 640511016503 Walker A motif; other site 640511016504 ATP binding site [chemical binding]; other site 640511016505 Walker B motif; other site 640511016506 arginine finger; other site 640511016507 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 640511016508 Walker A motif; other site 640511016509 ATP binding site [chemical binding]; other site 640511016510 Walker B motif; other site 640511016511 arginine finger; other site 640511016512 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 640511016513 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 640511016514 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 640511016515 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 640511016516 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 640511016517 Domain of unknown function (DUF4280); Region: DUF4280; pfam14107 640511016518 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 640511016519 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 640511016520 substrate binding pocket [chemical binding]; other site 640511016521 membrane-bound complex binding site; other site 640511016522 hinge residues; other site 640511016523 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 640511016524 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 640511016525 aspartate racemase; Region: asp_race; TIGR00035 640511016526 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 640511016527 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 640511016528 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 640511016529 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522; cl01406 640511016530 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 640511016531 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 640511016532 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 640511016533 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 640511016534 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 640511016535 Cytidine and deoxycytidylate deaminase zinc-binding region. The family contains cytidine deaminases, nucleoside deaminases, deoxycytidylate deaminases and riboflavin deaminases. Also included are the apoBec family of mRNA editing enzymes. All members...; Region: cytidine_deaminase-like; cl00269 640511016536 active site 640511016537 Zn binding site [ion binding]; other site 640511016538 PAP2_like proteins, BcrC_like subfamily. Several members of this family have been annotated as bacitracin transport permeases, as it was suspected that they form the permease component of an ABC transporter system. It was shown, however, that BcrC from...; Region: PAP2_BcrC_like; cd03385 640511016539 active site 640511016540 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 640511016541 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 640511016542 S-adenosylmethionine binding site [chemical binding]; other site 640511016543 Peptidase family M48; Region: Peptidase_M48; cl12018 640511016544 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 640511016545 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; cl15777 640511016546 putative active site pocket [active] 640511016547 dimerization interface [polypeptide binding]; other site 640511016548 putative catalytic residue [active] 640511016549 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 640511016550 nudix motif; other site 640511016551 Putative papain-like cysteine peptidase (DUF1796); Region: DUF1796; pfam08795 640511016552 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 640511016553 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 640511016554 ligand binding site [chemical binding]; other site 640511016555 flexible hinge region; other site 640511016556 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 640511016557 FecR protein; Region: FecR; pfam04773 640511016558 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 640511016559 CHASE2 domain; Region: CHASE2; pfam05226 640511016560 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 640511016561 cyclase homology domain; Region: CHD; cd07302 640511016562 nucleotidyl binding site; other site 640511016563 metal binding site [ion binding]; metal-binding site 640511016564 dimer interface [polypeptide binding]; other site 640511016565 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640511016566 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 640511016567 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 640511016568 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640511016569 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640511016570 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 640511016571 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 640511016572 Methyltransferase domain; Region: Methyltransf_23; pfam13489 640511016573 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 640511016574 S-adenosylmethionine binding site [chemical binding]; other site 640511016575 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 640511016576 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 640511016577 Walker A/P-loop; other site 640511016578 ATP binding site [chemical binding]; other site 640511016579 Q-loop/lid; other site 640511016580 ABC transporter signature motif; other site 640511016581 Walker B; other site 640511016582 D-loop; other site 640511016583 H-loop/switch region; other site 640511016584 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 640511016585 putative carbohydrate binding site [chemical binding]; other site 640511016586 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 640511016587 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 640511016588 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640511016589 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 640511016590 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 640511016591 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 640511016592 Walker A/P-loop; other site 640511016593 ATP binding site [chemical binding]; other site 640511016594 Q-loop/lid; other site 640511016595 ABC transporter signature motif; other site 640511016596 Walker B; other site 640511016597 D-loop; other site 640511016598 H-loop/switch region; other site 640511016599 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 640511016600 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640511016601 HlyD family secretion protein; Region: HlyD_3; pfam13437 640511016602 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 640511016603 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 640511016604 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 640511016605 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 640511016606 ligand binding site [chemical binding]; other site 640511016607 flexible hinge region; other site 640511016608 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 640511016609 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 640511016610 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 640511016611 putative DNA binding site [nucleotide binding]; other site 640511016612 putative homodimer interface [polypeptide binding]; other site 640511016613 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 640511016614 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 640511016615 binding surface 640511016616 TPR repeat; Region: TPR_11; pfam13414 640511016617 TPR motif; other site 640511016618 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511016619 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511016620 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 640511016621 putative effector binding pocket; other site 640511016622 dimerization interface [polypeptide binding]; other site 640511016623 Protein of unknown function (DUF1348); Region: DUF1348; pfam07080 640511016624 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 640511016625 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 640511016626 phosphate binding site [ion binding]; other site 640511016627 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 640511016628 Ligand Binding Site [chemical binding]; other site 640511016629 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 640511016630 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 640511016631 Walker A/P-loop; other site 640511016632 ATP binding site [chemical binding]; other site 640511016633 Q-loop/lid; other site 640511016634 ABC transporter signature motif; other site 640511016635 Walker B; other site 640511016636 D-loop; other site 640511016637 H-loop/switch region; other site 640511016638 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640511016639 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 640511016640 TM-ABC transporter signature motif; other site 640511016641 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 640511016642 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640511016643 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 640511016644 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 640511016645 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 640511016646 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640511016647 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 640511016648 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640511016649 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 640511016650 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 640511016651 catalytic loop [active] 640511016652 iron binding site [ion binding]; other site 640511016653 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 640511016654 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640511016655 Predicted permease [General function prediction only]; Region: COG2985 640511016656 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 640511016657 TrkA-C domain; Region: TrkA_C; pfam02080 640511016658 TrkA-C domain; Region: TrkA_C; pfam02080 640511016659 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 640511016660 PTS system glucose-specific transporter subunits IIBC; Provisional; Region: PRK11089 640511016661 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 640511016662 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 640511016663 active site turn [active] 640511016664 phosphorylation site [posttranslational modification] 640511016665 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; cl00164 640511016666 active site turn [active] 640511016667 phosphorylation site [posttranslational modification] 640511016668 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 640511016669 HPr interaction site; other site 640511016670 glycerol kinase (GK) interaction site [polypeptide binding]; other site 640511016671 active site 640511016672 phosphorylation site [posttranslational modification] 640511016673 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 640511016674 dimerization domain swap beta strand [polypeptide binding]; other site 640511016675 regulatory protein interface [polypeptide binding]; other site 640511016676 active site 640511016677 regulatory phosphorylation site [posttranslational modification]; other site 640511016678 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 640511016679 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 640511016680 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 640511016681 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 640511016682 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 640511016683 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511016684 putative substrate translocation pore; other site 640511016685 Uncharacterized protein related to arylsulfate sulfotransferase involved in siderophore biosynthesis [General function prediction only]; Region: COG4321 640511016686 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 640511016687 intracellular protease, PfpI family; Region: PfpI; TIGR01382 640511016688 conserved cys residue [active] 640511016689 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640511016690 MarR family; Region: MarR_2; pfam12802 640511016691 putative 3-hydroxyphenylpropionic transporter MhpT; Provisional; Region: PRK11551 640511016692 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511016693 putative substrate translocation pore; other site 640511016694 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 640511016695 active site 640511016696 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640511016697 MarR family; Region: MarR_2; pfam12802 640511016698 p-hydroxycinnamoyl CoA hydratase/lyase; Validated; Region: PRK09120 640511016699 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 640511016700 substrate binding site [chemical binding]; other site 640511016701 oxyanion hole (OAH) forming residues; other site 640511016702 trimer interface [polypeptide binding]; other site 640511016703 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640511016704 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 640511016705 NAD(P) binding site [chemical binding]; other site 640511016706 catalytic residues [active] 640511016707 feruloyl-CoA synthase; Reviewed; Region: PRK08180 640511016708 Feruloyl-CoA synthetase (FCS); Region: FCS; cd05921 640511016709 acyl-activating enzyme (AAE) consensus motif; other site 640511016710 putative AMP binding site [chemical binding]; other site 640511016711 putative active site [active] 640511016712 putative CoA binding site [chemical binding]; other site 640511016713 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 640511016714 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 640511016715 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640511016716 active site 640511016717 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 640511016718 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511016719 NAD(P) binding site [chemical binding]; other site 640511016720 active site 640511016721 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 640511016722 VIT family; Region: VIT1; pfam01988 640511016723 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 640511016724 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 640511016725 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 640511016726 putative active site [active] 640511016727 heme pocket [chemical binding]; other site 640511016728 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 640511016729 dimer interface [polypeptide binding]; other site 640511016730 phosphorylation site [posttranslational modification] 640511016731 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511016732 ATP binding site [chemical binding]; other site 640511016733 G-X-G motif; other site 640511016734 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 640511016735 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511016736 active site 640511016737 phosphorylation site [posttranslational modification] 640511016738 intermolecular recognition site; other site 640511016739 dimerization interface [polypeptide binding]; other site 640511016740 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 640511016741 DNA binding residues [nucleotide binding] 640511016742 dimerization interface [polypeptide binding]; other site 640511016743 Response regulator receiver domain; Region: Response_reg; pfam00072 640511016744 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511016745 active site 640511016746 phosphorylation site [posttranslational modification] 640511016747 intermolecular recognition site; other site 640511016748 dimerization interface [polypeptide binding]; other site 640511016749 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 640511016750 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640511016751 HlyD family secretion protein; Region: HlyD_3; pfam13437 640511016752 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 640511016753 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640511016754 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 640511016755 Paraquat-inducible protein A; Region: PqiA; pfam04403 640511016756 Paraquat-inducible protein A; Region: PqiA; pfam04403 640511016757 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 640511016758 mce related protein; Region: MCE; pfam02470 640511016759 mce related protein; Region: MCE; pfam02470 640511016760 mce related protein; Region: MCE; pfam02470 640511016761 Protein of unknown function (DUF330); Region: DUF330; pfam03886 640511016762 Protein of unknown function (DUF3141); Region: DUF3141; pfam11339 640511016763 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 640511016764 phosphate acetyltransferase; Provisional; Region: PRK11890 640511016765 propionate/acetate kinase; Provisional; Region: PRK12379 640511016766 Acetokinase family; Region: Acetate_kinase; cl17229 640511016767 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07533 640511016768 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 640511016769 NAD binding site [chemical binding]; other site 640511016770 homotetramer interface [polypeptide binding]; other site 640511016771 homodimer interface [polypeptide binding]; other site 640511016772 substrate binding site [chemical binding]; other site 640511016773 active site 640511016774 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 640511016775 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 640511016776 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 640511016777 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 640511016778 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 640511016779 Sulfate transporter family; Region: Sulfate_transp; pfam00916 640511016780 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 640511016781 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 640511016782 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 640511016783 active site 640511016784 metal binding site [ion binding]; metal-binding site 640511016785 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 640511016786 active site 640511016787 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 640511016788 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 640511016789 Trp docking motif [polypeptide binding]; other site 640511016790 active site 640511016791 Cytochrome c553 [Energy production and conversion]; Region: COG2863 640511016792 Cytochrome c; Region: Cytochrom_C; cl11414 640511016793 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 640511016794 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 640511016795 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 640511016796 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 640511016797 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 640511016798 phosphoglycolate phosphatase; Provisional; Region: PRK13222 640511016799 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 640511016800 motif II; other site 640511016801 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 640511016802 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 640511016803 motif II; other site 640511016804 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 640511016805 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 640511016806 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 640511016807 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 640511016808 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 640511016809 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 640511016810 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 640511016811 structural tetrad; other site 640511016812 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 640511016813 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 640511016814 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640511016815 Cytochrome c; Region: Cytochrom_C; pfam00034 640511016816 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640511016817 Cytochrome c; Region: Cytochrom_C; pfam00034 640511016818 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 640511016819 putative catalytic site [active] 640511016820 putative metal binding site [ion binding]; other site 640511016821 putative phosphate binding site [ion binding]; other site 640511016822 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 640511016823 Catalytic domain, repeat 1, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_1; cd09140 640511016824 putative active site [active] 640511016825 catalytic site [active] 640511016826 Catalytic domain, repeat 2, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_2; cd09143 640511016827 putative active site [active] 640511016828 catalytic site [active] 640511016829 Uncharacterized conserved protein [Function unknown]; Region: COG0398 640511016830 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 640511016831 Protein of unknown function (DUF4242); Region: DUF4242; pfam14026 640511016832 Bacterial transcriptional activator domain; Region: BTAD; smart01043 640511016833 AAA ATPase domain; Region: AAA_16; pfam13191 640511016834 Polyketide cyclase / dehydrase and lipid transport; Region: Polyketide_cyc2; pfam10604 640511016835 hydrophobic ligand binding site; other site 640511016836 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 640511016837 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 640511016838 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 640511016839 Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily; Region: PBP1_ABC_sugar_binding_like_1; cd06300 640511016840 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640511016841 putative ligand binding site [chemical binding]; other site 640511016842 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 640511016843 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 640511016844 TM-ABC transporter signature motif; other site 640511016845 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640511016846 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 640511016847 TM-ABC transporter signature motif; other site 640511016848 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 640511016849 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 640511016850 Walker A/P-loop; other site 640511016851 ATP binding site [chemical binding]; other site 640511016852 Q-loop/lid; other site 640511016853 ABC transporter signature motif; other site 640511016854 Walker B; other site 640511016855 D-loop; other site 640511016856 H-loop/switch region; other site 640511016857 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 640511016858 Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily; Region: PBP1_ABC_sugar_binding_like_1; cd06300 640511016859 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640511016860 putative ligand binding site [chemical binding]; other site 640511016861 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 640511016862 N- and C-terminal domain interface [polypeptide binding]; other site 640511016863 D-xylulose kinase; Region: XylB; TIGR01312 640511016864 active site 640511016865 MgATP binding site [chemical binding]; other site 640511016866 catalytic site [active] 640511016867 metal binding site [ion binding]; metal-binding site 640511016868 xylulose binding site [chemical binding]; other site 640511016869 homodimer interface [polypeptide binding]; other site 640511016870 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 640511016871 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 640511016872 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511016873 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511016874 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 640511016875 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640511016876 Walker A/P-loop; other site 640511016877 ATP binding site [chemical binding]; other site 640511016878 Q-loop/lid; other site 640511016879 ABC transporter signature motif; other site 640511016880 Walker B; other site 640511016881 D-loop; other site 640511016882 H-loop/switch region; other site 640511016883 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 640511016884 Sorbitol dehydrogenase; Region: sorbitol_DH; cd05285 640511016885 inhibitor binding site; inhibition site 640511016886 catalytic Zn binding site [ion binding]; other site 640511016887 structural Zn binding site [ion binding]; other site 640511016888 NADP binding site [chemical binding]; other site 640511016889 tetramer interface [polypeptide binding]; other site 640511016890 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 640511016891 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511016892 dimer interface [polypeptide binding]; other site 640511016893 conserved gate region; other site 640511016894 putative PBP binding loops; other site 640511016895 ABC-ATPase subunit interface; other site 640511016896 ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]; Region: UgpA; COG1175 640511016897 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 640511016898 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 640511016899 PRC-barrel domain; Region: PRC; pfam05239 640511016900 DNA-binding transcriptional regulator GlcC; Provisional; Region: PRK09990 640511016901 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511016902 DNA-binding site [nucleotide binding]; DNA binding site 640511016903 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 640511016904 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 640511016905 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511016906 putative substrate translocation pore; other site 640511016907 D-lactate dehydrogenase; Provisional; Region: PRK11183 640511016908 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 640511016909 Copper resistance protein D; Region: CopD; cl00563 640511016910 CopC domain; Region: CopC; pfam04234 640511016911 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 640511016912 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 640511016913 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 640511016914 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 640511016915 Outer membrane efflux protein; Region: OEP; pfam02321 640511016916 Outer membrane efflux protein; Region: OEP; pfam02321 640511016917 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 640511016918 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 640511016919 Trp docking motif [polypeptide binding]; other site 640511016920 putative active site [active] 640511016921 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 640511016922 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 640511016923 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 640511016924 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 640511016925 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 640511016926 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 640511016927 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511016928 NAD(P) binding site [chemical binding]; other site 640511016929 active site 640511016930 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 640511016931 classical (c) SDRs; Region: SDR_c; cd05233 640511016932 NAD(P) binding site [chemical binding]; other site 640511016933 active site 640511016934 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511016935 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511016936 LysR substrate binding domain; Region: LysR_substrate; pfam03466 640511016937 dimerization interface [polypeptide binding]; other site 640511016938 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 640511016939 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 640511016940 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 640511016941 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 640511016942 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 640511016943 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 640511016944 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 640511016945 shikimate binding site; other site 640511016946 NAD(P) binding site [chemical binding]; other site 640511016947 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511016948 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 640511016949 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 640511016950 putative C-terminal domain interface [polypeptide binding]; other site 640511016951 putative GSH binding site (G-site) [chemical binding]; other site 640511016952 putative dimer interface [polypeptide binding]; other site 640511016953 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 640511016954 putative N-terminal domain interface [polypeptide binding]; other site 640511016955 putative dimer interface [polypeptide binding]; other site 640511016956 putative substrate binding pocket (H-site) [chemical binding]; other site 640511016957 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640511016958 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640511016959 short chain dehydrogenase; Provisional; Region: PRK12747 640511016960 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511016961 NAD(P) binding site [chemical binding]; other site 640511016962 active site 640511016963 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 640511016964 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511016965 DNA-binding site [nucleotide binding]; DNA binding site 640511016966 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 640511016967 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511016968 homodimer interface [polypeptide binding]; other site 640511016969 catalytic residue [active] 640511016970 MSMEG_0572 family protein; Region: MSMEG_0572_fam; TIGR04044 640511016971 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 640511016972 Predicted amidohydrolase [General function prediction only]; Region: COG0388 640511016973 putative active site [active] 640511016974 catalytic triad [active] 640511016975 putative dimer interface [polypeptide binding]; other site 640511016976 radical SAM protein, MSMEG_0568 family; Region: rSAM_MSMEG_0568; TIGR04043 640511016977 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 640511016978 FeS/SAM binding site; other site 640511016979 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640511016980 Coenzyme A binding pocket [chemical binding]; other site 640511016981 AIR synthase-related protein, sll0787 family; Region: AIR_rel_sll0787; TIGR04049 640511016982 AIR synthase (PurM) related protein, subgroup 3 of unknown function. The family of PurM related proteins includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM synthase and Selenophosphate synthetase (SelD). They all contain two...; Region: PurM-like3; cd02192 640511016983 dimerization interface [polypeptide binding]; other site 640511016984 putative ATP binding site [chemical binding]; other site 640511016985 glycosyltransferase, MSMEG_0565 family; Region: MSMEG_0565_glyc; TIGR04047 640511016986 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 640511016987 MSMEG_0570 family protein; Region: MSMEG_0570_fam; TIGR04042 640511016988 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 640511016989 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 640511016990 probable biosynthetic protein, Pnap_2097 family; Region: biosn_Pnap_2097; TIGR04099 640511016991 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 640511016992 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM)-like family; contains proteins similar to MCM, and the large subunit of Streptomyces coenzyme B12-dependent isobutyryl-CoA mutase (ICM). MCM catalyzes the isomerization of...; Region: MM_CoA_mutase; cl00817 640511016993 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 640511016994 B12 binding site [chemical binding]; other site 640511016995 cobalt ligand [ion binding]; other site 640511016996 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640511016997 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 640511016998 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640511016999 conserved cys residue [active] 640511017000 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511017001 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511017002 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 640511017003 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 640511017004 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 640511017005 putative acyltransferase; Provisional; Region: PRK05790 640511017006 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 640511017007 dimer interface [polypeptide binding]; other site 640511017008 active site 640511017009 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 640511017010 putative active site pocket [active] 640511017011 dimerization interface [polypeptide binding]; other site 640511017012 putative catalytic residue [active] 640511017013 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511017014 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511017015 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 640511017016 putative effector binding pocket; other site 640511017017 putative dimerization interface [polypeptide binding]; other site 640511017018 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640511017019 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 640511017020 Bacterial transcriptional regulator; Region: IclR; pfam01614 640511017021 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 640511017022 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_13; cd08517 640511017023 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 640511017024 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511017025 dimer interface [polypeptide binding]; other site 640511017026 conserved gate region; other site 640511017027 putative PBP binding loops; other site 640511017028 ABC-ATPase subunit interface; other site 640511017029 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 640511017030 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511017031 dimer interface [polypeptide binding]; other site 640511017032 conserved gate region; other site 640511017033 putative PBP binding loops; other site 640511017034 ABC-ATPase subunit interface; other site 640511017035 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 640511017036 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640511017037 Walker A/P-loop; other site 640511017038 ATP binding site [chemical binding]; other site 640511017039 Q-loop/lid; other site 640511017040 ABC transporter signature motif; other site 640511017041 Walker B; other site 640511017042 D-loop; other site 640511017043 H-loop/switch region; other site 640511017044 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640511017045 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 640511017046 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640511017047 Walker A/P-loop; other site 640511017048 ATP binding site [chemical binding]; other site 640511017049 Q-loop/lid; other site 640511017050 ABC transporter signature motif; other site 640511017051 Walker B; other site 640511017052 D-loop; other site 640511017053 H-loop/switch region; other site 640511017054 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640511017055 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 640511017056 active site 640511017057 dimethyl sulfone monooxygenase SfnG; Region: LLM_DMSO2_sfnG; TIGR04021 640511017058 dimer interface [polypeptide binding]; other site 640511017059 non-prolyl cis peptide bond; other site 640511017060 insertion regions; other site 640511017061 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640511017062 active site 640511017063 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 640511017064 active site residue [active] 640511017065 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 640511017066 active site residue [active] 640511017067 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 640511017068 active site residue [active] 640511017069 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 640511017070 active site residue [active] 640511017071 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 640511017072 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 640511017073 active site 640511017074 non-prolyl cis peptide bond; other site 640511017075 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 640511017076 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511017077 dimer interface [polypeptide binding]; other site 640511017078 conserved gate region; other site 640511017079 putative PBP binding loops; other site 640511017080 ABC-ATPase subunit interface; other site 640511017081 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 640511017082 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 640511017083 Walker A/P-loop; other site 640511017084 ATP binding site [chemical binding]; other site 640511017085 Q-loop/lid; other site 640511017086 ABC transporter signature motif; other site 640511017087 Walker B; other site 640511017088 D-loop; other site 640511017089 H-loop/switch region; other site 640511017090 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 640511017091 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 640511017092 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 640511017093 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 640511017094 active site residue [active] 640511017095 Member of the Rhodanese Homology Domain superfamily, repeat 2. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 2nd repeat which does contain the putative catalytic...; Region: 4RHOD_Repeat_2; cd01533 640511017096 active site residue [active] 640511017097 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 640511017098 active site residue [active] 640511017099 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 640511017100 active site residue [active] 640511017101 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 640511017102 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 640511017103 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 640511017104 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 640511017105 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 640511017106 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511017107 dimer interface [polypeptide binding]; other site 640511017108 conserved gate region; other site 640511017109 putative PBP binding loops; other site 640511017110 ABC-ATPase subunit interface; other site 640511017111 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 640511017112 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511017113 dimer interface [polypeptide binding]; other site 640511017114 conserved gate region; other site 640511017115 putative PBP binding loops; other site 640511017116 ABC-ATPase subunit interface; other site 640511017117 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 640511017118 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 640511017119 Walker A/P-loop; other site 640511017120 ATP binding site [chemical binding]; other site 640511017121 Q-loop/lid; other site 640511017122 ABC transporter signature motif; other site 640511017123 Walker B; other site 640511017124 D-loop; other site 640511017125 H-loop/switch region; other site 640511017126 TOBE domain; Region: TOBE_2; pfam08402 640511017127 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 640511017128 oligomerisation interface [polypeptide binding]; other site 640511017129 mobile loop; other site 640511017130 roof hairpin; other site 640511017131 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 640511017132 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 640511017133 ring oligomerisation interface [polypeptide binding]; other site 640511017134 ATP/Mg binding site [chemical binding]; other site 640511017135 stacking interactions; other site 640511017136 hinge regions; other site 640511017137 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 640511017138 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 640511017139 putative dimer interface [polypeptide binding]; other site 640511017140 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 640511017141 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 640511017142 putative dimer interface [polypeptide binding]; other site 640511017143 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 640511017144 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 640511017145 putative dimer interface [polypeptide binding]; other site 640511017146 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 640511017147 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640511017148 Walker A/P-loop; other site 640511017149 ATP binding site [chemical binding]; other site 640511017150 Q-loop/lid; other site 640511017151 ABC transporter signature motif; other site 640511017152 Walker B; other site 640511017153 D-loop; other site 640511017154 H-loop/switch region; other site 640511017155 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 640511017156 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640511017157 Walker A/P-loop; other site 640511017158 ATP binding site [chemical binding]; other site 640511017159 Q-loop/lid; other site 640511017160 ABC transporter signature motif; other site 640511017161 Walker B; other site 640511017162 D-loop; other site 640511017163 H-loop/switch region; other site 640511017164 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640511017165 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 640511017166 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 640511017167 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511017168 dimer interface [polypeptide binding]; other site 640511017169 conserved gate region; other site 640511017170 putative PBP binding loops; other site 640511017171 ABC-ATPase subunit interface; other site 640511017172 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 640511017173 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511017174 dimer interface [polypeptide binding]; other site 640511017175 conserved gate region; other site 640511017176 putative PBP binding loops; other site 640511017177 ABC-ATPase subunit interface; other site 640511017178 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 640511017179 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 640511017180 D-alanyl-D-alanine dipeptidase; Provisional; Region: PRK10178 640511017181 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 640511017182 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511017183 dimer interface [polypeptide binding]; other site 640511017184 conserved gate region; other site 640511017185 putative PBP binding loops; other site 640511017186 ABC-ATPase subunit interface; other site 640511017187 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511017188 dimer interface [polypeptide binding]; other site 640511017189 conserved gate region; other site 640511017190 putative PBP binding loops; other site 640511017191 ABC-ATPase subunit interface; other site 640511017192 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 640511017193 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 640511017194 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 640511017195 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640511017196 Walker A/P-loop; other site 640511017197 ATP binding site [chemical binding]; other site 640511017198 Q-loop/lid; other site 640511017199 ABC transporter signature motif; other site 640511017200 Walker B; other site 640511017201 D-loop; other site 640511017202 H-loop/switch region; other site 640511017203 TOBE domain; Region: TOBE_2; pfam08402 640511017204 Putative catalytic domain of uncharacterized prokaryotic polysaccharide deacetylases similar to bacterial PuuE allantoinases; Region: CE4_PuuE_like; cd10979 640511017205 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 640511017206 putative active site [active] 640511017207 putative catalytic site [active] 640511017208 Transcriptional regulators [Transcription]; Region: GntR; COG1802 640511017209 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511017210 DNA-binding site [nucleotide binding]; DNA binding site 640511017211 FCD domain; Region: FCD; pfam07729 640511017212 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 640511017213 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 640511017214 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 640511017215 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 640511017216 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 640511017217 active site 640511017218 non-prolyl cis peptide bond; other site 640511017219 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 640511017220 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 640511017221 Flavin binding site [chemical binding]; other site 640511017222 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 640511017223 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 640511017224 Walker A/P-loop; other site 640511017225 ATP binding site [chemical binding]; other site 640511017226 Q-loop/lid; other site 640511017227 ABC transporter signature motif; other site 640511017228 Walker B; other site 640511017229 D-loop; other site 640511017230 H-loop/switch region; other site 640511017231 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 640511017232 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640511017233 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 640511017234 TM-ABC transporter signature motif; other site 640511017235 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 640511017236 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 640511017237 Flavin binding site [chemical binding]; other site 640511017238 Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_methylthioribose_binding_like; cd06305 640511017239 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640511017240 putative ligand binding site [chemical binding]; other site 640511017241 Uncharacterized protein family (UPF0156); Region: RHH_2; pfam03693 640511017242 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 640511017243 Domain of unknown function (DUF3315); Region: DUF3315; pfam11776 640511017244 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640511017245 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 640511017246 Domain of unknown function DUF20; Region: UPF0118; pfam01594 640511017247 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 640511017248 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 640511017249 Cupin domain; Region: Cupin_2; pfam07883 640511017250 NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) domain, which varies in orientation with respect to the NAD(P)...; Region: FNR_like_3; cd06198 640511017251 FAD binding pocket [chemical binding]; other site 640511017252 FAD binding motif [chemical binding]; other site 640511017253 phosphate binding motif [ion binding]; other site 640511017254 beta-alpha-beta structure motif; other site 640511017255 NAD binding pocket [chemical binding]; other site 640511017256 Purine nucleoside permease (NUP); Region: NUP; pfam06516 640511017257 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 640511017258 DNA-binding interface [nucleotide binding]; DNA binding site 640511017259 Helix-turn-helix domain; Region: HTH_38; pfam13936 640511017260 Homeodomain-like domain; Region: HTH_32; pfam13565 640511017261 Integrase core domain; Region: rve; pfam00665 640511017262 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511017263 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511017264 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 640511017265 dimerization interface [polypeptide binding]; other site 640511017266 metabolite-proton symporter; Region: 2A0106; TIGR00883 640511017267 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 640511017268 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 640511017269 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 640511017270 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 640511017271 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 640511017272 substrate binding site [chemical binding]; other site 640511017273 oxyanion hole (OAH) forming residues; other site 640511017274 trimer interface [polypeptide binding]; other site 640511017275 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 640511017276 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 640511017277 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 640511017278 acyl-activating enzyme (AAE) consensus motif; other site 640511017279 AMP binding site [chemical binding]; other site 640511017280 active site 640511017281 CoA binding site [chemical binding]; other site 640511017282 4-hydroxybenzoyl-CoA reductase, gamma subunit; Region: 4hydroxCoAred; TIGR03193 640511017283 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 640511017284 catalytic loop [active] 640511017285 iron binding site [ion binding]; other site 640511017286 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 640511017287 FAD binding domain in molybdopterin dehydrogenase; Region: FAD_binding_5; pfam00941 640511017288 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 640511017289 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 640511017290 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 640511017291 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640511017292 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 640511017293 putative hydrophobic ligand binding site [chemical binding]; other site 640511017294 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 640511017295 Flavoprotein; Region: Flavoprotein; pfam02441 640511017296 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; pfam01977 640511017297 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511017298 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511017299 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 640511017300 dimerization interface [polypeptide binding]; other site 640511017301 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640511017302 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 640511017303 NAD(P) binding site [chemical binding]; other site 640511017304 catalytic residues [active] 640511017305 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 640511017306 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 640511017307 XdhC Rossmann domain; Region: XdhC_C; pfam13478 640511017308 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 640511017309 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511017310 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 640511017311 dimerization interface [polypeptide binding]; other site 640511017312 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 640511017313 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 640511017314 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 640511017315 active site 640511017316 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511017317 metabolite-proton symporter; Region: 2A0106; TIGR00883 640511017318 putative substrate translocation pore; other site 640511017319 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]; Region: COG3970 640511017320 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 640511017321 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 640511017322 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 640511017323 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 640511017324 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511017325 (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 640511017326 dimer interaction site [polypeptide binding]; other site 640511017327 substrate-binding tunnel; other site 640511017328 active site 640511017329 catalytic site [active] 640511017330 substrate binding site [chemical binding]; other site 640511017331 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 640511017332 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640511017333 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 640511017334 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640511017335 active site 640511017336 (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 640511017337 dimer interaction site [polypeptide binding]; other site 640511017338 substrate-binding tunnel; other site 640511017339 active site 640511017340 catalytic site [active] 640511017341 substrate binding site [chemical binding]; other site 640511017342 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 640511017343 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 640511017344 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 640511017345 DctM-like transporters; Region: DctM; pfam06808 640511017346 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 640511017347 enoyl-CoA hydratase-isomerase; Provisional; Region: PRK09674 640511017348 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 640511017349 substrate binding site [chemical binding]; other site 640511017350 oxyanion hole (OAH) forming residues; other site 640511017351 trimer interface [polypeptide binding]; other site 640511017352 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 640511017353 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640511017354 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK06263 640511017355 L-aspartate oxidase; Provisional; Region: PRK06175 640511017356 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 640511017357 Transposase; Region: DEDD_Tnp_IS110; pfam01548 640511017358 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 640511017359 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 640511017360 lytic murein transglycosylase; Provisional; Region: PRK11619 640511017361 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 640511017362 N-acetyl-D-glucosamine binding site [chemical binding]; other site 640511017363 catalytic residue [active] 640511017364 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 640511017365 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 640511017366 dimer interface [polypeptide binding]; other site 640511017367 phosphorylation site [posttranslational modification] 640511017368 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511017369 ATP binding site [chemical binding]; other site 640511017370 Mg2+ binding site [ion binding]; other site 640511017371 G-X-G motif; other site 640511017372 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 640511017373 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511017374 active site 640511017375 phosphorylation site [posttranslational modification] 640511017376 intermolecular recognition site; other site 640511017377 dimerization interface [polypeptide binding]; other site 640511017378 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 640511017379 DNA binding site [nucleotide binding] 640511017380 Autotransporter beta-domain; Region: Autotransporter; pfam03797 640511017381 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 640511017382 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640511017383 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 640511017384 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 640511017385 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640511017386 hydroxyglutarate oxidase; Provisional; Region: PRK11728 640511017387 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 640511017388 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511017389 dimer interface [polypeptide binding]; other site 640511017390 conserved gate region; other site 640511017391 putative PBP binding loops; other site 640511017392 ABC-ATPase subunit interface; other site 640511017393 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511017394 putative PBP binding loops; other site 640511017395 dimer interface [polypeptide binding]; other site 640511017396 ABC-ATPase subunit interface; other site 640511017397 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 640511017398 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640511017399 Walker A/P-loop; other site 640511017400 ATP binding site [chemical binding]; other site 640511017401 Q-loop/lid; other site 640511017402 ABC transporter signature motif; other site 640511017403 Walker B; other site 640511017404 D-loop; other site 640511017405 H-loop/switch region; other site 640511017406 TOBE domain; Region: TOBE_2; pfam08402 640511017407 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 640511017408 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 640511017409 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 640511017410 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511017411 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 640511017412 dimerization interface [polypeptide binding]; other site 640511017413 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511017414 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511017415 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 640511017416 dimerization interface [polypeptide binding]; other site 640511017417 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 640511017418 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511017419 putative substrate translocation pore; other site 640511017420 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511017421 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640511017422 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 640511017423 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 640511017424 Integrase core domain; Region: rve; pfam00665 640511017425 HAMP domain; Region: HAMP; pfam00672 640511017426 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 640511017427 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640511017428 dimer interface [polypeptide binding]; other site 640511017429 putative CheW interface [polypeptide binding]; other site 640511017430 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640511017431 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 640511017432 trimer interface [polypeptide binding]; other site 640511017433 eyelet of channel; other site 640511017434 3-(3-hydroxyphenyl)propionate hydroxylase; Validated; Region: mhpA; PRK06183 640511017435 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 640511017436 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 640511017437 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 640511017438 SnoaL-like domain; Region: SnoaL_4; pfam13577 640511017439 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 640511017440 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 640511017441 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 640511017442 3-(2,3-dihydroxyphenyl)propionate dioxygenase; Provisional; Region: mhpB; PRK13370 640511017443 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 640511017444 active site 640511017445 metal binding site [ion binding]; metal-binding site 640511017446 benzoate transport; Region: 2A0115; TIGR00895 640511017447 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511017448 putative substrate translocation pore; other site 640511017449 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511017450 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511017451 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 640511017452 NAD(P) binding site [chemical binding]; other site 640511017453 active site 640511017454 3-(3-hydroxyphenyl)propionate hydroxylase; Validated; Region: mhpA; PRK06183 640511017455 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 640511017456 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 640511017457 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 640511017458 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 640511017459 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 640511017460 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640511017461 Bacterial transcriptional regulator; Region: IclR; pfam01614 640511017462 The single-domain 2,3-dihydroxybiphenyl 1,2-dioxygenases (BphC, EC 1.13.11.39) from Rhodococcus globerulus P6, BphC2-RGP6 and BphC3-RGP6, and similar proteins; Region: BphC2-C3-RGP6_C_like; cd08348 640511017463 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640511017464 putative active site [active] 640511017465 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 640511017466 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 640511017467 3-(3-hydroxyphenyl)propionate hydroxylase; Validated; Region: mhpA; PRK06183 640511017468 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 640511017469 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511017470 metabolite-proton symporter; Region: 2A0106; TIGR00883 640511017471 putative substrate translocation pore; other site 640511017472 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 640511017473 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 640511017474 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511017475 putative substrate translocation pore; other site 640511017476 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 640511017477 active site 640511017478 catalytic residues [active] 640511017479 metal binding site [ion binding]; metal-binding site 640511017480 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 640511017481 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 640511017482 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 640511017483 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 640511017484 The single-domain 2,3-dihydroxybiphenyl 1,2-dioxygenases (BphC, EC 1.13.11.39) from Rhodococcus globerulus P6, BphC2-RGP6 and BphC3-RGP6, and similar proteins; Region: BphC2-C3-RGP6_C_like; cd08348 640511017485 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640511017486 putative active site [active] 640511017487 putative metal binding site [ion binding]; other site 640511017488 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 640511017489 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640511017490 Bacterial transcriptional regulator; Region: IclR; pfam01614 640511017491 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 640511017492 Integrase core domain; Region: rve; pfam00665 640511017493 Ribosomal protein L35Ae; Region: Ribosomal_L35Ae; cl01033 640511017494 Transcriptional regulators [Transcription]; Region: GntR; COG1802 640511017495 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511017496 DNA-binding site [nucleotide binding]; DNA binding site 640511017497 FCD domain; Region: FCD; pfam07729 640511017498 Transposase; Region: DEDD_Tnp_IS110; pfam01548 640511017499 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 640511017500 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 640511017501 Transposase; Region: DEDD_Tnp_IS110; pfam01548 640511017502 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 640511017503 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 640511017504 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 640511017505 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 640511017506 active site 640511017507 non-prolyl cis peptide bond; other site 640511017508 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 640511017509 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640511017510 active site 640511017511 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 640511017512 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 640511017513 Flavin binding site [chemical binding]; other site 640511017514 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511017515 dimer interface [polypeptide binding]; other site 640511017516 conserved gate region; other site 640511017517 ABC-ATPase subunit interface; other site 640511017518 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 640511017519 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 640511017520 Walker A/P-loop; other site 640511017521 ATP binding site [chemical binding]; other site 640511017522 Q-loop/lid; other site 640511017523 ABC transporter signature motif; other site 640511017524 Walker B; other site 640511017525 D-loop; other site 640511017526 H-loop/switch region; other site 640511017527 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 640511017528 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 640511017529 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 640511017530 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 640511017531 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 640511017532 dimer interface [polypeptide binding]; other site 640511017533 active site 640511017534 non-prolyl cis peptide bond; other site 640511017535 insertion regions; other site 640511017536 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 640511017537 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 640511017538 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 640511017539 Member of the Rhodanese Homology Domain superfamily, repeat 1. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 1st repeat which does not contain the putative...; Region: 4RHOD_Repeat_1; cd01532 640511017540 active site residue [active] 640511017541 Member of the Rhodanese Homology Domain superfamily, repeat 2. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 2nd repeat which does contain the putative catalytic...; Region: 4RHOD_Repeat_2; cd01533 640511017542 active site residue [active] 640511017543 Member of the Rhodanese Homology Domain superfamily, repeat 3. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 3rd repeat which does not contain the putative...; Region: 4RHOD_Repeat_3; cd01534 640511017544 active site residue [active] 640511017545 Member of the Rhodanese Homology Domain superfamily, repeat 4. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 4th repeat which, in general, contains the putative...; Region: 4RHOD_Repeat_4; cd01535 640511017546 active site residue [active] 640511017547 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511017548 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511017549 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 640511017550 dimerization interface [polypeptide binding]; other site 640511017551 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 640511017552 substrate binding pocket [chemical binding]; other site 640511017553 membrane-bound complex binding site; other site 640511017554 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 640511017555 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 640511017556 active site 640511017557 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 640511017558 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 640511017559 dimer interface [polypeptide binding]; other site 640511017560 active site 640511017561 non-prolyl cis peptide bond; other site 640511017562 insertion regions; other site 640511017563 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 640511017564 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 640511017565 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 640511017566 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 640511017567 Walker A/P-loop; other site 640511017568 ATP binding site [chemical binding]; other site 640511017569 Q-loop/lid; other site 640511017570 ABC transporter signature motif; other site 640511017571 Walker B; other site 640511017572 D-loop; other site 640511017573 H-loop/switch region; other site 640511017574 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 640511017575 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511017576 dimer interface [polypeptide binding]; other site 640511017577 ABC-ATPase subunit interface; other site 640511017578 putative PBP binding loops; other site 640511017579 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 640511017580 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 640511017581 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 640511017582 putative FMN binding site [chemical binding]; other site 640511017583 OsmC-like protein; Region: OsmC; pfam02566 640511017584 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 640511017585 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640511017586 active site 640511017587 dimethyl sulfone monooxygenase SfnG; Region: LLM_DMSO2_sfnG; TIGR04021 640511017588 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 640511017589 active site 640511017590 dimer interface [polypeptide binding]; other site 640511017591 non-prolyl cis peptide bond; other site 640511017592 insertion regions; other site 640511017593 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 640511017594 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 640511017595 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_13; cd08517 640511017596 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 640511017597 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 640511017598 active site 640511017599 catalytic tetrad [active] 640511017600 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 640511017601 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_13; cd08517 640511017602 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 640511017603 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640511017604 Walker A/P-loop; other site 640511017605 ATP binding site [chemical binding]; other site 640511017606 Q-loop/lid; other site 640511017607 ABC transporter signature motif; other site 640511017608 Walker B; other site 640511017609 D-loop; other site 640511017610 H-loop/switch region; other site 640511017611 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640511017612 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640511017613 Walker A/P-loop; other site 640511017614 ATP binding site [chemical binding]; other site 640511017615 Q-loop/lid; other site 640511017616 ABC transporter signature motif; other site 640511017617 Walker B; other site 640511017618 D-loop; other site 640511017619 H-loop/switch region; other site 640511017620 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640511017621 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 640511017622 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511017623 dimer interface [polypeptide binding]; other site 640511017624 conserved gate region; other site 640511017625 putative PBP binding loops; other site 640511017626 ABC-ATPase subunit interface; other site 640511017627 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 640511017628 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511017629 dimer interface [polypeptide binding]; other site 640511017630 conserved gate region; other site 640511017631 putative PBP binding loops; other site 640511017632 ABC-ATPase subunit interface; other site 640511017633 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 640511017634 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_13; cd08517 640511017635 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 640511017636 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 640511017637 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 640511017638 Walker A/P-loop; other site 640511017639 ATP binding site [chemical binding]; other site 640511017640 Q-loop/lid; other site 640511017641 ABC transporter signature motif; other site 640511017642 Walker B; other site 640511017643 D-loop; other site 640511017644 H-loop/switch region; other site 640511017645 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 640511017646 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 640511017647 Walker A/P-loop; other site 640511017648 ATP binding site [chemical binding]; other site 640511017649 Q-loop/lid; other site 640511017650 ABC transporter signature motif; other site 640511017651 Walker B; other site 640511017652 D-loop; other site 640511017653 H-loop/switch region; other site 640511017654 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640511017655 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 640511017656 TM-ABC transporter signature motif; other site 640511017657 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 640511017658 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 640511017659 TM-ABC transporter signature motif; other site 640511017660 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 640511017661 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems; Region: PBP1_ABC_ligand_binding_like_14; cd06349 640511017662 putative ligand binding site [chemical binding]; other site 640511017663 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 640511017664 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511017665 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 640511017666 dimerization interface [polypeptide binding]; other site 640511017667 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 640511017668 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 640511017669 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4950; cl17731 640511017670 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 640511017671 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 640511017672 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 640511017673 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems; Region: PBP1_ABC_ligand_binding_like_14; cd06349 640511017674 putative ligand binding site [chemical binding]; other site 640511017675 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 640511017676 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 640511017677 active site 640511017678 non-prolyl cis peptide bond; other site 640511017679 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 640511017680 oligomerisation interface [polypeptide binding]; other site 640511017681 mobile loop; other site 640511017682 roof hairpin; other site 640511017683 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 640511017684 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 640511017685 ring oligomerisation interface [polypeptide binding]; other site 640511017686 ATP/Mg binding site [chemical binding]; other site 640511017687 stacking interactions; other site 640511017688 hinge regions; other site 640511017689 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 640511017690 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 640511017691 active site 640511017692 non-prolyl cis peptide bond; other site 640511017693 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 640511017694 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 640511017695 active site 640511017696 non-prolyl cis peptide bond; other site 640511017697 Protein of unknown function (DUF3088); Region: DUF3088; pfam11287 640511017698 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 640511017699 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 640511017700 Flavin binding site [chemical binding]; other site 640511017701 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 640511017702 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_13; cd08517 640511017703 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 640511017704 dimerization interface [polypeptide binding]; other site 640511017705 substrate binding pocket [chemical binding]; other site 640511017706 TIGR03118 family protein; Region: PEPCTERM_chp_1 640511017707 Phage integrase protein; Region: DUF3701; pfam12482 640511017708 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 640511017709 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 640511017710 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 640511017711 Int/Topo IB signature motif; other site 640511017712 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 640511017713 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 640511017714 Walker A/P-loop; other site 640511017715 ATP binding site [chemical binding]; other site 640511017716 Q-loop/lid; other site 640511017717 ABC transporter signature motif; other site 640511017718 Walker B; other site 640511017719 D-loop; other site 640511017720 H-loop/switch region; other site 640511017721 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640511017722 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 640511017723 TM-ABC transporter signature motif; other site 640511017724 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 640511017725 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640511017726 ligand binding site [chemical binding]; other site 640511017727 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640511017728 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 640511017729 catalytic site [active] 640511017730 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 640511017731 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640511017732 malic enzyme; Reviewed; Region: PRK12861 640511017733 Malic enzyme, N-terminal domain; Region: malic; pfam00390 640511017734 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 640511017735 putative NAD(P) binding site [chemical binding]; other site 640511017736 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 640511017737 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511017738 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511017739 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 640511017740 dimerization interface [polypeptide binding]; other site 640511017741 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511017742 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511017743 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 640511017744 dimerization interface [polypeptide binding]; other site 640511017745 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 640511017746 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes Similar to D-Serine Dehydratase and D-Threonine Aldolase, Unknown Group 1; Region: PLPDE_III_DSD_D-TA_like_1; cd06812 640511017747 dimer interface [polypeptide binding]; other site 640511017748 active site 640511017749 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 640511017750 substrate binding site [chemical binding]; other site 640511017751 catalytic residue [active] 640511017752 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 640511017753 homotrimer interaction site [polypeptide binding]; other site 640511017754 putative active site [active] 640511017755 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 640511017756 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 640511017757 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 640511017758 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640511017759 catalytic residue [active] 640511017760 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640511017761 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640511017762 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 640511017763 EamA-like transporter family; Region: EamA; pfam00892 640511017764 EamA-like transporter family; Region: EamA; pfam00892 640511017765 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640511017766 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 640511017767 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640511017768 classical (c) SDRs; Region: SDR_c; cd05233 640511017769 NAD(P) binding site [chemical binding]; other site 640511017770 active site 640511017771 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4339 640511017772 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 640511017773 putative metal binding site [ion binding]; other site 640511017774 putative homodimer interface [polypeptide binding]; other site 640511017775 putative homotetramer interface [polypeptide binding]; other site 640511017776 putative homodimer-homodimer interface [polypeptide binding]; other site 640511017777 putative allosteric switch controlling residues; other site 640511017778 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 640511017779 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 640511017780 substrate binding site [chemical binding]; other site 640511017781 catalytic Zn binding site [ion binding]; other site 640511017782 NAD binding site [chemical binding]; other site 640511017783 structural Zn binding site [ion binding]; other site 640511017784 dimer interface [polypeptide binding]; other site 640511017785 Transglutaminase-like superfamily; Region: Transglut_core; cl17362 640511017786 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 640511017787 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 640511017788 DNA binding site [nucleotide binding] 640511017789 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 640511017790 cyclase homology domain; Region: CHD; cd07302 640511017791 nucleotidyl binding site; other site 640511017792 metal binding site [ion binding]; metal-binding site 640511017793 dimer interface [polypeptide binding]; other site 640511017794 AAA ATPase domain; Region: AAA_16; pfam13191 640511017795 Predicted ATPase [General function prediction only]; Region: COG3899 640511017796 Predicted ATPase [General function prediction only]; Region: COG3903 640511017797 Ubiquitin-like proteins; Region: UBQ; cl00155 640511017798 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 640511017799 EamA-like transporter family; Region: EamA; pfam00892 640511017800 EamA-like transporter family; Region: EamA; pfam00892 640511017801 MarR family; Region: MarR_2; pfam12802 640511017802 Transcriptional regulators [Transcription]; Region: MarR; COG1846 640511017803 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640511017804 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 640511017805 Coenzyme A binding pocket [chemical binding]; other site 640511017806 BON domain; Region: BON; pfam04972 640511017807 High potential iron-sulfur protein; Region: HIPIP; pfam01355 640511017808 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 640511017809 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 640511017810 active site 640511017811 HIGH motif; other site 640511017812 dimer interface [polypeptide binding]; other site 640511017813 KMSKS motif; other site 640511017814 dihydroxy-acid dehydratase; Validated; Region: PRK06131 640511017815 Hemerythrin; Region: Hemerythrin; cd12107 640511017816 Fe binding site [ion binding]; other site 640511017817 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 640511017818 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 640511017819 E3 interaction surface; other site 640511017820 lipoyl attachment site [posttranslational modification]; other site 640511017821 e3 binding domain; Region: E3_binding; pfam02817 640511017822 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 640511017823 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 640511017824 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 640511017825 alpha subunit interface [polypeptide binding]; other site 640511017826 TPP binding site [chemical binding]; other site 640511017827 heterodimer interface [polypeptide binding]; other site 640511017828 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 640511017829 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 640511017830 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 640511017831 tetramer interface [polypeptide binding]; other site 640511017832 TPP-binding site [chemical binding]; other site 640511017833 heterodimer interface [polypeptide binding]; other site 640511017834 phosphorylation loop region [posttranslational modification] 640511017835 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640511017836 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 640511017837 Bacterial transcriptional regulator; Region: IclR; pfam01614 640511017838 metabolite-proton symporter; Region: 2A0106; TIGR00883 640511017839 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511017840 putative substrate translocation pore; other site 640511017841 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 640511017842 Dehydroquinase class II; Region: DHquinase_II; pfam01220 640511017843 trimer interface [polypeptide binding]; other site 640511017844 active site 640511017845 dimer interface [polypeptide binding]; other site 640511017846 NIPSNAP; Region: NIPSNAP; pfam07978 640511017847 putative succinate dehydrogenase; Reviewed; Region: PRK12842 640511017848 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 640511017849 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 640511017850 short chain dehydrogenase; Provisional; Region: PRK08628 640511017851 classical (c) SDRs; Region: SDR_c; cd05233 640511017852 NAD(P) binding site [chemical binding]; other site 640511017853 active site 640511017854 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 640511017855 Cupin domain; Region: Cupin_2; pfam07883 640511017856 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511017857 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 640511017858 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 640511017859 catalytic loop [active] 640511017860 iron binding site [ion binding]; other site 640511017861 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 640511017862 FAD binding pocket [chemical binding]; other site 640511017863 FAD binding motif [chemical binding]; other site 640511017864 phosphate binding motif [ion binding]; other site 640511017865 beta-alpha-beta structure motif; other site 640511017866 NAD binding pocket [chemical binding]; other site 640511017867 Transcriptional regulators [Transcription]; Region: GntR; COG1802 640511017868 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 640511017869 Cytochrome P450; Region: p450; cl12078 640511017870 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 640511017871 alpha-glucosidase; Provisional; Region: PRK10137 640511017872 Mannosyl oligosaccharide glucosidase; Region: Glyco_hydro_63; pfam03200 640511017873 Predicted membrane protein [Function unknown]; Region: COG4325 640511017874 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 640511017875 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 640511017876 active site clefts [active] 640511017877 zinc binding site [ion binding]; other site 640511017878 dimer interface [polypeptide binding]; other site 640511017879 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 640511017880 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_2; cd06335 640511017881 putative ligand binding site [chemical binding]; other site 640511017882 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640511017883 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 640511017884 TM-ABC transporter signature motif; other site 640511017885 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 640511017886 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 640511017887 TM-ABC transporter signature motif; other site 640511017888 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 640511017889 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 640511017890 Walker A/P-loop; other site 640511017891 ATP binding site [chemical binding]; other site 640511017892 Q-loop/lid; other site 640511017893 ABC transporter signature motif; other site 640511017894 Walker B; other site 640511017895 D-loop; other site 640511017896 H-loop/switch region; other site 640511017897 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 640511017898 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 640511017899 Walker A/P-loop; other site 640511017900 ATP binding site [chemical binding]; other site 640511017901 Q-loop/lid; other site 640511017902 ABC transporter signature motif; other site 640511017903 Walker B; other site 640511017904 D-loop; other site 640511017905 H-loop/switch region; other site 640511017906 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 640511017907 BNR repeat-like domain; Region: BNR_2; pfam13088 640511017908 Asp-box motif; other site 640511017909 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 640511017910 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511017911 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511017912 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 640511017913 putative effector binding pocket; other site 640511017914 dimerization interface [polypeptide binding]; other site 640511017915 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 640511017916 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 640511017917 active site 640511017918 catalytic tetrad [active] 640511017919 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511017920 putative substrate translocation pore; other site 640511017921 transcriptional regulator; Provisional; Region: PRK10632 640511017922 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511017923 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_6; cd08475 640511017924 putative effector binding pocket; other site 640511017925 putative dimerization interface [polypeptide binding]; other site 640511017926 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 640511017927 Bacterial transcriptional activator domain; Region: BTAD; smart01043 640511017928 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 640511017929 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 640511017930 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 640511017931 Putative mono-oxygenase ydhR; Region: ydhR; cl07420 640511017932 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640511017933 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 640511017934 DNA binding residues [nucleotide binding] 640511017935 dimerization interface [polypeptide binding]; other site 640511017936 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 640511017937 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 640511017938 protein binding site [polypeptide binding]; other site 640511017939 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 640511017940 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 640511017941 IS2 transposase TnpB; Reviewed; Region: PRK09409 640511017942 HTH-like domain; Region: HTH_21; pfam13276 640511017943 Integrase core domain; Region: rve; pfam00665 640511017944 Integrase core domain; Region: rve_3; pfam13683 640511017945 Transposase; Region: HTH_Tnp_1; cl17663 640511017946 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 640511017947 glutathionine S-transferase; Provisional; Region: PRK10542 640511017948 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 640511017949 C-terminal domain interface [polypeptide binding]; other site 640511017950 GSH binding site (G-site) [chemical binding]; other site 640511017951 dimer interface [polypeptide binding]; other site 640511017952 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 640511017953 dimer interface [polypeptide binding]; other site 640511017954 substrate binding pocket (H-site) [chemical binding]; other site 640511017955 N-terminal domain interface [polypeptide binding]; other site 640511017956 Cupin; Region: Cupin_6; pfam12852 640511017957 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640511017958 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511017959 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 640511017960 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; COG2327 640511017961 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 640511017962 Phasin protein; Region: Phasin_2; cl11491 640511017963 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640511017964 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511017965 active site 640511017966 phosphorylation site [posttranslational modification] 640511017967 intermolecular recognition site; other site 640511017968 dimerization interface [polypeptide binding]; other site 640511017969 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 640511017970 DNA binding residues [nucleotide binding] 640511017971 dimerization interface [polypeptide binding]; other site 640511017972 Protein of unknown function (DUF3047); Region: DUF3047; pfam11249 640511017973 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 640511017974 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 640511017975 putative active site [active] 640511017976 heme pocket [chemical binding]; other site 640511017977 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 640511017978 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 640511017979 putative active site [active] 640511017980 heme pocket [chemical binding]; other site 640511017981 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 640511017982 dimer interface [polypeptide binding]; other site 640511017983 phosphorylation site [posttranslational modification] 640511017984 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511017985 ATP binding site [chemical binding]; other site 640511017986 Mg2+ binding site [ion binding]; other site 640511017987 G-X-G motif; other site 640511017988 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 640511017989 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511017990 active site 640511017991 phosphorylation site [posttranslational modification] 640511017992 intermolecular recognition site; other site 640511017993 dimerization interface [polypeptide binding]; other site 640511017994 Response regulator receiver domain; Region: Response_reg; pfam00072 640511017995 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511017996 active site 640511017997 phosphorylation site [posttranslational modification] 640511017998 intermolecular recognition site; other site 640511017999 dimerization interface [polypeptide binding]; other site 640511018000 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 640511018001 nudix motif; other site 640511018002 Predicted membrane protein [Function unknown]; Region: COG4425 640511018003 Predicted membrane protein (DUF2319); Region: DUF2319; pfam10081 640511018004 Transcriptional regulators [Transcription]; Region: FadR; COG2186 640511018005 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511018006 DNA-binding site [nucleotide binding]; DNA binding site 640511018007 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 640511018008 Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily; Region: PBP1_ABC_sugar_binding_like_1; cd06300 640511018009 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640511018010 putative ligand binding site [chemical binding]; other site 640511018011 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 640511018012 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 640511018013 Walker A/P-loop; other site 640511018014 ATP binding site [chemical binding]; other site 640511018015 Q-loop/lid; other site 640511018016 ABC transporter signature motif; other site 640511018017 Walker B; other site 640511018018 D-loop; other site 640511018019 H-loop/switch region; other site 640511018020 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 640511018021 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640511018022 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 640511018023 TM-ABC transporter signature motif; other site 640511018024 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640511018025 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 640511018026 TM-ABC transporter signature motif; other site 640511018027 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 640511018028 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 640511018029 acetylornithine deacetylase; Provisional; Region: PRK07522 640511018030 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 640511018031 metal binding site [ion binding]; metal-binding site 640511018032 putative dimer interface [polypeptide binding]; other site 640511018033 Uncharacterized conserved protein [Function unknown]; Region: COG3342 640511018034 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 640511018035 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 640511018036 homotrimer interaction site [polypeptide binding]; other site 640511018037 putative active site [active] 640511018038 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 640511018039 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 640511018040 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511018041 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511018042 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 640511018043 putative substrate binding pocket [chemical binding]; other site 640511018044 dimerization interface [polypeptide binding]; other site 640511018045 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 640511018046 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 640511018047 [2Fe-2S] cluster binding site [ion binding]; other site 640511018048 C-terminal catalytic domain of the oxygenase alpha subunit of an uncharacterized subgroup of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C_1; cd08885 640511018049 putative alpha subunit interface [polypeptide binding]; other site 640511018050 putative active site [active] 640511018051 putative substrate binding site [chemical binding]; other site 640511018052 Fe binding site [ion binding]; other site 640511018053 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 640511018054 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640511018055 Walker A/P-loop; other site 640511018056 ATP binding site [chemical binding]; other site 640511018057 Q-loop/lid; other site 640511018058 ABC transporter signature motif; other site 640511018059 Walker B; other site 640511018060 D-loop; other site 640511018061 H-loop/switch region; other site 640511018062 TOBE domain; Region: TOBE_2; pfam08402 640511018063 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 640511018064 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511018065 dimer interface [polypeptide binding]; other site 640511018066 conserved gate region; other site 640511018067 putative PBP binding loops; other site 640511018068 ABC-ATPase subunit interface; other site 640511018069 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 640511018070 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511018071 dimer interface [polypeptide binding]; other site 640511018072 conserved gate region; other site 640511018073 putative PBP binding loops; other site 640511018074 ABC-ATPase subunit interface; other site 640511018075 SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain; Region: SET; smart00317 640511018076 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 640511018077 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 640511018078 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 640511018079 Predicted permeases [General function prediction only]; Region: RarD; COG2962 640511018080 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 640511018081 DEAD-like helicases superfamily; Region: DEXDc; smart00487 640511018082 ATP binding site [chemical binding]; other site 640511018083 Mg++ binding site [ion binding]; other site 640511018084 motif III; other site 640511018085 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 640511018086 nucleotide binding region [chemical binding]; other site 640511018087 ATP-binding site [chemical binding]; other site 640511018088 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 640511018089 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 640511018090 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 640511018091 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511018092 NAD(P) binding site [chemical binding]; other site 640511018093 active site 640511018094 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 640511018095 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 640511018096 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 640511018097 dimerization interface [polypeptide binding]; other site 640511018098 ligand binding site [chemical binding]; other site 640511018099 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 640511018100 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640511018101 TM-ABC transporter signature motif; other site 640511018102 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 640511018103 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 640511018104 TM-ABC transporter signature motif; other site 640511018105 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 640511018106 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 640511018107 Walker A/P-loop; other site 640511018108 ATP binding site [chemical binding]; other site 640511018109 Q-loop/lid; other site 640511018110 ABC transporter signature motif; other site 640511018111 Walker B; other site 640511018112 D-loop; other site 640511018113 H-loop/switch region; other site 640511018114 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 640511018115 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 640511018116 Walker A/P-loop; other site 640511018117 ATP binding site [chemical binding]; other site 640511018118 Q-loop/lid; other site 640511018119 ABC transporter signature motif; other site 640511018120 Walker B; other site 640511018121 D-loop; other site 640511018122 H-loop/switch region; other site 640511018123 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 640511018124 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 640511018125 hydroxyglutarate oxidase; Provisional; Region: PRK11728 640511018126 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 640511018127 putative deacylase active site [active] 640511018128 Tetratricopeptide repeat; Region: TPR_12; pfam13424 640511018129 Tetratricopeptide repeat; Region: TPR_12; pfam13424 640511018130 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 640511018131 binding surface 640511018132 TPR motif; other site 640511018133 Tetratricopeptide repeat; Region: TPR_12; pfam13424 640511018134 Tetratricopeptide repeat; Region: TPR_12; pfam13424 640511018135 Glycosyl hydrolases family 35; Region: Glyco_hydro_35; pfam01301 640511018136 Beta-galactosidase jelly roll domain; Region: BetaGal_dom4_5; pfam13364 640511018137 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 640511018138 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 640511018139 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 640511018140 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 640511018141 extended (e) SDRs; Region: SDR_e; cd08946 640511018142 NAD(P) binding site [chemical binding]; other site 640511018143 active site 640511018144 substrate binding site [chemical binding]; other site 640511018145 Protein of unknown function (DUF2945); Region: DUF2945; pfam11160 640511018146 sulfite reductase subunit beta; Provisional; Region: PRK13504 640511018147 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 640511018148 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 640511018149 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 640511018150 Flavodoxin; Region: Flavodoxin_1; pfam00258 640511018151 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 640511018152 FAD binding pocket [chemical binding]; other site 640511018153 FAD binding motif [chemical binding]; other site 640511018154 catalytic residues [active] 640511018155 NAD binding pocket [chemical binding]; other site 640511018156 phosphate binding motif [ion binding]; other site 640511018157 beta-alpha-beta structure motif; other site 640511018158 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 640511018159 FOG: CBS domain [General function prediction only]; Region: COG0517 640511018160 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 640511018161 Coenzyme A transferase; Region: CoA_trans; smart00882 640511018162 Coenzyme A transferase; Region: CoA_trans; cl17247 640511018163 Sulphur transport; Region: Sulf_transp; pfam04143 640511018164 Domain of unknown function (DUF4410); Region: DUF4410; pfam14366 640511018165 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 640511018166 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 640511018167 ligand binding site [chemical binding]; other site 640511018168 flexible hinge region; other site 640511018169 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 640511018170 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 640511018171 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640511018172 ATP adenylyltransferase (5',5'''-P-1,P-4-tetraphosphate phosphorylase II) [Nucleotide transport and metabolism]; Region: APA2; COG4360 640511018173 ATP adenylyltransferase; Region: ATP_transf; pfam09830 640511018174 Adenosine specific kinase; Region: Adenosine_kin; pfam04008 640511018175 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640511018176 Coenzyme A binding pocket [chemical binding]; other site 640511018177 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 640511018178 PAS domain; Region: PAS_9; pfam13426 640511018179 putative active site [active] 640511018180 heme pocket [chemical binding]; other site 640511018181 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 640511018182 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 640511018183 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640511018184 dimer interface [polypeptide binding]; other site 640511018185 putative CheW interface [polypeptide binding]; other site 640511018186 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 640511018187 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 640511018188 Walker A/P-loop; other site 640511018189 ATP binding site [chemical binding]; other site 640511018190 Q-loop/lid; other site 640511018191 ABC transporter signature motif; other site 640511018192 Walker B; other site 640511018193 D-loop; other site 640511018194 H-loop/switch region; other site 640511018195 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 640511018196 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 640511018197 Walker A/P-loop; other site 640511018198 ATP binding site [chemical binding]; other site 640511018199 Q-loop/lid; other site 640511018200 ABC transporter signature motif; other site 640511018201 Walker B; other site 640511018202 D-loop; other site 640511018203 H-loop/switch region; other site 640511018204 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640511018205 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 640511018206 TM-ABC transporter signature motif; other site 640511018207 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640511018208 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 640511018209 TM-ABC transporter signature motif; other site 640511018210 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 640511018211 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_10; cd06345 640511018212 putative ligand binding site [chemical binding]; other site 640511018213 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 640511018214 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 640511018215 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 640511018216 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511018217 putative PBP binding loops; other site 640511018218 dimer interface [polypeptide binding]; other site 640511018219 ABC-ATPase subunit interface; other site 640511018220 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 640511018221 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511018222 dimer interface [polypeptide binding]; other site 640511018223 conserved gate region; other site 640511018224 putative PBP binding loops; other site 640511018225 ABC-ATPase subunit interface; other site 640511018226 Catalytic domain of Bacillus cereus phosphatidylinositol-specific phospholipases C and similar proteins; Region: PI-PLCc_BcPLC_like; cd08586 640511018227 active site 640511018228 catalytic site [active] 640511018229 putative metal binding site [ion binding]; other site 640511018230 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 640511018231 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 640511018232 NAD(P) binding site [chemical binding]; other site 640511018233 homotetramer interface [polypeptide binding]; other site 640511018234 homodimer interface [polypeptide binding]; other site 640511018235 active site 640511018236 Protein of unknown function (DUF3022); Region: DUF3022; pfam11226 640511018237 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 640511018238 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 640511018239 dimerization interface [polypeptide binding]; other site 640511018240 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640511018241 dimer interface [polypeptide binding]; other site 640511018242 putative CheW interface [polypeptide binding]; other site 640511018243 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 640511018244 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 640511018245 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640511018246 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 640511018247 TM-ABC transporter signature motif; other site 640511018248 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 640511018249 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 640511018250 TM-ABC transporter signature motif; other site 640511018251 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 640511018252 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 640511018253 Walker A/P-loop; other site 640511018254 ATP binding site [chemical binding]; other site 640511018255 Q-loop/lid; other site 640511018256 ABC transporter signature motif; other site 640511018257 Walker B; other site 640511018258 D-loop; other site 640511018259 H-loop/switch region; other site 640511018260 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 640511018261 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 640511018262 Walker A/P-loop; other site 640511018263 ATP binding site [chemical binding]; other site 640511018264 Q-loop/lid; other site 640511018265 ABC transporter signature motif; other site 640511018266 Walker B; other site 640511018267 D-loop; other site 640511018268 H-loop/switch region; other site 640511018269 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 640511018270 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 640511018271 catalytic site [active] 640511018272 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511018273 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 640511018274 dimerization interface [polypeptide binding]; other site 640511018275 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 640511018276 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 640511018277 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640511018278 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640511018279 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 640511018280 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 640511018281 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 640511018282 N-acetyl-D-glucosamine binding site [chemical binding]; other site 640511018283 catalytic residue [active] 640511018284 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 640511018285 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 640511018286 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 640511018287 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 640511018288 substrate binding site [chemical binding]; other site 640511018289 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 640511018290 substrate binding site [chemical binding]; other site 640511018291 ligand binding site [chemical binding]; other site 640511018292 Protein of unknown function (DUF1326); Region: DUF1326; pfam07040 640511018293 Predicted metal-binding integral membrane protein [Function unknown]; Region: COG5486 640511018294 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 640511018295 haloalkane dehalogenase; Provisional; Region: PRK03592 640511018296 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640511018297 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640511018298 Protein of unknown function (DUF1493); Region: DUF1493; pfam07377 640511018299 Uncharacterized conserved protein [Function unknown]; Region: COG3025 640511018300 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 640511018301 putative active site [active] 640511018302 putative metal binding residues [ion binding]; other site 640511018303 signature motif; other site 640511018304 putative triphosphate binding site [ion binding]; other site 640511018305 CHAD domain; Region: CHAD; pfam05235 640511018306 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 640511018307 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 640511018308 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 640511018309 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640511018310 Walker A/P-loop; other site 640511018311 ATP binding site [chemical binding]; other site 640511018312 Q-loop/lid; other site 640511018313 ABC transporter signature motif; other site 640511018314 Walker B; other site 640511018315 D-loop; other site 640511018316 H-loop/switch region; other site 640511018317 haemagglutination activity domain; Region: Haemagg_act; smart00912 640511018318 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511018319 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640511018320 putative substrate translocation pore; other site 640511018321 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511018322 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640511018323 putative substrate translocation pore; other site 640511018324 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511018325 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511018326 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_8; cd08477 640511018327 putative effector binding pocket; other site 640511018328 putative dimerization interface [polypeptide binding]; other site 640511018329 Protein of unknown function (DUF3562); Region: DUF3562; pfam12085 640511018330 PBP superfamily domain; Region: PBP_like_2; cl17296 640511018331 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 640511018332 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 640511018333 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 640511018334 PRC-barrel domain; Region: PRC; pfam05239 640511018335 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640511018336 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511018337 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 640511018338 dimerization interface [polypeptide binding]; other site 640511018339 substrate binding pocket [chemical binding]; other site 640511018340 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640511018341 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511018342 NAD(P) binding site [chemical binding]; other site 640511018343 active site 640511018344 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511018345 D-galactonate transporter; Region: 2A0114; TIGR00893 640511018346 putative substrate translocation pore; other site 640511018347 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 640511018348 TPP-binding site [chemical binding]; other site 640511018349 dimer interface [polypeptide binding]; other site 640511018350 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 640511018351 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 640511018352 PYR/PP interface [polypeptide binding]; other site 640511018353 dimer interface [polypeptide binding]; other site 640511018354 TPP binding site [chemical binding]; other site 640511018355 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 640511018356 polyhydroxyalkanoate depolymerase, intracellular; Region: PHB_depoly_PhaZ; TIGR01849 640511018357 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 640511018358 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 640511018359 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 640511018360 putative active site [active] 640511018361 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 640511018362 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 640511018363 NAD(P) binding site [chemical binding]; other site 640511018364 homotetramer interface [polypeptide binding]; other site 640511018365 homodimer interface [polypeptide binding]; other site 640511018366 active site 640511018367 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 640511018368 Ligand Binding Site [chemical binding]; other site 640511018369 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 640511018370 Ligand Binding Site [chemical binding]; other site 640511018371 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 640511018372 Ligand Binding Site [chemical binding]; other site 640511018373 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 640511018374 Ligand Binding Site [chemical binding]; other site 640511018375 Response regulator receiver domain; Region: Response_reg; pfam00072 640511018376 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 640511018377 active site 640511018378 phosphorylation site [posttranslational modification] 640511018379 intermolecular recognition site; other site 640511018380 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 640511018381 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 640511018382 ligand binding site [chemical binding]; other site 640511018383 flexible hinge region; other site 640511018384 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 640511018385 putative switch regulator; other site 640511018386 non-specific DNA interactions [nucleotide binding]; other site 640511018387 DNA binding site [nucleotide binding] 640511018388 sequence specific DNA binding site [nucleotide binding]; other site 640511018389 putative cAMP binding site [chemical binding]; other site 640511018390 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 640511018391 PAS domain; Region: PAS_9; pfam13426 640511018392 putative active site [active] 640511018393 heme pocket [chemical binding]; other site 640511018394 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 640511018395 Histidine kinase; Region: HisKA_3; pfam07730 640511018396 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511018397 ATP binding site [chemical binding]; other site 640511018398 Mg2+ binding site [ion binding]; other site 640511018399 G-X-G motif; other site 640511018400 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 640511018401 Ligand Binding Site [chemical binding]; other site 640511018402 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 640511018403 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 640511018404 putative NAD(P) binding site [chemical binding]; other site 640511018405 putative substrate binding site [chemical binding]; other site 640511018406 catalytic Zn binding site [ion binding]; other site 640511018407 structural Zn binding site [ion binding]; other site 640511018408 Cytochrome c; Region: Cytochrom_C; cl11414 640511018409 Protein of unknown function (DUF3564); Region: DUF3564; pfam12087 640511018410 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640511018411 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511018412 ATP binding site [chemical binding]; other site 640511018413 Mg2+ binding site [ion binding]; other site 640511018414 G-X-G motif; other site 640511018415 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 640511018416 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511018417 active site 640511018418 phosphorylation site [posttranslational modification] 640511018419 intermolecular recognition site; other site 640511018420 dimerization interface [polypeptide binding]; other site 640511018421 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 640511018422 DNA binding site [nucleotide binding] 640511018423 Response regulator receiver domain; Region: Response_reg; pfam00072 640511018424 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511018425 active site 640511018426 phosphorylation site [posttranslational modification] 640511018427 intermolecular recognition site; other site 640511018428 dimerization interface [polypeptide binding]; other site 640511018429 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 640511018430 Catalytic domain of Protein Kinases; Region: PKc; cd00180 640511018431 active site 640511018432 ATP binding site [chemical binding]; other site 640511018433 substrate binding site [chemical binding]; other site 640511018434 activation loop (A-loop); other site 640511018435 AAA ATPase domain; Region: AAA_16; pfam13191 640511018436 Predicted ATPase [General function prediction only]; Region: COG3899 640511018437 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 640511018438 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 640511018439 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 640511018440 PAS domain; Region: PAS_9; pfam13426 640511018441 putative active site [active] 640511018442 heme pocket [chemical binding]; other site 640511018443 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 640511018444 dimer interface [polypeptide binding]; other site 640511018445 phosphorylation site [posttranslational modification] 640511018446 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511018447 ATP binding site [chemical binding]; other site 640511018448 Mg2+ binding site [ion binding]; other site 640511018449 G-X-G motif; other site 640511018450 RNA polymerase sigma factor; Provisional; Region: PRK11922 640511018451 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640511018452 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 640511018453 DNA binding residues [nucleotide binding] 640511018454 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 640511018455 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 640511018456 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 640511018457 FAD binding domain; Region: FAD_binding_4; pfam01565 640511018458 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 640511018459 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 640511018460 phosphate binding site [ion binding]; other site 640511018461 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 640511018462 galactarate dehydratase; Region: galactar-dH20; TIGR03248 640511018463 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 640511018464 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511018465 D-galactonate transporter; Region: 2A0114; TIGR00893 640511018466 putative substrate translocation pore; other site 640511018467 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 640511018468 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 640511018469 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 640511018470 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 640511018471 putative NAD(P) binding site [chemical binding]; other site 640511018472 catalytic Zn binding site [ion binding]; other site 640511018473 structural Zn binding site [ion binding]; other site 640511018474 Transcriptional regulators [Transcription]; Region: FadR; COG2186 640511018475 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511018476 DNA-binding site [nucleotide binding]; DNA binding site 640511018477 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 640511018478 Glycosylasparaginase catalyzes the hydrolysis of the glycosylamide bond of asparagine-linked glycoproteins. This enzyme is an amidase located inside lysosomes. Mutation of this gene in humans causes a genetic disorder known as aspartylglycosaminuria (AGU)...; Region: Glycosylasparaginase; cd04513 640511018479 active site 640511018480 dimer interface [polypeptide binding]; other site 640511018481 catalytic nucleophile [active] 640511018482 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 640511018483 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 640511018484 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 640511018485 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511018486 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 640511018487 dimerization interface [polypeptide binding]; other site 640511018488 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 640511018489 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 640511018490 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_A; cd01299 640511018491 active site 640511018492 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 640511018493 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 640511018494 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 640511018495 active site 640511018496 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 640511018497 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511018498 dimer interface [polypeptide binding]; other site 640511018499 conserved gate region; other site 640511018500 putative PBP binding loops; other site 640511018501 ABC-ATPase subunit interface; other site 640511018502 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 640511018503 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 640511018504 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 640511018505 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640511018506 Walker A/P-loop; other site 640511018507 ATP binding site [chemical binding]; other site 640511018508 Q-loop/lid; other site 640511018509 ABC transporter signature motif; other site 640511018510 Walker B; other site 640511018511 D-loop; other site 640511018512 H-loop/switch region; other site 640511018513 TOBE domain; Region: TOBE_2; pfam08402 640511018514 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 640511018515 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511018516 dimer interface [polypeptide binding]; other site 640511018517 conserved gate region; other site 640511018518 putative PBP binding loops; other site 640511018519 ABC-ATPase subunit interface; other site 640511018520 drug efflux system protein MdtG; Provisional; Region: PRK09874 640511018521 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511018522 putative substrate translocation pore; other site 640511018523 trehalase; Provisional; Region: treF; PRK13270 640511018524 Trehalase; Region: Trehalase; cl17346 640511018525 Phosphoesterase family; Region: Phosphoesterase; pfam04185 640511018526 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 640511018527 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640511018528 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640511018529 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 640511018530 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640511018531 HlyD family secretion protein; Region: HlyD_3; pfam13437 640511018532 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 640511018533 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 640511018534 Walker A/P-loop; other site 640511018535 ATP binding site [chemical binding]; other site 640511018536 Q-loop/lid; other site 640511018537 ABC transporter signature motif; other site 640511018538 Walker B; other site 640511018539 D-loop; other site 640511018540 H-loop/switch region; other site 640511018541 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 640511018542 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 640511018543 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640511018544 benzoate transporter; Region: benE; TIGR00843 640511018545 Benzoate membrane transport protein; Region: BenE; pfam03594 640511018546 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase; Provisional; Region: benD; PRK12823 640511018547 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase (DHB DH)-like, classical (c) SDR; Region: DHB_DH-like_SDR_c; cd08937 640511018548 putative NAD(P) binding site [chemical binding]; other site 640511018549 active site 640511018550 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 640511018551 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 640511018552 catalytic loop [active] 640511018553 iron binding site [ion binding]; other site 640511018554 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 640511018555 FAD binding pocket [chemical binding]; other site 640511018556 FAD binding motif [chemical binding]; other site 640511018557 phosphate binding motif [ion binding]; other site 640511018558 beta-alpha-beta structure motif; other site 640511018559 NAD binding pocket [chemical binding]; other site 640511018560 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 640511018561 inter-subunit interface; other site 640511018562 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 640511018563 Rieske non-heme iron oxygenase (RO) family, 2-Halobenzoate 1,2-dioxygenase (HBDO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to...; Region: Rieske_RO_Alpha_HBDO; cd03542 640511018564 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 640511018565 putative alpha subunit interface [polypeptide binding]; other site 640511018566 putative active site [active] 640511018567 putative substrate binding site [chemical binding]; other site 640511018568 Fe binding site [ion binding]; other site 640511018569 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 640511018570 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511018571 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 640511018572 dimerizarion interface [polypeptide binding]; other site 640511018573 CrgA pocket; other site 640511018574 substrate binding pocket [chemical binding]; other site 640511018575 histidine ABC transporter substrate-binding protein HisJ; Provisional; Region: PRK15437 640511018576 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 640511018577 substrate binding pocket [chemical binding]; other site 640511018578 membrane-bound complex binding site; other site 640511018579 hinge residues; other site 640511018580 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640511018581 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511018582 dimer interface [polypeptide binding]; other site 640511018583 conserved gate region; other site 640511018584 putative PBP binding loops; other site 640511018585 ABC-ATPase subunit interface; other site 640511018586 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511018587 dimer interface [polypeptide binding]; other site 640511018588 conserved gate region; other site 640511018589 putative PBP binding loops; other site 640511018590 ABC-ATPase subunit interface; other site 640511018591 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 640511018592 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 640511018593 Walker A/P-loop; other site 640511018594 ATP binding site [chemical binding]; other site 640511018595 Q-loop/lid; other site 640511018596 ABC transporter signature motif; other site 640511018597 Walker B; other site 640511018598 D-loop; other site 640511018599 H-loop/switch region; other site 640511018600 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 640511018601 iron-sulfur cluster [ion binding]; other site 640511018602 [2Fe-2S] cluster binding site [ion binding]; other site 640511018603 YCII-related domain; Region: YCII; cl00999 640511018604 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 640511018605 iron-sulfur cluster [ion binding]; other site 640511018606 [2Fe-2S] cluster binding site [ion binding]; other site 640511018607 YCII-related domain; Region: YCII; cl00999 640511018608 Hydroxyquinol 1,2-dioxygenase (1,2-HQD) catalyzes the ring cleavage of hydroxyquinol (1,2,4-trihydroxybenzene), a intermediate in the degradation of a large variety of aromatic compounds including some polychloro- and nitroaromatic pollutants, to form...; Region: 1,2-HQD; cd03461 640511018609 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 640511018610 dimer interface [polypeptide binding]; other site 640511018611 active site 640511018612 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 640511018613 Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes; Region: MAR; cd08177 640511018614 active site 640511018615 dimer interface [polypeptide binding]; other site 640511018616 metal binding site [ion binding]; metal-binding site 640511018617 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640511018618 Pseudomonas fluorescens 4-hydroxymuconic semialdehyde dehydrogenase-like; Region: ALDH_HMSADH_HapE; cd07115 640511018619 NAD(P) binding site [chemical binding]; other site 640511018620 catalytic residues [active] 640511018621 3-hydroxyanthranilic acid dioxygenase; Region: 3-HAO; cl17399 640511018622 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511018623 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511018624 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 640511018625 putative effector binding pocket; other site 640511018626 dimerization interface [polypeptide binding]; other site 640511018627 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511018628 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640511018629 putative substrate translocation pore; other site 640511018630 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_6; cd06233 640511018631 putative active site [active] 640511018632 Zn binding site [ion binding]; other site 640511018633 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 640511018634 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 640511018635 metal binding site [ion binding]; metal-binding site 640511018636 putative dimer interface [polypeptide binding]; other site 640511018637 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511018638 metabolite-proton symporter; Region: 2A0106; TIGR00883 640511018639 putative substrate translocation pore; other site 640511018640 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511018641 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511018642 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 640511018643 dimerization interface [polypeptide binding]; other site 640511018644 Cation efflux family; Region: Cation_efflux; cl00316 640511018645 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 640511018646 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 640511018647 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 640511018648 Acylphosphatase; Region: Acylphosphatase; pfam00708 640511018649 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 640511018650 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 640511018651 tetrameric interface [polypeptide binding]; other site 640511018652 activator binding site; other site 640511018653 NADP binding site [chemical binding]; other site 640511018654 substrate binding site [chemical binding]; other site 640511018655 catalytic residues [active] 640511018656 FOG: CBS domain [General function prediction only]; Region: COG0517 640511018657 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the BON (bacterial OsmY and nodulation domain) domain. BON is a putative phospholipid-binding domain found in a family of osmotic shock protection...; Region: CBS_pair_BON_assoc; cd04586 640511018658 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_2; cd08895 640511018659 putative hydrophobic ligand binding site [chemical binding]; other site 640511018660 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 640511018661 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 640511018662 motif II; other site 640511018663 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 640511018664 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 640511018665 dimer interface [polypeptide binding]; other site 640511018666 ADP-ribose binding site [chemical binding]; other site 640511018667 active site 640511018668 nudix motif; other site 640511018669 metal binding site [ion binding]; metal-binding site 640511018670 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 640511018671 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 640511018672 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 640511018673 cystine transporter subunit; Provisional; Region: PRK11260 640511018674 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 640511018675 substrate binding pocket [chemical binding]; other site 640511018676 membrane-bound complex binding site; other site 640511018677 hinge residues; other site 640511018678 Trehalase; Region: Trehalase; cl17346 640511018679 trehalase; Provisional; Region: treF; PRK13270 640511018680 Protein of Unknown function (DUF2784); Region: DUF2784; pfam10861 640511018681 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 640511018682 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 640511018683 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640511018684 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_16; cd07263 640511018685 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511018686 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640511018687 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511018688 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 640511018689 Domain of unknown function DUF20; Region: UPF0118; pfam01594 640511018690 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 640511018691 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 640511018692 putative active site [active] 640511018693 catalytic site [active] 640511018694 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 640511018695 putative active site [active] 640511018696 catalytic site [active] 640511018697 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 640511018698 Short C-terminal domain; Region: SHOCT; pfam09851 640511018699 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 640511018700 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 640511018701 Walker A motif; other site 640511018702 ATP binding site [chemical binding]; other site 640511018703 Walker B motif; other site 640511018704 arginine finger; other site 640511018705 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 640511018706 Walker A motif; other site 640511018707 ATP binding site [chemical binding]; other site 640511018708 Walker B motif; other site 640511018709 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 640511018710 Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]; Region: ImpE; COG4455 640511018711 ImpE protein; Region: ImpE; pfam07024 640511018712 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 640511018713 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 640511018714 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 640511018715 type VI secretion protein, VC_A0111 family; Region: VI_chp_1; TIGR03347 640511018716 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 640511018717 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 640511018718 Fimbrial protein; Region: Fimbrial; pfam00419 640511018719 Glycosyltransferase (GlcNAc); Region: GlcNAc; pfam11397 640511018720 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 640511018721 RHS Repeat; Region: RHS_repeat; pfam05593 640511018722 RHS Repeat; Region: RHS_repeat; pfam05593 640511018723 RHS Repeat; Region: RHS_repeat; pfam05593 640511018724 RHS protein; Region: RHS; pfam03527 640511018725 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 640511018726 PAAR motif; Region: PAAR_motif; pfam05488 640511018727 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 640511018728 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 640511018729 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 640511018730 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 640511018731 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 640511018732 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 640511018733 hypothetical protein; Provisional; Region: PRK08126 640511018734 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 640511018735 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640511018736 ligand binding site [chemical binding]; other site 640511018737 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522 640511018738 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 640511018739 type VI secretion lipoprotein, VC_A0113 family; Region: VI_chp_3; TIGR03352 640511018740 Protein of unknown function (DUF796); Region: DUF796; pfam05638 640511018741 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517 640511018742 Protein of unknown function (DUF877); Region: DUF877; pfam05943 640511018743 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 640511018744 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640511018745 ligand binding site [chemical binding]; other site 640511018746 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 640511018747 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 640511018748 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 640511018749 PapC N-terminal domain; Region: PapC_N; pfam13954 640511018750 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 640511018751 PapC C-terminal domain; Region: PapC_C; pfam13953 640511018752 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 640511018753 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 640511018754 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 640511018755 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640511018756 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511018757 active site 640511018758 phosphorylation site [posttranslational modification] 640511018759 intermolecular recognition site; other site 640511018760 dimerization interface [polypeptide binding]; other site 640511018761 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 640511018762 DNA binding residues [nucleotide binding] 640511018763 dimerization interface [polypeptide binding]; other site 640511018764 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 640511018765 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 640511018766 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640511018767 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 640511018768 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 640511018769 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640511018770 HlyD family secretion protein; Region: HlyD_3; pfam13437 640511018771 ParB-like nuclease domain; Region: ParB; smart00470 640511018772 plasmid-partitioning protein RepA; Provisional; Region: PRK13869 640511018773 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 640511018774 P-loop; other site 640511018775 Magnesium ion binding site [ion binding]; other site 640511018776 Initiator Replication protein; Region: Rep_3; pfam01051 640511018777 Citrate transporter; Region: CitMHS; pfam03600 640511018778 fructuronate transporter; Provisional; Region: PRK10034; cl15264 640511018779 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 640511018780 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 640511018781 active site 640511018782 nucleophile elbow; other site 640511018783 Uncharacterized conserved protein [Function unknown]; Region: COG3791 640511018784 osmolarity response regulator; Provisional; Region: ompR; PRK09468 640511018785 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511018786 active site 640511018787 phosphorylation site [posttranslational modification] 640511018788 intermolecular recognition site; other site 640511018789 dimerization interface [polypeptide binding]; other site 640511018790 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 640511018791 DNA binding site [nucleotide binding] 640511018792 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 640511018793 dimerization interface [polypeptide binding]; other site 640511018794 His Kinase A (phosphoacceptor) domain; Region: HisKA; smart00388 640511018795 dimer interface [polypeptide binding]; other site 640511018796 phosphorylation site [posttranslational modification] 640511018797 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511018798 ATP binding site [chemical binding]; other site 640511018799 Mg2+ binding site [ion binding]; other site 640511018800 G-X-G motif; other site 640511018801 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 640511018802 arginine deiminase; Provisional; Region: PRK01388 640511018803 Domain of unknown function (DUF3315); Region: DUF3315; pfam11776 640511018804 benzoate transport; Region: 2A0115; TIGR00895 640511018805 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511018806 putative substrate translocation pore; other site 640511018807 GAF domain; Region: GAF; cl17456 640511018808 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511018809 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 640511018810 putative substrate translocation pore; other site 640511018811 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511018812 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 640511018813 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 640511018814 Transcriptional regulators [Transcription]; Region: FadR; COG2186 640511018815 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511018816 DNA-binding site [nucleotide binding]; DNA binding site 640511018817 FCD domain; Region: FCD; pfam07729 640511018818 HipA N-terminal domain; Region: couple_hipA; TIGR03071 640511018819 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 640511018820 HipA-like N-terminal domain; Region: HipA_N; pfam07805 640511018821 HipA-like C-terminal domain; Region: HipA_C; pfam07804 640511018822 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 640511018823 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 640511018824 non-specific DNA binding site [nucleotide binding]; other site 640511018825 salt bridge; other site 640511018826 sequence-specific DNA binding site [nucleotide binding]; other site 640511018827 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 640511018828 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; pfam00331 640511018829 BON domain; Region: BON; pfam04972 640511018830 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640511018831 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 640511018832 trimer interface [polypeptide binding]; other site 640511018833 eyelet of channel; other site 640511018834 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640511018835 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640511018836 DNA binding site [nucleotide binding] 640511018837 domain linker motif; other site 640511018838 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 640511018839 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 640511018840 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 640511018841 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511018842 dimer interface [polypeptide binding]; other site 640511018843 conserved gate region; other site 640511018844 putative PBP binding loops; other site 640511018845 ABC-ATPase subunit interface; other site 640511018846 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 640511018847 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511018848 dimer interface [polypeptide binding]; other site 640511018849 conserved gate region; other site 640511018850 putative PBP binding loops; other site 640511018851 ABC-ATPase subunit interface; other site 640511018852 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 640511018853 beta-galactosidase; Region: BGL; TIGR03356 640511018854 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 640511018855 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 640511018856 Walker A/P-loop; other site 640511018857 ATP binding site [chemical binding]; other site 640511018858 Q-loop/lid; other site 640511018859 ABC transporter signature motif; other site 640511018860 Walker B; other site 640511018861 D-loop; other site 640511018862 H-loop/switch region; other site 640511018863 TOBE domain; Region: TOBE_2; pfam08402 640511018864 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 640511018865 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 640511018866 putative active site [active] 640511018867 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640511018868 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640511018869 DNA binding site [nucleotide binding] 640511018870 domain linker motif; other site 640511018871 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 640511018872 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 640511018873 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 640511018874 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511018875 dimer interface [polypeptide binding]; other site 640511018876 conserved gate region; other site 640511018877 putative PBP binding loops; other site 640511018878 ABC-ATPase subunit interface; other site 640511018879 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 640511018880 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511018881 dimer interface [polypeptide binding]; other site 640511018882 conserved gate region; other site 640511018883 putative PBP binding loops; other site 640511018884 ABC-ATPase subunit interface; other site 640511018885 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 640511018886 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 640511018887 Walker A/P-loop; other site 640511018888 ATP binding site [chemical binding]; other site 640511018889 Q-loop/lid; other site 640511018890 ABC transporter signature motif; other site 640511018891 Walker B; other site 640511018892 D-loop; other site 640511018893 H-loop/switch region; other site 640511018894 TOBE domain; Region: TOBE; pfam03459 640511018895 TOBE domain; Region: TOBE_2; pfam08402 640511018896 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 640511018897 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 640511018898 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 640511018899 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 640511018900 classical (c) SDRs; Region: SDR_c; cd05233 640511018901 NAD(P) binding site [chemical binding]; other site 640511018902 active site 640511018903 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 640511018904 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640511018905 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640511018906 DNA binding site [nucleotide binding] 640511018907 domain linker motif; other site 640511018908 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 640511018909 putative dimerization interface [polypeptide binding]; other site 640511018910 putative ligand binding site [chemical binding]; other site 640511018911 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 640511018912 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511018913 putative substrate translocation pore; other site 640511018914 dihydroxy-acid dehydratase; Provisional; Region: PRK13017 640511018915 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]; Region: COG3970 640511018916 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 640511018917 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 640511018918 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640511018919 NAD(P) binding site [chemical binding]; other site 640511018920 catalytic residues [active] 640511018921 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640511018922 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640511018923 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 640511018924 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 640511018925 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 640511018926 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 640511018927 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 640511018928 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 640511018929 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 640511018930 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 640511018931 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK07375 640511018932 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12567 640511018933 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 640511018934 hypothetical protein; Provisional; Region: PRK08378 640511018935 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 640511018936 Na+/H+ ion antiporter subunit; Region: MNHE; pfam01899 640511018937 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 640511018938 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 640511018939 substrate binding pocket [chemical binding]; other site 640511018940 membrane-bound complex binding site; other site 640511018941 hinge residues; other site 640511018942 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 640511018943 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; some contain an N-terminal GntR family winged HTH DNA-binding domain; Region: SRPBCC_CalC_Aha1-like_GntR-HTH; cd08893 640511018944 putative hydrophobic ligand binding site [chemical binding]; other site 640511018945 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 640511018946 dimerization interface [polypeptide binding]; other site 640511018947 putative DNA binding site [nucleotide binding]; other site 640511018948 putative Zn2+ binding site [ion binding]; other site 640511018949 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 640511018950 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640511018951 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 640511018952 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 640511018953 Isochorismatase family; Region: Isochorismatase; pfam00857 640511018954 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 640511018955 catalytic triad [active] 640511018956 conserved cis-peptide bond; other site 640511018957 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640511018958 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640511018959 DNA binding site [nucleotide binding] 640511018960 domain linker motif; other site 640511018961 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 640511018962 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 640511018963 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 640511018964 inhibitor site; inhibition site 640511018965 active site 640511018966 dimer interface [polypeptide binding]; other site 640511018967 catalytic residue [active] 640511018968 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511018969 D-galactonate transporter; Region: 2A0114; TIGR00893 640511018970 putative substrate translocation pore; other site 640511018971 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 640511018972 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 640511018973 substrate binding site [chemical binding]; other site 640511018974 dimer interface [polypeptide binding]; other site 640511018975 ATP binding site [chemical binding]; other site 640511018976 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 640511018977 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640511018978 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 640511018979 allantoate amidohydrolase; Reviewed; Region: PRK09290 640511018980 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 640511018981 active site 640511018982 metal binding site [ion binding]; metal-binding site 640511018983 dimer interface [polypeptide binding]; other site 640511018984 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 640511018985 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 640511018986 Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and...; Region: DHPD_FMN; cd02940 640511018987 homodimer interface [polypeptide binding]; other site 640511018988 active site 640511018989 FMN binding site [chemical binding]; other site 640511018990 substrate binding site [chemical binding]; other site 640511018991 4Fe-4S binding domain; Region: Fer4; cl02805 640511018992 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily, YbbW-like; solute-binding domain; Region: SLC-NCS1sbd_YbbW-like; cd11485 640511018993 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 640511018994 Na binding site [ion binding]; other site 640511018995 putative substrate binding site [chemical binding]; other site 640511018996 phenylhydantoinase; Validated; Region: PRK08323 640511018997 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 640511018998 tetramer interface [polypeptide binding]; other site 640511018999 active site 640511019000 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640511019001 MarR family; Region: MarR_2; pfam12802 640511019002 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 640511019003 trimer interface [polypeptide binding]; other site 640511019004 putative Zn binding site [ion binding]; other site 640511019005 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 640511019006 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 640511019007 Sulfatase; Region: Sulfatase; cl17466 640511019008 Sulfatase; Region: Sulfatase; cl17466 640511019009 Domain of unknown function (DUF427); Region: DUF427; pfam04248 640511019010 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 640511019011 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 640511019012 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640511019013 putative ADP-binding pocket [chemical binding]; other site 640511019014 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 640511019015 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 640511019016 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 640511019017 Trp docking motif [polypeptide binding]; other site 640511019018 putative active site [active] 640511019019 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 640511019020 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640511019021 Walker A/P-loop; other site 640511019022 ATP binding site [chemical binding]; other site 640511019023 Hemerythrin-like domain; Region: Hr-like; cd12108 640511019024 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 640511019025 dimanganese center [ion binding]; other site 640511019026 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 640511019027 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 640511019028 heme-binding site [chemical binding]; other site 640511019029 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 640511019030 FAD binding pocket [chemical binding]; other site 640511019031 FAD binding motif [chemical binding]; other site 640511019032 phosphate binding motif [ion binding]; other site 640511019033 beta-alpha-beta structure motif; other site 640511019034 NAD binding pocket [chemical binding]; other site 640511019035 Heme binding pocket [chemical binding]; other site 640511019036 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 640511019037 Tannase and feruloyl esterase; Region: Tannase; pfam07519 640511019038 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640511019039 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 640511019040 trimer interface [polypeptide binding]; other site 640511019041 eyelet of channel; other site 640511019042 EthD domain; Region: EthD; cl17553 640511019043 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 640511019044 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 640511019045 putative molybdopterin cofactor binding site [chemical binding]; other site 640511019046 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 640511019047 putative molybdopterin cofactor binding site; other site 640511019048 succinate dehydrogenase iron-sulfur subunit; Provisional; Region: PRK12575 640511019049 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 640511019050 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 640511019051 dimerization interface [polypeptide binding]; other site 640511019052 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511019053 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511019054 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 640511019055 putative dimerization interface [polypeptide binding]; other site 640511019056 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 640511019057 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 640511019058 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 640511019059 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 640511019060 protein binding site [polypeptide binding]; other site 640511019061 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 640511019062 protein binding site [polypeptide binding]; other site 640511019063 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640511019064 DNA binding site [nucleotide binding] 640511019065 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 640511019066 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640511019067 putative ligand binding site [chemical binding]; other site 640511019068 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 640511019069 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 640511019070 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 640511019071 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511019072 dimer interface [polypeptide binding]; other site 640511019073 conserved gate region; other site 640511019074 putative PBP binding loops; other site 640511019075 ABC-ATPase subunit interface; other site 640511019076 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 640511019077 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511019078 dimer interface [polypeptide binding]; other site 640511019079 conserved gate region; other site 640511019080 putative PBP binding loops; other site 640511019081 ABC-ATPase subunit interface; other site 640511019082 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 640511019083 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640511019084 Walker A/P-loop; other site 640511019085 ATP binding site [chemical binding]; other site 640511019086 Q-loop/lid; other site 640511019087 ABC transporter signature motif; other site 640511019088 Walker B; other site 640511019089 D-loop; other site 640511019090 H-loop/switch region; other site 640511019091 TOBE domain; Region: TOBE_2; pfam08402 640511019092 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 640511019093 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 640511019094 Walker A/P-loop; other site 640511019095 ATP binding site [chemical binding]; other site 640511019096 Q-loop/lid; other site 640511019097 ABC transporter signature motif; other site 640511019098 Walker B; other site 640511019099 D-loop; other site 640511019100 H-loop/switch region; other site 640511019101 DAK2 domain; Region: Dak2; cl03685 640511019102 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481 640511019103 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 640511019104 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 640511019105 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 640511019106 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 640511019107 putative NAD(P) binding site [chemical binding]; other site 640511019108 Protein of unknown function (DUF3788); Region: DUF3788; pfam12663 640511019109 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 640511019110 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 640511019111 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 640511019112 putative NAD(P) binding site [chemical binding]; other site 640511019113 Uncharacterized conserved protein [Function unknown]; Region: COG2128 640511019114 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 640511019115 Nitroreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_1; cd02137 640511019116 dimer interface [polypeptide binding]; other site 640511019117 FMN binding site [chemical binding]; other site 640511019118 Cupin; Region: Cupin_6; pfam12852 640511019119 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640511019120 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511019121 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 640511019122 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511019123 DNA-binding site [nucleotide binding]; DNA binding site 640511019124 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 640511019125 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511019126 homodimer interface [polypeptide binding]; other site 640511019127 catalytic residue [active] 640511019128 Domain of unknown function DUF20; Region: UPF0118; pfam01594 640511019129 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 640511019130 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640511019131 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640511019132 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 640511019133 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640511019134 HlyD family secretion protein; Region: HlyD_3; pfam13437 640511019135 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 640511019136 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640511019137 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640511019138 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640511019139 N-terminal domain of 2,4,5-trihydroxytoluene (THT) oxygenase; Region: THT_Oxygenase_N; cd07267 640511019140 3,4-dihydroxyphenylacetate 2,3-dioxygenase; Region: HpaD; TIGR02295 640511019141 The C-terminal domain of 2,4,5-Trihydroxytoluene (THT) oxygenase, which is an extradiol dioxygenease in the 2,4-dinitrotoluene (DNT) degradation pathway; Region: THT_oxygenase_C; cd07257 640511019142 putative active site [active] 640511019143 putative metal binding site [ion binding]; other site 640511019144 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 640511019145 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 640511019146 AMP-binding domain protein; Validated; Region: PRK07529 640511019147 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 640511019148 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_4; cd05944 640511019149 acyl-activating enzyme (AAE) consensus motif; other site 640511019150 putative AMP binding site [chemical binding]; other site 640511019151 putative active site [active] 640511019152 putative CoA binding site [chemical binding]; other site 640511019153 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 640511019154 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 640511019155 molybdopterin cofactor binding site; other site 640511019156 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 640511019157 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 640511019158 molybdopterin cofactor binding site; other site 640511019159 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 640511019160 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 640511019161 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 640511019162 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 640511019163 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 640511019164 active site 640511019165 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 640511019166 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 640511019167 active site 640511019168 Zn binding site [ion binding]; other site 640511019169 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 640511019170 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 640511019171 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 640511019172 NAD binding site [chemical binding]; other site 640511019173 catalytic Zn binding site [ion binding]; other site 640511019174 structural Zn binding site [ion binding]; other site 640511019175 Putative ParB-like nuclease; Region: ParBc_2; cl17538 640511019176 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 640511019177 Phasin protein; Region: Phasin_2; cl11491 640511019178 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 640511019179 dinuclear metal binding motif [ion binding]; other site 640511019180 Protein of unknown function (DUF4242); Region: DUF4242; pfam14026 640511019181 SAM (Sterile alpha motif ); Region: SAM_superfamily; cl15755 640511019182 cyclase homology domain; Region: CHD; cd07302 640511019183 nucleotidyl binding site; other site 640511019184 metal binding site [ion binding]; metal-binding site 640511019185 dimer interface [polypeptide binding]; other site 640511019186 AAA ATPase domain; Region: AAA_16; pfam13191 640511019187 Walker A motif; other site 640511019188 ATP binding site [chemical binding]; other site 640511019189 Tetratricopeptide repeat; Region: TPR_12; pfam13424 640511019190 haemagglutination activity domain; Region: Haemagg_act; pfam05860 640511019191 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 640511019192 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 640511019193 THF binding site; other site 640511019194 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 640511019195 substrate binding site [chemical binding]; other site 640511019196 THF binding site; other site 640511019197 zinc-binding site [ion binding]; other site 640511019198 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 640511019199 Resolvase, N terminal domain; Region: Resolvase; pfam00239 640511019200 catalytic residues [active] 640511019201 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 640511019202 DNA-binding interface [nucleotide binding]; DNA binding site 640511019203 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 640511019204 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 640511019205 NAD binding site [chemical binding]; other site 640511019206 putative substrate binding site 2 [chemical binding]; other site 640511019207 putative substrate binding site 1 [chemical binding]; other site 640511019208 active site 640511019209 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640511019210 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 640511019211 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 640511019212 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 640511019213 putative active site [active] 640511019214 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 640511019215 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 640511019216 active site 640511019217 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 640511019218 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 640511019219 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 640511019220 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 640511019221 putative active site [active] 640511019222 D,D-heptose 1,7-bisphosphate phosphatase; Region: GmhB_yaeD; TIGR00213 640511019223 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 640511019224 active site 640511019225 motif I; other site 640511019226 motif II; other site 640511019227 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 640511019228 D-inositol-3-phosphate glycosyltransferase; Region: mycothiol_MshA; TIGR03449 640511019229 putative ADP-binding pocket [chemical binding]; other site 640511019230 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 640511019231 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 640511019232 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640511019233 Walker A/P-loop; other site 640511019234 ATP binding site [chemical binding]; other site 640511019235 Q-loop/lid; other site 640511019236 ABC transporter signature motif; other site 640511019237 Walker B; other site 640511019238 Protein of unknown function (DUF1822); Region: DUF1822; pfam08852 640511019239 D-loop; other site 640511019240 H-loop/switch region; other site 640511019241 Response regulator receiver domain; Region: Response_reg; pfam00072 640511019242 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511019243 active site 640511019244 phosphorylation site [posttranslational modification] 640511019245 intermolecular recognition site; other site 640511019246 dimerization interface [polypeptide binding]; other site 640511019247 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 640511019248 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 640511019249 Probable Catalytic site; other site 640511019250 metal-binding site 640511019251 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 640511019252 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 640511019253 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 640511019254 Phophatidylserine decarboxylase; Region: PSDC; pfam12588 640511019255 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; pfam02666 640511019256 CheB methylesterase; Region: CheB_methylest; pfam01339 640511019257 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 640511019258 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 640511019259 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 640511019260 S-adenosylmethionine binding site [chemical binding]; other site 640511019261 PAS fold; Region: PAS; pfam00989 640511019262 PAS domain; Region: PAS_10; pfam13596 640511019263 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 640511019264 putative active site [active] 640511019265 heme pocket [chemical binding]; other site 640511019266 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 640511019267 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 640511019268 putative active site [active] 640511019269 heme pocket [chemical binding]; other site 640511019270 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 640511019271 dimer interface [polypeptide binding]; other site 640511019272 phosphorylation site [posttranslational modification] 640511019273 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511019274 ATP binding site [chemical binding]; other site 640511019275 Mg2+ binding site [ion binding]; other site 640511019276 G-X-G motif; other site 640511019277 Response regulator receiver domain; Region: Response_reg; pfam00072 640511019278 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511019279 active site 640511019280 phosphorylation site [posttranslational modification] 640511019281 intermolecular recognition site; other site 640511019282 dimerization interface [polypeptide binding]; other site 640511019283 CheB methylesterase; Region: CheB_methylest; pfam01339 640511019284 CheB methylesterase; Region: CheB_methylest; pfam01339 640511019285 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 640511019286 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 640511019287 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 640511019288 PAS domain; Region: PAS_10; pfam13596 640511019289 GAF domain; Region: GAF; cl17456 640511019290 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 640511019291 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640511019292 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 640511019293 putative ADP-binding pocket [chemical binding]; other site 640511019294 Hemerythrin-like domain; Region: Hr-like; cd12108 640511019295 Fe binding site [ion binding]; other site 640511019296 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 640511019297 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 640511019298 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 640511019299 homodimer interface [polypeptide binding]; other site 640511019300 NAD binding pocket [chemical binding]; other site 640511019301 ATP binding pocket [chemical binding]; other site 640511019302 Mg binding site [ion binding]; other site 640511019303 active-site loop [active] 640511019304 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 640511019305 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 640511019306 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 640511019307 S-adenosylmethionine binding site [chemical binding]; other site 640511019308 Erythromycin esterase; Region: Erythro_esteras; pfam05139 640511019309 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 640511019310 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 640511019311 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 640511019312 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 640511019313 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 640511019314 substrate binding pocket [chemical binding]; other site 640511019315 membrane-bound complex binding site; other site 640511019316 hinge residues; other site 640511019317 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511019318 DNA-binding site [nucleotide binding]; DNA binding site 640511019319 Transcriptional regulators [Transcription]; Region: GntR; COG1802 640511019320 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 640511019321 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 640511019322 PQQ-like domain; Region: PQQ_2; pfam13360 640511019323 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 640511019324 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 640511019325 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 640511019326 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 640511019327 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 640511019328 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 640511019329 UDP-galactopyranose mutase; Region: GLF; pfam03275 640511019330 Protein of unknown function (DUF707); Region: DUF707; pfam05212 640511019331 Alpha 1,4-glycosyltransferase conserved region; Region: Gb3_synth; pfam04572 640511019332 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 640511019333 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 640511019334 active site 640511019335 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511019336 D-galactonate transporter; Region: 2A0114; TIGR00893 640511019337 putative substrate translocation pore; other site 640511019338 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511019339 D-galactonate transporter; Region: 2A0114; TIGR00893 640511019340 putative substrate translocation pore; other site 640511019341 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 640511019342 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 640511019343 active site 640511019344 tetramer interface [polypeptide binding]; other site 640511019345 Transcriptional regulators [Transcription]; Region: GntR; COG1802 640511019346 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511019347 DNA-binding site [nucleotide binding]; DNA binding site 640511019348 FCD domain; Region: FCD; pfam07729 640511019349 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 640511019350 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 640511019351 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 640511019352 trehalose synthase; Region: treS_nterm; TIGR02456 640511019353 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 640511019354 active site 640511019355 catalytic site [active] 640511019356 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase) and related proteins; Region: AmyAc_OligoGlu_like; cd11331 640511019357 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 640511019358 active site 640511019359 catalytic site [active] 640511019360 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 640511019361 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 640511019362 salt bridge; other site 640511019363 non-specific DNA binding site [nucleotide binding]; other site 640511019364 sequence-specific DNA binding site [nucleotide binding]; other site 640511019365 atypical (a) SDRs, subgroup 7; Region: SDR_a7; cd05262 640511019366 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 640511019367 putative NAD(P) binding site [chemical binding]; other site 640511019368 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 640511019369 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 640511019370 active site 640511019371 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 640511019372 putative catalytic site [active] 640511019373 putative metal binding site [ion binding]; other site 640511019374 putative phosphate binding site [ion binding]; other site 640511019375 putative catalytic site [active] 640511019376 putative phosphate binding site [ion binding]; other site 640511019377 putative metal binding site [ion binding]; other site 640511019378 Helix-turn-helix domain; Region: HTH_17; cl17695 640511019379 ASC-1 homology domain, ASC-1-like subfamily. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain...; Region: ASCH_ASC-1_like; cd06554 640511019380 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl15384 640511019381 RecT family; Region: RecT; pfam03837 640511019382 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 640511019383 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511019384 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511019385 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 640511019386 dimerization interface [polypeptide binding]; other site 640511019387 Haemolytic domain; Region: Haemolytic; pfam01809 640511019388 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 640511019389 sequence-specific DNA binding site [nucleotide binding]; other site 640511019390 salt bridge; other site 640511019391 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 640511019392 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 640511019393 Active Sites [active] 640511019394 Uncharacterized small protein (DUF2158); Region: DUF2158; cl02293 640511019395 ParB-like nuclease domain; Region: ParBc; pfam02195 640511019396 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 640511019397 DNA methylase; Region: N6_N4_Mtase; pfam01555 640511019398 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5410 640511019399 Terminase-like family; Region: Terminase_6; pfam03237 640511019400 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 640511019401 phage-related protein, HI1409 family; Region: phge_rel_HI1409; TIGR01555 640511019402 Protein of unknown function (DUF1073); Region: DUF1073; pfam06381 640511019403 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 640511019404 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3566 640511019405 Uncharacterized protein conserved in bacteria (DUF2213); Region: DUF2213; pfam09979 640511019406 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4834 640511019407 Uncharacterized protein conserved in bacteria (DUF2184); Region: DUF2184; pfam09950 640511019408 Protein of unknown function (DUF4054); Region: DUF4054; pfam13262 640511019409 Protein of unknown function (DUF3383); Region: DUF3383; pfam11863 640511019410 Protein of unknown function (DUF3277); Region: DUF3277; pfam11681 640511019411 Protein of unknown function (DUF2669); Region: DUF2669; pfam10876 640511019412 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 640511019413 Uncharacterized homolog of phage Mu protein gp47 [Function unknown]; Region: XkdT; COG3299 640511019414 Protein of unknown function (DUF2612); Region: DUF2612; pfam11041 640511019415 Carbohydrate binding domain; Region: CBM_5_12; pfam02839 640511019416 Domain of unknown function (DUF4376); Region: DUF4376; pfam14301 640511019417 Peptidase M15; Region: Peptidase_M15_3; pfam08291 640511019418 Phage holin family 2; Region: Phage_holin_2; pfam04550 640511019419 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 640511019420 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 640511019421 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 640511019422 NAD(P) binding site [chemical binding]; other site 640511019423 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511019424 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 640511019425 NAD(P) binding site [chemical binding]; other site 640511019426 active site 640511019427 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511019428 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511019429 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 640511019430 putative effector binding pocket; other site 640511019431 dimerization interface [polypeptide binding]; other site 640511019432 Coxiella burnetii protein of unknown function (DUF762); Region: DUF762; pfam05555 640511019433 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 640511019434 integrase; Provisional; Region: PRK09692 640511019435 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 640511019436 active site 640511019437 DNA binding site [nucleotide binding] 640511019438 Int/Topo IB signature motif; other site 640511019439 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4705 640511019440 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 640511019441 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 640511019442 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 640511019443 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 640511019444 Glycosyl hydrolase catalytic core; Region: Glyco_hydro_cc; pfam11790 640511019445 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 640511019446 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 640511019447 Cu(I) binding site [ion binding]; other site 640511019448 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 640511019449 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 640511019450 putative sugar binding sites [chemical binding]; other site 640511019451 Q-X-W motif; other site 640511019452 Kelch domain; Region: Kelch; smart00612 640511019453 C-terminal Early set domain associated with the catalytic domain of galactose oxidase; Region: E_set_GO_C; cd02851 640511019454 Cytochrome c; Region: Cytochrom_C; cl11414 640511019455 tyrosine kinase; Provisional; Region: PRK11519 640511019456 Chain length determinant protein; Region: Wzz; pfam02706 640511019457 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 640511019458 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 640511019459 P loop; other site 640511019460 Nucleotide binding site [chemical binding]; other site 640511019461 DTAP/Switch II; other site 640511019462 Switch I; other site 640511019463 Bacterial sugar transferase; Region: Bac_transf; pfam02397 640511019464 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 640511019465 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640511019466 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 640511019467 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640511019468 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 640511019469 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 640511019470 putative active site [active] 640511019471 putative metal binding site [ion binding]; other site 640511019472 tyrosine kinase; Provisional; Region: PRK11519 640511019473 Chain length determinant protein; Region: Wzz; pfam02706 640511019474 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 640511019475 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 640511019476 P loop; other site 640511019477 Nucleotide binding site [chemical binding]; other site 640511019478 DTAP/Switch II; other site 640511019479 Switch I; other site 640511019480 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 640511019481 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 640511019482 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 640511019483 N-terminal plug; other site 640511019484 ligand-binding site [chemical binding]; other site 640511019485 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 640511019486 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 640511019487 Walker A/P-loop; other site 640511019488 ATP binding site [chemical binding]; other site 640511019489 Q-loop/lid; other site 640511019490 ABC transporter signature motif; other site 640511019491 Walker B; other site 640511019492 D-loop; other site 640511019493 H-loop/switch region; other site 640511019494 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640511019495 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 640511019496 TM-ABC transporter signature motif; other site 640511019497 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_4; cd06312 640511019498 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640511019499 putative ligand binding site [chemical binding]; other site 640511019500 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 640511019501 putative uracil binding site [chemical binding]; other site 640511019502 putative active site [active] 640511019503 Protein of unknown function, DUF488; Region: DUF488; pfam04343 640511019504 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511019505 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640511019506 putative substrate translocation pore; other site 640511019507 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511019508 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 640511019509 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 640511019510 substrate binding pocket [chemical binding]; other site 640511019511 membrane-bound complex binding site; other site 640511019512 hinge residues; other site 640511019513 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 640511019514 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 640511019515 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 640511019516 Moco binding site; other site 640511019517 metal coordination site [ion binding]; other site 640511019518 Cytochrome c; Region: Cytochrom_C; pfam00034 640511019519 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640511019520 MarR family; Region: MarR; pfam01047 640511019521 phenol 2-monooxygenase; Provisional; Region: PRK08294 640511019522 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 640511019523 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 640511019524 FAD-dependent Phenol hydoxylase (PHOX) family, C-terminal TRX-fold domain; composed of proteins similar to PHOX from the aerobic topsoil yeast Trichosporon cutaneum. PHOX is a flavoprotein monooxygenase that catalyzes the hydroxylation of phenol and...; Region: PHOX_C; cd02979 640511019525 dimer interface [polypeptide binding]; other site 640511019526 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 640511019527 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 640511019528 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 640511019529 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511019530 putative substrate translocation pore; other site 640511019531 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 640511019532 Protein of unknown function (DUF2783); Region: DUF2783; pfam10932 640511019533 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 640511019534 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 640511019535 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 640511019536 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 640511019537 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 640511019538 NAD(P) binding site [chemical binding]; other site 640511019539 Streptogramin lyase [Defense mechanisms]; Region: Vgb; COG4257 640511019540 Protein of unknown function (DUF1810); Region: DUF1810; pfam08837 640511019541 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511019542 NAD(P) binding site [chemical binding]; other site 640511019543 active site 640511019544 NnrS protein; Region: NnrS; pfam05940 640511019545 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 640511019546 active site 640511019547 barstar interaction site; other site 640511019548 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 640511019549 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640511019550 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 640511019551 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 640511019552 active site 640511019553 FMN binding site [chemical binding]; other site 640511019554 substrate binding site [chemical binding]; other site 640511019555 homotetramer interface [polypeptide binding]; other site 640511019556 catalytic residue [active] 640511019557 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 640511019558 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511019559 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511019560 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 640511019561 dimerization interface [polypeptide binding]; other site 640511019562 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511019563 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511019564 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 640511019565 putative effector binding pocket; other site 640511019566 dimerization interface [polypeptide binding]; other site 640511019567 KR domain; Region: KR; pfam08659 640511019568 classical (c) SDRs; Region: SDR_c; cd05233 640511019569 NAD(P) binding site [chemical binding]; other site 640511019570 active site 640511019571 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 640511019572 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 640511019573 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 640511019574 NADP binding site [chemical binding]; other site 640511019575 active site 640511019576 steroid binding site; other site 640511019577 Cupin; Region: Cupin_6; pfam12852 640511019578 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 640511019579 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511019580 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 640511019581 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 640511019582 PhoU domain; Region: PhoU; pfam01895 640511019583 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 640511019584 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511019585 dimer interface [polypeptide binding]; other site 640511019586 conserved gate region; other site 640511019587 putative PBP binding loops; other site 640511019588 ABC-ATPase subunit interface; other site 640511019589 2-aminoethylphosphonate transport system permease PhnU; Provisional; Region: PRK15050 640511019590 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511019591 dimer interface [polypeptide binding]; other site 640511019592 conserved gate region; other site 640511019593 putative PBP binding loops; other site 640511019594 ABC-ATPase subunit interface; other site 640511019595 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 640511019596 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640511019597 Walker A/P-loop; other site 640511019598 ATP binding site [chemical binding]; other site 640511019599 Q-loop/lid; other site 640511019600 ABC transporter signature motif; other site 640511019601 Walker B; other site 640511019602 D-loop; other site 640511019603 H-loop/switch region; other site 640511019604 TOBE domain; Region: TOBE_2; pfam08402 640511019605 2-aminoethylphosphonate ABC transporter substrate-binding protein; Provisional; Region: PRK15046 640511019606 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 640511019607 putative phosphonoacetaldehyde dehydrogenase; Region: PhnAcAld_DH; TIGR03250 640511019608 Streptomyces putative phosphonoformaldehyde dehydrogenase PhpJ-like; Region: ALDH_PhpJ; cd07146 640511019609 NAD(P) binding site [chemical binding]; other site 640511019610 catalytic residues [active] 640511019611 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 640511019612 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 640511019613 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 640511019614 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640511019615 catalytic residue [active] 640511019616 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 640511019617 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 640511019618 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 640511019619 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 640511019620 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 640511019621 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 640511019622 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 640511019623 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640511019624 hydroxyglutarate oxidase; Provisional; Region: PRK11728 640511019625 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 640511019626 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 640511019627 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 640511019628 BON domain; Region: BON; pfam04972 640511019629 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 640511019630 tyrosine decarboxylase; Region: PLN02880 640511019631 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 640511019632 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640511019633 catalytic residue [active] 640511019634 SAM domain (Sterile alpha motif); Region: SAM_2; pfam07647 640511019635 SAM (Sterile alpha motif ); Region: SAM_superfamily; cd09487 640511019636 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 640511019637 cyclase homology domain; Region: CHD; cd07302 640511019638 nucleotidyl binding site; other site 640511019639 metal binding site [ion binding]; metal-binding site 640511019640 dimer interface [polypeptide binding]; other site 640511019641 AAA ATPase domain; Region: AAA_16; pfam13191 640511019642 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 640511019643 binding surface 640511019644 TPR motif; other site 640511019645 Indigoidine synthase A like protein; Region: Indigoidine_A; pfam04227 640511019646 RibD C-terminal domain; Region: RibD_C; cl17279 640511019647 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 640511019648 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640511019649 catalytic residue [active] 640511019650 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 640511019651 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 640511019652 FMN binding site [chemical binding]; other site 640511019653 active site 640511019654 substrate binding site [chemical binding]; other site 640511019655 catalytic residue [active] 640511019656 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511019657 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511019658 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 640511019659 putative effector binding pocket; other site 640511019660 putative dimerization interface [polypeptide binding]; other site 640511019661 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 640511019662 Nitrogen regulatory protein P-II; Region: P-II; smart00938 640511019663 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 640511019664 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 640511019665 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 640511019666 Walker A motif; other site 640511019667 ATP binding site [chemical binding]; other site 640511019668 Walker B motif; other site 640511019669 arginine finger; other site 640511019670 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 640511019671 Predicted inorganic polyphosphate/ATP-NAD kinase [General function prediction only]; Region: COG3199 640511019672 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 640511019673 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 640511019674 tetramer interface [polypeptide binding]; other site 640511019675 TPP-binding site [chemical binding]; other site 640511019676 heterodimer interface [polypeptide binding]; other site 640511019677 phosphorylation loop region [posttranslational modification] 640511019678 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 640511019679 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 640511019680 alpha subunit interface [polypeptide binding]; other site 640511019681 TPP binding site [chemical binding]; other site 640511019682 heterodimer interface [polypeptide binding]; other site 640511019683 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 640511019684 acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional; Region: PRK14875 640511019685 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 640511019686 E3 interaction surface; other site 640511019687 lipoyl attachment site [posttranslational modification]; other site 640511019688 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 640511019689 lipoyl synthase; Provisional; Region: PRK12928 640511019690 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 640511019691 FeS/SAM binding site; other site 640511019692 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 640511019693 cell density-dependent motility repressor; Provisional; Region: PRK10082 640511019694 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511019695 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 640511019696 dimerization interface [polypeptide binding]; other site 640511019697 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 640511019698 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 640511019699 aspartate racemase; Region: asp_race; TIGR00035 640511019700 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; pfam01177 640511019701 aspartate racemase; Region: asp_race; TIGR00035 640511019702 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 640511019703 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 640511019704 Aspartase; Region: Aspartase; cd01357 640511019705 active sites [active] 640511019706 tetramer interface [polypeptide binding]; other site 640511019707 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 640511019708 active site 640511019709 homotetramer interface [polypeptide binding]; other site 640511019710 homodimer interface [polypeptide binding]; other site 640511019711 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 640511019712 PAS domain; Region: PAS_9; pfam13426 640511019713 putative active site [active] 640511019714 heme pocket [chemical binding]; other site 640511019715 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 640511019716 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 640511019717 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 640511019718 putative active site [active] 640511019719 heme pocket [chemical binding]; other site 640511019720 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 640511019721 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640511019722 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 640511019723 dimer interface [polypeptide binding]; other site 640511019724 phosphorylation site [posttranslational modification] 640511019725 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511019726 ATP binding site [chemical binding]; other site 640511019727 Mg2+ binding site [ion binding]; other site 640511019728 G-X-G motif; other site 640511019729 Response regulator receiver domain; Region: Response_reg; pfam00072 640511019730 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511019731 active site 640511019732 phosphorylation site [posttranslational modification] 640511019733 intermolecular recognition site; other site 640511019734 dimerization interface [polypeptide binding]; other site 640511019735 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 640511019736 Sulfate transporter family; Region: Sulfate_transp; pfam00916 640511019737 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 640511019738 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 640511019739 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 640511019740 ligand binding site [chemical binding]; other site 640511019741 flexible hinge region; other site 640511019742 Sterile alpha motif; Region: SAM; smart00454 640511019743 SAM (Sterile alpha motif ); Region: SAM_superfamily; cd09487 640511019744 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 640511019745 cyclase homology domain; Region: CHD; cd07302 640511019746 nucleotidyl binding site; other site 640511019747 metal binding site [ion binding]; metal-binding site 640511019748 dimer interface [polypeptide binding]; other site 640511019749 AAA ATPase domain; Region: AAA_16; pfam13191 640511019750 Predicted ATPase [General function prediction only]; Region: COG3899 640511019751 Tetratricopeptide repeat; Region: TPR_12; pfam13424 640511019752 Protein of unknown function (DUF2681); Region: DUF2681; pfam10883 640511019753 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 640511019754 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640511019755 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 640511019756 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 640511019757 HlyD family secretion protein; Region: HlyD_3; pfam13437 640511019758 acyl-CoA synthetase; Validated; Region: PRK09192 640511019759 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 640511019760 acyl-activating enzyme (AAE) consensus motif; other site 640511019761 active site 640511019762 Fatty acid desaturase; Region: FA_desaturase; pfam00487 640511019763 phosphoenolpyruvate synthase; Validated; Region: PRK06241 640511019764 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 640511019765 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 640511019766 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 640511019767 active site 640511019768 NTP binding site [chemical binding]; other site 640511019769 metal binding triad [ion binding]; metal-binding site 640511019770 antibiotic binding site [chemical binding]; other site 640511019771 Pseudomonas fluorescens MupV-like, extended (e) SDRs; Region: MupV_like_SDR_e; cd05263 640511019772 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 640511019773 putative NAD(P) binding site [chemical binding]; other site 640511019774 active site 640511019775 putative substrate binding site [chemical binding]; other site 640511019776 acyl carrier protein; Provisional; Region: acpP; PRK00982 640511019777 Coenzyme Q (ubiquinone) biosynthesis protein Coq4; Region: Coq4; cl02093 640511019778 mevalonate kinase; Region: mevalon_kin; TIGR00549 640511019779 Predicted archaeal sugar kinases [General function prediction only]; Region: COG1907 640511019780 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 640511019781 B12 binding site [chemical binding]; other site 640511019782 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 640511019783 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 640511019784 FeS/SAM binding site; other site 640511019785 tryptophanase/L-cysteine desulfhydrase, PLP-dependent; Provisional; Region: tnaA; PRK13238 640511019786 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 640511019787 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640511019788 catalytic residue [active] 640511019789 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 640511019790 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 640511019791 active site 640511019792 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 640511019793 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 640511019794 putative DNA binding site [nucleotide binding]; other site 640511019795 putative Zn2+ binding site [ion binding]; other site 640511019796 AsnC family; Region: AsnC_trans_reg; pfam01037 640511019797 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 640511019798 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 640511019799 dimer interface [polypeptide binding]; other site 640511019800 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 640511019801 active site 640511019802 Fe binding site [ion binding]; other site 640511019803 aromatic amino acid transporter; Provisional; Region: PRK10238 640511019804 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 640511019805 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 640511019806 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511019807 homodimer interface [polypeptide binding]; other site 640511019808 catalytic residue [active] 640511019809 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 640511019810 active site 640511019811 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 640511019812 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 640511019813 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640511019814 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 640511019815 dimer interface [polypeptide binding]; other site 640511019816 phosphorylation site [posttranslational modification] 640511019817 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511019818 ATP binding site [chemical binding]; other site 640511019819 Mg2+ binding site [ion binding]; other site 640511019820 G-X-G motif; other site 640511019821 Response regulator receiver domain; Region: Response_reg; pfam00072 640511019822 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511019823 active site 640511019824 phosphorylation site [posttranslational modification] 640511019825 intermolecular recognition site; other site 640511019826 dimerization interface [polypeptide binding]; other site 640511019827 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511019828 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511019829 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 640511019830 putative dimerization interface [polypeptide binding]; other site 640511019831 tricarballylate dehydrogenase; Validated; Region: PRK08274 640511019832 tricarballylate utilization protein B; Provisional; Region: PRK15033 640511019833 citrate-proton symporter; Provisional; Region: PRK15075 640511019834 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511019835 putative substrate translocation pore; other site 640511019836 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640511019837 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640511019838 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 640511019839 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 640511019840 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 640511019841 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 640511019842 Autotransporter beta-domain; Region: Autotransporter; smart00869 640511019843 Phenylacetate-CoA ligase (also known as PaaK); Region: PaaK; cd05913 640511019844 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 640511019845 active site 640511019846 AMP binding site [chemical binding]; other site 640511019847 homodimer interface [polypeptide binding]; other site 640511019848 acyl-activating enzyme (AAE) consensus motif; other site 640511019849 CoA binding site [chemical binding]; other site 640511019850 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 640511019851 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 640511019852 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 640511019853 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 640511019854 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 640511019855 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 640511019856 dimer interface [polypeptide binding]; other site 640511019857 active site 640511019858 phenylacetic acid degradation protein paaN; Region: PaaN_2; TIGR02288 640511019859 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 640511019860 NAD(P) binding site [chemical binding]; other site 640511019861 catalytic residues [active] 640511019862 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 640511019863 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 640511019864 FAD binding pocket [chemical binding]; other site 640511019865 FAD binding motif [chemical binding]; other site 640511019866 phosphate binding motif [ion binding]; other site 640511019867 beta-alpha-beta structure motif; other site 640511019868 NAD(p) ribose binding residues [chemical binding]; other site 640511019869 NAD binding pocket [chemical binding]; other site 640511019870 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 640511019871 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 640511019872 catalytic loop [active] 640511019873 iron binding site [ion binding]; other site 640511019874 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 640511019875 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 640511019876 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 640511019877 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 640511019878 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 640511019879 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 640511019880 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR2; cd08268 640511019881 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 640511019882 putative NAD(P) binding site [chemical binding]; other site 640511019883 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 640511019884 FMN binding site [chemical binding]; other site 640511019885 dimer interface [polypeptide binding]; other site 640511019886 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640511019887 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511019888 active site 640511019889 phosphorylation site [posttranslational modification] 640511019890 intermolecular recognition site; other site 640511019891 dimerization interface [polypeptide binding]; other site 640511019892 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 640511019893 DNA binding residues [nucleotide binding] 640511019894 dimerization interface [polypeptide binding]; other site 640511019895 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 640511019896 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 640511019897 AAA domain; Region: AAA_33; pfam13671 640511019898 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 640511019899 active site 640511019900 FOG: CBS domain [General function prediction only]; Region: COG0517 640511019901 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the BON (bacterial OsmY and nodulation domain) domain. BON is a putative phospholipid-binding domain found in a family of osmotic shock protection...; Region: CBS_pair_BON_assoc; cd04586 640511019902 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 640511019903 Ligand Binding Site [chemical binding]; other site 640511019904 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 640511019905 active site 640511019906 FOG: CBS domain [General function prediction only]; Region: COG0517 640511019907 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 640511019908 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 640511019909 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 640511019910 Surface antigen; Region: Bac_surface_Ag; pfam01103 640511019911 PAS domain S-box; Region: sensory_box; TIGR00229 640511019912 PAS domain; Region: PAS_9; pfam13426 640511019913 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640511019914 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640511019915 metal binding site [ion binding]; metal-binding site 640511019916 active site 640511019917 I-site; other site 640511019918 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 640511019919 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 640511019920 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 640511019921 Predicted transporter component [General function prediction only]; Region: COG2391 640511019922 Sulphur transport; Region: Sulf_transp; pfam04143 640511019923 Predicted transporter component [General function prediction only]; Region: COG2391 640511019924 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 640511019925 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 640511019926 PAS fold; Region: PAS_4; pfam08448 640511019927 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 640511019928 putative active site [active] 640511019929 heme pocket [chemical binding]; other site 640511019930 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 640511019931 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 640511019932 Walker A motif; other site 640511019933 ATP binding site [chemical binding]; other site 640511019934 Walker B motif; other site 640511019935 arginine finger; other site 640511019936 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 640511019937 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 640511019938 Response regulator receiver domain; Region: Response_reg; pfam00072 640511019939 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511019940 active site 640511019941 phosphorylation site [posttranslational modification] 640511019942 intermolecular recognition site; other site 640511019943 dimerization interface [polypeptide binding]; other site 640511019944 PAS domain S-box; Region: sensory_box; TIGR00229 640511019945 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 640511019946 putative active site [active] 640511019947 heme pocket [chemical binding]; other site 640511019948 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 640511019949 Histidine kinase; Region: HisKA_3; pfam07730 640511019950 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511019951 ATP binding site [chemical binding]; other site 640511019952 Mg2+ binding site [ion binding]; other site 640511019953 G-X-G motif; other site 640511019954 HAMP domain; Region: HAMP; pfam00672 640511019955 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 640511019956 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640511019957 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 640511019958 dimer interface [polypeptide binding]; other site 640511019959 phosphorylation site [posttranslational modification] 640511019960 Archaeal/eukaryotic core primase: Large subunit, PriL; Region: PriL; cl11970 640511019961 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511019962 ATP binding site [chemical binding]; other site 640511019963 Mg2+ binding site [ion binding]; other site 640511019964 G-X-G motif; other site 640511019965 Response regulator receiver domain; Region: Response_reg; pfam00072 640511019966 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511019967 active site 640511019968 phosphorylation site [posttranslational modification] 640511019969 intermolecular recognition site; other site 640511019970 dimerization interface [polypeptide binding]; other site 640511019971 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 640511019972 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640511019973 Homospermidine synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG5310 640511019974 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 640511019975 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 640511019976 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640511019977 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 640511019978 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 640511019979 putative dimer interface [polypeptide binding]; other site 640511019980 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 640511019981 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 640511019982 putative dimer interface [polypeptide binding]; other site 640511019983 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 640511019984 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 640511019985 putative dimer interface [polypeptide binding]; other site 640511019986 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 640511019987 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 640511019988 NAD binding site [chemical binding]; other site 640511019989 catalytic Zn binding site [ion binding]; other site 640511019990 structural Zn binding site [ion binding]; other site 640511019991 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 640511019992 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 640511019993 Cytochrome c; Region: Cytochrom_C; pfam00034 640511019994 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 640511019995 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 640511019996 D-pathway; other site 640511019997 Putative ubiquinol binding site [chemical binding]; other site 640511019998 Low-spin heme (heme b) binding site [chemical binding]; other site 640511019999 Putative water exit pathway; other site 640511020000 Binuclear center (heme o3/CuB) [ion binding]; other site 640511020001 K-pathway; other site 640511020002 Putative proton exit pathway; other site 640511020003 Heme-copper oxidase subunit III. 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. The...; Region: Heme_Cu_Oxidase_III_like; cl00211 640511020004 Subunit I/III interface [polypeptide binding]; other site 640511020005 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 640511020006 PRTRC system protein D; Region: PRTRC_D; TIGR03739 640511020007 Mg binding site [ion binding]; other site 640511020008 nucleotide binding site [chemical binding]; other site 640511020009 putative protofilament interface [polypeptide binding]; other site 640511020010 Zinc-binding domain of primase-helicase; Region: Prim_Zn_Ribbon; smart00778 640511020011 Toprim domain; Region: Toprim_3; pfam13362 640511020012 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 640511020013 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 640511020014 dimer interface [polypeptide binding]; other site 640511020015 ssDNA binding site [nucleotide binding]; other site 640511020016 tetramer (dimer of dimers) interface [polypeptide binding]; other site 640511020017 Nuclease-related domain; Region: NERD; pfam08378 640511020018 RNA polymerase sigma factor WhiG; Reviewed; Region: PRK06288 640511020019 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 640511020020 Flagellar transcriptional activator (FlhC); Region: FlhC; cl05036 640511020021 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 640511020022 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 640511020023 Type II/IV secretion system protein; Region: T2SE; pfam00437 640511020024 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 640511020025 Walker A motif; other site 640511020026 ATP binding site [chemical binding]; other site 640511020027 Walker B motif; other site 640511020028 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 640511020029 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 640511020030 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 640511020031 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 640511020032 N-acetyl-D-glucosamine binding site [chemical binding]; other site 640511020033 catalytic residue [active] 640511020034 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 640511020035 VirB7 interaction site; other site 640511020036 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 640511020037 N-acetyl-D-glucosamine binding site [chemical binding]; other site 640511020038 catalytic residue [active] 640511020039 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 640511020040 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 640511020041 VirB7 interaction site; other site 640511020042 VirB8 protein; Region: VirB8; pfam04335 640511020043 Initiator Replication protein; Region: Rep_3; pfam01051 640511020044 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 640511020045 Helix-turn-helix domain; Region: HTH_17; pfam12728 640511020046 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 640511020047 P-loop; other site 640511020048 Magnesium ion binding site [ion binding]; other site 640511020049 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 640511020050 Magnesium ion binding site [ion binding]; other site 640511020051 ParB-like nuclease domain; Region: ParB; smart00470 640511020052 Lysine/ornithine N-monooxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: IucD; COG3486 640511020053 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 640511020054 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640511020055 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511020056 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 640511020057 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 640511020058 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 640511020059 IucA / IucC family; Region: IucA_IucC; pfam04183 640511020060 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 640511020061 siderophore ferric iron reductase, AHA_1954 family; Region: sidero_Fe_reduc; TIGR03950 640511020062 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 640511020063 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 640511020064 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 640511020065 [2Fe-2S] cluster binding site [ion binding]; other site 640511020066 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 640511020067 alpha subunit interface [polypeptide binding]; other site 640511020068 active site 640511020069 substrate binding site [chemical binding]; other site 640511020070 Fe binding site [ion binding]; other site 640511020071 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 640511020072 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 640511020073 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 640511020074 Transposase; Region: HTH_Tnp_1; cl17663 640511020075 Integrase core domain; Region: rve_3; cl15866 640511020076 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 640511020077 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 640511020078 acyl-activating enzyme (AAE) consensus motif; other site 640511020079 AMP binding site [chemical binding]; other site 640511020080 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 640511020081 Condensation domain; Region: Condensation; pfam00668 640511020082 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 640511020083 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 640511020084 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 640511020085 acyl-activating enzyme (AAE) consensus motif; other site 640511020086 AMP binding site [chemical binding]; other site 640511020087 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 640511020088 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 640511020089 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 640511020090 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 640511020091 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 640511020092 DNA-binding interface [nucleotide binding]; DNA binding site 640511020093 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 640511020094 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 640511020095 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 640511020096 Transposase; Region: DEDD_Tnp_IS110; pfam01548 640511020097 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 640511020098 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 640511020099 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 640511020100 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 640511020101 dinuclear metal binding motif [ion binding]; other site 640511020102 Toluene-4-monooxygenase system protein B (TmoB); Region: TmoB; pfam06234 640511020103 Toluene-4-monooxygenase effector protein complex (T4mo), Rieske ferredoxin subunit; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. T4mo is a four-protein complex that catalyzes the NADH- and O2-dependent...; Region: Rieske_T4moC; cd03474 640511020104 [2Fe-2S] cluster binding site [ion binding]; other site 640511020105 MmoB/DmpM family; Region: MmoB_DmpM; pfam02406 640511020106 Transposase domain (DUF772); Region: DUF772; pfam05598 640511020107 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 640511020108 Aromatic and Alkene Monooxygenase Hydroxylase, subunit B, ferritin-like diiron-binding domain; Region: AAMH_B; cd01058 640511020109 dimerization interface [polypeptide binding]; other site 640511020110 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 640511020111 Transposase; Region: HTH_Tnp_1; pfam01527 640511020112 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 640511020113 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 640511020114 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 640511020115 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 640511020116 catalytic residues [active] 640511020117 catalytic nucleophile [active] 640511020118 Recombinase; Region: Recombinase; pfam07508 640511020119 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 640511020120 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 640511020121 Walker A motif; other site 640511020122 ATP binding site [chemical binding]; other site 640511020123 Walker B motif; other site 640511020124 arginine finger; other site 640511020125 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 640511020126 DNA binding residues [nucleotide binding] 640511020127 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 640511020128 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 640511020129 transposase/IS protein; Provisional; Region: PRK09183 640511020130 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 640511020131 Walker A motif; other site 640511020132 ATP binding site [chemical binding]; other site 640511020133 Glycosyl hydrolase family 12; Region: Glyco_hydro_12; cl03302 640511020134 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 640511020135 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 640511020136 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 640511020137 Cytochrome P450; Region: p450; cl12078 640511020138 Carboxyl transferase domain; Region: Carboxyl_trans; pfam01039 640511020139 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 640511020140 indole acetimide hydrolase; Validated; Region: PRK07488 640511020141 Amidase; Region: Amidase; pfam01425 640511020142 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 640511020143 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 640511020144 multidrug efflux protein; Reviewed; Region: PRK09579 640511020145 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 640511020146 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640511020147 HlyD family secretion protein; Region: HlyD_3; pfam13437 640511020148 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640511020149 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 640511020150 ligand-binding site [chemical binding]; other site 640511020151 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 640511020152 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 640511020153 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 640511020154 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 640511020155 Methyltransferase domain; Region: Methyltransf_31; pfam13847 640511020156 S-adenosylmethionine binding site [chemical binding]; other site 640511020157 Nodulation protein A (NodA); Region: NodA; pfam02474 640511020158 Stf0 sulphotransferase; Region: Sulphotransf; cl01835 640511020159 ABC-2 type transporter; Region: ABC2_membrane; cl17235 640511020160 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 640511020161 nodulation ABC transporter NodI; Provisional; Region: PRK13537 640511020162 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 640511020163 Walker A/P-loop; other site 640511020164 ATP binding site [chemical binding]; other site 640511020165 Q-loop/lid; other site 640511020166 ABC transporter signature motif; other site 640511020167 Walker B; other site 640511020168 D-loop; other site 640511020169 H-loop/switch region; other site 640511020170 chitooligosaccharide synthase NodC; Region: nodulat_NodC; TIGR04242 640511020171 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 640511020172 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 640511020173 DXD motif; other site 640511020174 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 640511020175 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 640511020176 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511020177 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511020178 The C-terminal substsrate binding domain of NodD family of LysR-type transcriptional regulators that regulates the expression of nodulation (nod) genes; contains the type 2 periplasmic binding fold; Region: PBP2_NodD; cd08462 640511020179 putative substrate binding pocket [chemical binding]; other site 640511020180 putative dimerization interface [polypeptide binding]; other site 640511020181 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 640511020182 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511020183 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511020184 LysR substrate binding domain; Region: LysR_substrate; pfam03466 640511020185 dimerization interface [polypeptide binding]; other site 640511020186 Nif-specific regulatory protein; Region: nifA; TIGR01817 640511020187 GAF domain; Region: GAF; pfam01590 640511020188 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 640511020189 Walker A motif; other site 640511020190 ATP binding site [chemical binding]; other site 640511020191 Walker B motif; other site 640511020192 arginine finger; other site 640511020193 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 640511020194 nitrogenase molybdenum-cofactor biosynthesis protein NifE; Provisional; Region: PRK14478 640511020195 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 640511020196 Nitrogenase_nifN1: A subgroup of the NifN subunit of the NifEN complex: NifN forms an alpha2beta2 tetramer with NifE. NifN and nifE are structurally homologous to nitrogenase MoFe protein beta and alpha subunits respectively. NifEN participates in the...; Region: Nitrogenase_NifN_1; cd01966 640511020197 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 640511020198 NifX belongs to a family of iron-molybdenum cluster-binding proteins that includes NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. The protein...; Region: NifX; cd00853 640511020199 Rop-like; Region: Rop-like; pfam05082 640511020200 ferredoxin III, nif-specific; Region: fdxN_nitrog; TIGR02936 640511020201 NifQ; Region: NifQ; pfam04891 640511020202 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 640511020203 DNA binding residues [nucleotide binding] 640511020204 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 640511020205 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 640511020206 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 640511020207 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 640511020208 Walker A motif; other site 640511020209 ATP binding site [chemical binding]; other site 640511020210 Walker B motif; other site 640511020211 arginine finger; other site 640511020212 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 640511020213 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 640511020214 Winged helix-turn helix; Region: HTH_29; pfam13551 640511020215 Homeodomain-like domain; Region: HTH_32; pfam13565 640511020216 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 640511020217 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 640511020218 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 640511020219 oxidoreductase; Provisional; Region: PRK10015 640511020220 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 640511020221 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 640511020222 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 640511020223 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 640511020224 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 640511020225 Ligand binding site [chemical binding]; other site 640511020226 Electron transfer flavoprotein domain; Region: ETF; pfam01012 640511020227 Nitrogen fixation protein NifW; Region: NifW; pfam03206 640511020228 homocitrate synthase NifV; Region: nifV_homocitr; TIGR02660 640511020229 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 640511020230 active site 640511020231 catalytic residues [active] 640511020232 metal binding site [ion binding]; metal-binding site 640511020233 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 640511020234 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 640511020235 FeS/SAM binding site; other site 640511020236 NifB belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme as part of...; Region: NifB; cd00852 640511020237 hypothetical protein; Provisional; Region: PRK13795 640511020238 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 640511020239 NifZ domain; Region: NifZ; pfam04319 640511020240 NifT/FixU protein; Region: NifT; pfam06988 640511020241 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 640511020242 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 640511020243 inhibitor-cofactor binding pocket; inhibition site 640511020244 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511020245 catalytic residue [active] 640511020246 Transposase domain (DUF772); Region: DUF772; pfam05598 640511020247 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 640511020248 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 640511020249 Homeodomain-like domain; Region: HTH_23; pfam13384 640511020250 Winged helix-turn helix; Region: HTH_29; pfam13551 640511020251 Homeodomain-like domain; Region: HTH_32; pfam13565 640511020252 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 640511020253 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 640511020254 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 640511020255 nitrogenase reductase; Reviewed; Region: nifH; PRK13234 640511020256 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 640511020257 Nucleotide-binding sites [chemical binding]; other site 640511020258 Walker A motif; other site 640511020259 Switch I region of nucleotide binding site; other site 640511020260 Fe4S4 binding sites [ion binding]; other site 640511020261 Switch II region of nucleotide binding site; other site 640511020262 Nitrogenase molybdenum-iron protein, alpha and beta chains [Energy production and conversion]; Region: NifD; COG2710 640511020263 Nitrogenase_MoFe_alpha_II: Nitrogenase MoFe protein, beta subunit. A group of proteins similar to the alpha subunit of the MoFe protein of the molybdenum (Mo-) nitrogenase. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to...; Region: Nitrogenase_MoFe_alpha; cd01976 640511020264 MoFe protein alpha/beta subunit interactions; other site 640511020265 Alpha subunit P cluster binding residues; other site 640511020266 FeMoco binding residues [chemical binding]; other site 640511020267 MoFe protein alpha subunit/Fe protein contacts; other site 640511020268 MoFe protein dimer/ dimer interactions; other site 640511020269 nitrogenase molybdenum-iron protein beta chain; Region: nifK; TIGR01286 640511020270 Domain of unknown function (DUF3364); Region: DUF3364; pfam11844 640511020271 Nitrogenase_MoFe_beta: Nitrogenase MoFe protein, beta subunit. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. The Molybdenum (Mo-) nitrogenase is the most widespread and best characterized of these systems; Region: Nitrogenase_MoFe_beta; cd01974 640511020272 MoFe protein beta/alpha subunit interactions; other site 640511020273 Beta subunit P cluster binding residues; other site 640511020274 MoFe protein beta subunit/Fe protein contacts; other site 640511020275 MoFe protein dimer/ dimer interactions; other site 640511020276 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 640511020277 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 640511020278 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 640511020279 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 640511020280 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 640511020281 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 640511020282 D-pathway; other site 640511020283 Putative ubiquinol binding site [chemical binding]; other site 640511020284 Low-spin heme (heme b) binding site [chemical binding]; other site 640511020285 Putative water exit pathway; other site 640511020286 Binuclear center (heme o3/CuB) [ion binding]; other site 640511020287 K-pathway; other site 640511020288 Putative proton exit pathway; other site 640511020289 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 640511020290 Subunit I/III interface [polypeptide binding]; other site 640511020291 Subunit III/IV interface [polypeptide binding]; other site 640511020292 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 640511020293 Peptidase M15; Region: Peptidase_M15_3; cl01194 640511020294 Response regulator receiver domain; Region: Response_reg; pfam00072 640511020295 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511020296 active site 640511020297 phosphorylation site [posttranslational modification] 640511020298 intermolecular recognition site; other site 640511020299 dimerization interface [polypeptide binding]; other site 640511020300 PAS domain S-box; Region: sensory_box; TIGR00229 640511020301 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 640511020302 putative active site [active] 640511020303 heme pocket [chemical binding]; other site 640511020304 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 640511020305 Histidine kinase; Region: HisKA_3; pfam07730 640511020306 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511020307 ATP binding site [chemical binding]; other site 640511020308 Mg2+ binding site [ion binding]; other site 640511020309 G-X-G motif; other site 640511020310 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640511020311 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511020312 active site 640511020313 phosphorylation site [posttranslational modification] 640511020314 intermolecular recognition site; other site 640511020315 dimerization interface [polypeptide binding]; other site 640511020316 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 640511020317 DNA binding residues [nucleotide binding] 640511020318 dimerization interface [polypeptide binding]; other site 640511020319 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 640511020320 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 640511020321 active site 640511020322 catalytic tetrad [active] 640511020323 aspartate aminotransferase; Provisional; Region: PRK05764 640511020324 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 640511020325 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511020326 homodimer interface [polypeptide binding]; other site 640511020327 catalytic residue [active] 640511020328 hypothetical protein; Provisional; Region: PRK07206 640511020329 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 640511020330 Saccharopine Dehydrogenase NAD-binding and catalytic domains; Region: SDH; cd12188 640511020331 active site 640511020332 ligand binding site [chemical binding]; other site 640511020333 homodimer interface [polypeptide binding]; other site 640511020334 NAD(P) binding site [chemical binding]; other site 640511020335 Transposase domain (DUF772); Region: DUF772; pfam05598 640511020336 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 640511020337 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 640511020338 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 640511020339 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 640511020340 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 640511020341 DNA-binding interface [nucleotide binding]; DNA binding site 640511020342 Integrase core domain; Region: rve; pfam00665 640511020343 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 640511020344 putative transposase OrfB; Reviewed; Region: PHA02517 640511020345 HTH-like domain; Region: HTH_21; pfam13276 640511020346 Integrase core domain; Region: rve; pfam00665 640511020347 Integrase core domain; Region: rve_3; pfam13683 640511020348 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 640511020349 Transposase; Region: HTH_Tnp_1; pfam01527 640511020350 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511020351 metabolite-proton symporter; Region: 2A0106; TIGR00883 640511020352 putative substrate translocation pore; other site 640511020353 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 640511020354 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 640511020355 putative metal binding site [ion binding]; other site 640511020356 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640511020357 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 640511020358 trimer interface [polypeptide binding]; other site 640511020359 eyelet of channel; other site 640511020360 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640511020361 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 640511020362 metabolite-proton symporter; Region: 2A0106; TIGR00883 640511020363 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511020364 putative substrate translocation pore; other site 640511020365 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 640511020366 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 640511020367 active site 640511020368 non-prolyl cis peptide bond; other site 640511020369 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 640511020370 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 640511020371 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511020372 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 640511020373 putative dimerization interface [polypeptide binding]; other site 640511020374 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 640511020375 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640511020376 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 640511020377 tetramerization interface [polypeptide binding]; other site 640511020378 NAD(P) binding site [chemical binding]; other site 640511020379 catalytic residues [active] 640511020380 Predicted nucleotidyltransferase [General function prediction only]; Region: COG4849 640511020381 Uncharacterized protein conserved in bacteria (DUF2186); Region: DUF2186; pfam09952 640511020382 conjugal transfer protein TrbJ; Provisional; Region: PRK13874; cl02193 640511020383 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 640511020384 Integrase core domain; Region: rve; pfam00665 640511020385 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 640511020386 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 640511020387 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 640511020388 Autotransporter beta-domain; Region: Autotransporter; smart00869 640511020389 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 640511020390 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 640511020391 N-acetyl-D-glucosamine binding site [chemical binding]; other site 640511020392 catalytic residue [active] 640511020393 Homeodomain-like domain; Region: HTH_23; pfam13384 640511020394 Winged helix-turn helix; Region: HTH_29; pfam13551 640511020395 Homeodomain-like domain; Region: HTH_32; pfam13565 640511020396 Helix-turn-helix domain; Region: HTH_28; pfam13518 640511020397 Winged helix-turn helix; Region: HTH_29; pfam13551 640511020398 Homeodomain-like domain; Region: HTH_32; pfam13565 640511020399 Integrase core domain; Region: rve; pfam00665 640511020400 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 640511020401 Transposase; Region: DEDD_Tnp_IS110; pfam01548 640511020402 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 640511020403 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 640511020404 Transposase; Region: HTH_Tnp_1; pfam01527 640511020405 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4782 640511020406 Lipase (class 2); Region: Lipase_2; pfam01674 640511020407 Cupin domain; Region: Cupin_2; cl17218 640511020408 Cupin domain; Region: Cupin_2; cl17218 640511020409 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 640511020410 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 640511020411 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640511020412 catalytic residue [active] 640511020413 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511020414 metabolite-proton symporter; Region: 2A0106; TIGR00883 640511020415 putative substrate translocation pore; other site 640511020416 hypothetical protein; Provisional; Region: PRK07079 640511020417 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_2; cd05679 640511020418 metal binding site [ion binding]; metal-binding site 640511020419 putative dimer interface [polypeptide binding]; other site 640511020420 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511020421 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640511020422 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 640511020423 dimerization interface [polypeptide binding]; other site 640511020424 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640511020425 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 640511020426 trimer interface [polypeptide binding]; other site 640511020427 eyelet of channel; other site 640511020428 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 640511020429 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 640511020430 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 640511020431 dimerization interface [polypeptide binding]; other site 640511020432 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640511020433 dimer interface [polypeptide binding]; other site 640511020434 putative CheW interface [polypeptide binding]; other site 640511020435 Kynureninase [Amino acid transport and metabolism]; Region: COG3844 640511020436 kynureninase; Region: kynureninase; TIGR01814 640511020437 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640511020438 catalytic residue [active] 640511020439 aspartate carbamoyltransferase; Provisional; Region: PRK11891 640511020440 Helix-turn-helix domain; Region: HTH_18; pfam12833 640511020441 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 640511020442 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 640511020443 catalytic loop [active] 640511020444 iron binding site [ion binding]; other site 640511020445 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 640511020446 FAD binding pocket [chemical binding]; other site 640511020447 FAD binding motif [chemical binding]; other site 640511020448 phosphate binding motif [ion binding]; other site 640511020449 beta-alpha-beta structure motif; other site 640511020450 NAD binding pocket [chemical binding]; other site 640511020451 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 640511020452 inter-subunit interface; other site 640511020453 anthranilate 1,2-dioxygenase, large subunit; Region: anthran_1_2_A; TIGR03228 640511020454 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 640511020455 iron-sulfur cluster [ion binding]; other site 640511020456 [2Fe-2S] cluster binding site [ion binding]; other site 640511020457 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 640511020458 putative alpha subunit interface [polypeptide binding]; other site 640511020459 putative active site [active] 640511020460 putative substrate binding site [chemical binding]; other site 640511020461 Fe binding site [ion binding]; other site 640511020462 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 640511020463 Transposase; Region: DEDD_Tnp_IS110; pfam01548 640511020464 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 640511020465 Transposase; Region: HTH_Tnp_1; cl17663 640511020466 HTH-like domain; Region: HTH_21; pfam13276 640511020467 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 640511020468 Catalytic domain of Protein Kinases; Region: PKc; cd00180 640511020469 active site 640511020470 ATP binding site [chemical binding]; other site 640511020471 substrate binding site [chemical binding]; other site 640511020472 activation loop (A-loop); other site 640511020473 AAA ATPase domain; Region: AAA_16; pfam13191 640511020474 Predicted ATPase [General function prediction only]; Region: COG3899 640511020475 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 640511020476 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 640511020477 PAS domain S-box; Region: sensory_box; TIGR00229 640511020478 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 640511020479 putative active site [active] 640511020480 heme pocket [chemical binding]; other site 640511020481 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 640511020482 Histidine kinase; Region: HisKA_3; pfam07730 640511020483 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511020484 ATP binding site [chemical binding]; other site 640511020485 Mg2+ binding site [ion binding]; other site 640511020486 G-X-G motif; other site 640511020487 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 640511020488 Transposase; Region: DEDD_Tnp_IS110; pfam01548 640511020489 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 640511020490 chorismate mutase; Provisional; Region: PRK09269 640511020491 Chorismate mutase type II; Region: CM_2; cl00693 640511020492 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 640511020493 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 640511020494 Walker A motif; other site 640511020495 ATP binding site [chemical binding]; other site 640511020496 Walker B motif; other site 640511020497 arginine finger; other site 640511020498 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 640511020499 DNA binding residues [nucleotide binding] 640511020500 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 640511020501 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 640511020502 Pectate lyase; Region: Pec_lyase_C; cl01593 640511020503 Transposase; Region: DEDD_Tnp_IS110; pfam01548 640511020504 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 640511020505 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 640511020506 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 640511020507 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 640511020508 Walker A/P-loop; other site 640511020509 ATP binding site [chemical binding]; other site 640511020510 Q-loop/lid; other site 640511020511 ABC transporter signature motif; other site 640511020512 Walker B; other site 640511020513 D-loop; other site 640511020514 H-loop/switch region; other site 640511020515 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 640511020516 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 640511020517 Walker A/P-loop; other site 640511020518 ATP binding site [chemical binding]; other site 640511020519 Q-loop/lid; other site 640511020520 ABC transporter signature motif; other site 640511020521 Walker B; other site 640511020522 D-loop; other site 640511020523 H-loop/switch region; other site 640511020524 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 640511020525 TM-ABC transporter signature motif; other site 640511020526 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640511020527 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 640511020528 TM-ABC transporter signature motif; other site 640511020529 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 640511020530 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 640511020531 Transposase; Region: DEDD_Tnp_IS110; pfam01548 640511020532 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 640511020533 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 640511020534 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 640511020535 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 640511020536 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 640511020537 Transposase; Region: DEDD_Tnp_IS110; pfam01548 640511020538 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 640511020539 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 640511020540 Ribosome inactivating protein; Region: RIP; pfam00161 640511020541 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 640511020542 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 640511020543 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511020544 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511020545 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640511020546 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 640511020547 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640511020548 Walker A/P-loop; other site 640511020549 ATP binding site [chemical binding]; other site 640511020550 Q-loop/lid; other site 640511020551 ABC transporter signature motif; other site 640511020552 Walker B; other site 640511020553 D-loop; other site 640511020554 H-loop/switch region; other site 640511020555 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640511020556 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 640511020557 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 640511020558 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 640511020559 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 640511020560 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640511020561 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 640511020562 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 640511020563 DNA binding residues [nucleotide binding] 640511020564 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640511020565 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 640511020566 trimer interface [polypeptide binding]; other site 640511020567 eyelet of channel; other site 640511020568 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 640511020569 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 640511020570 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 640511020571 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511020572 catalytic residue [active] 640511020573 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 640511020574 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 640511020575 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 640511020576 Transposase; Region: HTH_Tnp_1; pfam01527 640511020577 HTH-like domain; Region: HTH_21; pfam13276 640511020578 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 640511020579 Integrase core domain; Region: rve; pfam00665 640511020580 Integrase core domain; Region: rve_3; pfam13683 640511020581 Protein of unknown function (DUF3892); Region: DUF3892; pfam13031 640511020582 Transposase; Region: HTH_Tnp_1; pfam01527 640511020583 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 640511020584 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 640511020585 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 640511020586 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 640511020587 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 640511020588 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 640511020589 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 640511020590 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 640511020591 Transposase domain (DUF772); Region: DUF772; pfam05598 640511020592 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 640511020593 DDE superfamily endonuclease; Region: DDE_4; cl17710 640511020594 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 640511020595 classical (c) SDRs; Region: SDR_c; cd05233 640511020596 NAD(P) binding site [chemical binding]; other site 640511020597 active site 640511020598 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 640511020599 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 640511020600 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 640511020601 Amidohydrolase; Region: Amidohydro_2; pfam04909 640511020602 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 640511020603 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511020604 putative substrate translocation pore; other site 640511020605 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 640511020606 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640511020607 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 640511020608 active site 640511020609 catalytic residues [active] 640511020610 metal binding site [ion binding]; metal-binding site 640511020611 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 640511020612 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640511020613 Bacterial transcriptional regulator; Region: IclR; pfam01614 640511020614 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 640511020615 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 640511020616 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 640511020617 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 640511020618 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 640511020619 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 640511020620 active site 640511020621 dimerization interface [polypeptide binding]; other site 640511020622 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 640511020623 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511020624 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511020625 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640511020626 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511020627 active site 640511020628 phosphorylation site [posttranslational modification] 640511020629 intermolecular recognition site; other site 640511020630 dimerization interface [polypeptide binding]; other site 640511020631 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 640511020632 DNA binding residues [nucleotide binding] 640511020633 dimerization interface [polypeptide binding]; other site 640511020634 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 640511020635 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 640511020636 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 640511020637 PBP superfamily domain; Region: PBP_like_2; cl17296 640511020638 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640511020639 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 640511020640 dimer interface [polypeptide binding]; other site 640511020641 phosphorylation site [posttranslational modification] 640511020642 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511020643 ATP binding site [chemical binding]; other site 640511020644 Mg2+ binding site [ion binding]; other site 640511020645 G-X-G motif; other site 640511020646 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 640511020647 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511020648 active site 640511020649 phosphorylation site [posttranslational modification] 640511020650 intermolecular recognition site; other site 640511020651 dimerization interface [polypeptide binding]; other site 640511020652 Phage integrase protein; Region: DUF3701; pfam12482 640511020653 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 640511020654 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 640511020655 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 640511020656 Int/Topo IB signature motif; other site 640511020657 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 640511020658 SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain; Region: SET; smart00317 640511020659 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 640511020660 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 640511020661 PAS fold; Region: PAS_3; pfam08447 640511020662 putative active site [active] 640511020663 heme pocket [chemical binding]; other site 640511020664 formyl-coenzyme A transferase; Provisional; Region: PRK05398 640511020665 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640511020666 putative oxalyl-CoA decarboxylase; Validated; Region: PRK09259 640511020667 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 640511020668 PYR/PP interface [polypeptide binding]; other site 640511020669 dimer interface [polypeptide binding]; other site 640511020670 TPP binding site [chemical binding]; other site 640511020671 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 640511020672 Thiamine pyrophosphate (TPP) family, BZL_OCoD_HPCL subfamily, TPP-binding module; composed of proteins similar to benzaldehyde lyase (BZL), oxalyl-CoA decarboxylase (OCoD) and 2-hydroxyphytanoyl-CoA lyase (2-HPCL). Pseudomonas fluorescens biovar I BZL...; Region: TPP_BZL_OCoD_HPCL; cd02004 640511020673 TPP-binding site; other site 640511020674 dimer interface [polypeptide binding]; other site 640511020675 oxalate/formate antiporter; Region: oxa_formateAnti; TIGR04259 640511020676 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511020677 putative substrate translocation pore; other site 640511020678 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 640511020679 active site 640511020680 DNA binding site [nucleotide binding] 640511020681 Int/Topo IB signature motif; other site 640511020682 Phasin protein; Region: Phasin_2; pfam09361 640511020683 Domain of unknown function, B. Theta Gene description (DUF3876); Region: DUF3876; pfam12992 640511020684 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 640511020685 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640511020686 AAA domain; Region: AAA_21; pfam13304 640511020687 Walker A/P-loop; other site 640511020688 ATP binding site [chemical binding]; other site 640511020689 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 640511020690 Walker B; other site 640511020691 D-loop; other site 640511020692 H-loop/switch region; other site 640511020693 Hypothetical protein (DUF2513); Region: DUF2513; pfam10711 640511020694 PemK-like protein; Region: PemK; pfam02452 640511020695 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 640511020696 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 640511020697 active site 640511020698 DNA binding site [nucleotide binding] 640511020699 Int/Topo IB signature motif; other site 640511020700 Methyltransferase domain; Region: Methyltransf_31; pfam13847 640511020701 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 640511020702 S-adenosylmethionine binding site [chemical binding]; other site 640511020703 Predicted integral membrane protein (DUF2282); Region: DUF2282; pfam10048 640511020704 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 640511020705 CopC domain; Region: CopC; pfam04234 640511020706 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 640511020707 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 640511020708 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 640511020709 Cu(I) binding site [ion binding]; other site 640511020710 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 640511020711 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 640511020712 catalytic residues [active] 640511020713 Cytochrome c; Region: Cytochrom_C; cl11414 640511020714 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 640511020715 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 640511020716 catalytic residues [active] 640511020717 High potential iron-sulfur protein; Region: HIPIP; pfam01355 640511020718 multicopper oxidase; Provisional; Region: PRK10965 640511020719 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 640511020720 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 640511020721 Nitrogen regulatory protein P-II; Region: P-II; cl00412 640511020722 Nitrogen regulatory protein P-II; Region: P-II; smart00938 640511020723 Protein of unknown function with PCYCGC motif; Region: PCYCGC; pfam13798 640511020724 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 640511020725 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 640511020726 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 640511020727 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 640511020728 DsbD alpha interface [polypeptide binding]; other site 640511020729 catalytic residues [active] 640511020730 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 640511020731 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 640511020732 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 640511020733 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 640511020734 E3 interaction surface; other site 640511020735 lipoyl attachment site [posttranslational modification]; other site 640511020736 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 640511020737 Outer membrane efflux protein; Region: OEP; pfam02321 640511020738 Outer membrane efflux protein; Region: OEP; pfam02321 640511020739 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 640511020740 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 640511020741 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 640511020742 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 640511020743 hypothetical protein; Provisional; Region: PRK06850 640511020744 Zn-ribbon containing protein [General function prediction only]; Region: COG3364 640511020745 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640511020746 Walker A/P-loop; other site 640511020747 ATP binding site [chemical binding]; other site 640511020748 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 640511020749 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 640511020750 active site 640511020751 metal binding site [ion binding]; metal-binding site 640511020752 RIM-binding protein of the cytomatrix active zone; Region: Cast; pfam10174 640511020753 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 640511020754 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 640511020755 Family description; Region: UvrD_C_2; pfam13538 640511020756 Domain of unknown function (DUF4400); Region: DUF4400; pfam14348 640511020757 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 640511020758 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 640511020759 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 640511020760 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 640511020761 conjugal transfer protein TrbJ; Provisional; Region: PRK13874; cl02193 640511020762 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 640511020763 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 640511020764 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640511020765 Walker A/P-loop; other site 640511020766 ATP binding site [chemical binding]; other site 640511020767 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 640511020768 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 640511020769 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 640511020770 ATP binding site [chemical binding]; other site 640511020771 Walker A motif; other site 640511020772 hexamer interface [polypeptide binding]; other site 640511020773 Walker B motif; other site 640511020774 H-NS histone family; Region: Histone_HNS; pfam00816 640511020775 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 640511020776 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 640511020777 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 640511020778 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 640511020779 Walker A motif; other site 640511020780 ATP binding site [chemical binding]; other site 640511020781 Walker B motif; other site 640511020782 arginine finger; other site 640511020783 Protein of unknown function (DUF3717); Region: DUF3717; pfam12512 640511020784 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 640511020785 PRTRC system ThiF family protein; Region: PRTRC_ThiF; TIGR03736 640511020786 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cd01483 640511020787 ATP binding site [chemical binding]; other site 640511020788 substrate interface [chemical binding]; other site 640511020789 PRTRC system protein A; Region: PRTRC_A; TIGR03735 640511020790 Domain of unknown function (DUF2016); Region: DUF2016; pfam09436 640511020791 Prokaryotic homologs of the JAB domain; Region: Prok-JAB; pfam14464 640511020792 Prokaryotic E2 family D; Region: Prok-E2_D; cl14019 640511020793 PRTRC system protein F; Region: PRTRC_F; TIGR03742 640511020794 Alpha-helical domain 2; Region: alpha-hel2; pfam14456 640511020795 Prokaryotic Ubiquitin; Region: Prok_Ub; cl14020 640511020796 PRTRC system protein E; Region: PRTRC_E; TIGR03741 640511020797 ParB-like nuclease domain; Region: ParB; smart00470 640511020798 PRTRC system ParB family protein; Region: PRTRC_parB; TIGR03734 640511020799 Methyltransferase domain; Region: Methyltransf_26; pfam13659 640511020800 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 640511020801 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 640511020802 nucleotide binding region [chemical binding]; other site 640511020803 ATP-binding site [chemical binding]; other site 640511020804 Protein of unknown function (DUF1173); Region: DUF1173; pfam06666 640511020805 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 640511020806 PLD-like domain; Region: PLDc_2; pfam13091 640511020807 putative active site [active] 640511020808 catalytic site [active] 640511020809 Phage protein Gp37/Gp68; Region: Gp37_Gp68; pfam07505 640511020810 Phage integrase, N-terminal; Region: Integrase_l_N; pfam12834