-- dump date 20120504_135743 -- class Genbank::misc_feature -- table misc_feature_note -- id note 640511000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 640511000002 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 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 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 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 light chain (EutC); Region: EutC; cl01762 640511000033 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 640511000034 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 640511000035 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 640511000036 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 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 DbpA RNA binding domain; Region: DbpA; pfam03880 640511000051 putative aminotransferase; Provisional; Region: PRK12414 640511000052 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 640511000053 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511000054 homodimer interface [polypeptide binding]; other site 640511000055 catalytic residue [active] 640511000056 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 640511000057 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 640511000058 substrate binding pocket [chemical binding]; other site 640511000059 membrane-bound complex binding site; other site 640511000060 hinge residues; other site 640511000061 Cupin domain; Region: Cupin_2; cl09118 640511000062 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511000063 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640511000064 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511000065 LysE type translocator; Region: LysE; cl00565 640511000066 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640511000067 metal binding site [ion binding]; metal-binding site 640511000068 active site 640511000069 I-site; other site 640511000070 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 640511000071 CoenzymeA binding site [chemical binding]; other site 640511000072 subunit interaction site [polypeptide binding]; other site 640511000073 PHB binding site; other site 640511000074 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 640511000075 active site 640511000076 nucleophile elbow; other site 640511000077 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 640511000078 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511000079 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 640511000080 Phosphoenolpyruvate carboxykinase; Region: PEPCK; pfam00821 640511000081 active site 640511000082 substrate-binding site [chemical binding]; other site 640511000083 metal-binding site [ion binding] 640511000084 GTP binding site [chemical binding]; other site 640511000085 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511000086 Helix-turn-helix domains; Region: HTH; cl00088 640511000087 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 640511000088 putative effector binding pocket; other site 640511000089 dimerization interface [polypeptide binding]; other site 640511000090 DNA topoisomerase III; Validated; Region: PRK08173 640511000091 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 640511000092 active site 640511000093 putative interdomain interaction site [polypeptide binding]; other site 640511000094 putative metal-binding site [ion binding]; other site 640511000095 putative nucleotide binding site [chemical binding]; other site 640511000096 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 640511000097 domain I; other site 640511000098 DNA binding groove [nucleotide binding] 640511000099 phosphate binding site [ion binding]; other site 640511000100 domain II; other site 640511000101 domain III; other site 640511000102 nucleotide binding site [chemical binding]; other site 640511000103 catalytic site [active] 640511000104 domain IV; other site 640511000105 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 640511000106 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 640511000107 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 640511000108 catalytic residues [active] 640511000109 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 640511000110 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 640511000111 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 640511000112 active site 640511000113 catalytic residues [active] 640511000114 metal binding site [ion binding]; metal-binding site 640511000115 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 640511000116 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 640511000117 putative active site [active] 640511000118 substrate binding site [chemical binding]; other site 640511000119 putative cosubstrate binding site; other site 640511000120 catalytic site [active] 640511000121 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 640511000122 substrate binding site [chemical binding]; other site 640511000123 LysE type translocator; Region: LysE; cl00565 640511000124 Peptidase family M48; Region: Peptidase_M48; cl12018 640511000125 16S rRNA methyltransferase B; Provisional; Region: PRK10901 640511000126 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 640511000127 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 640511000128 S-adenosylmethionine binding site [chemical binding]; other site 640511000129 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 640511000130 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 640511000131 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 640511000132 dimerization interface [polypeptide binding]; other site 640511000133 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 640511000134 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 640511000135 dimer interface [polypeptide binding]; other site 640511000136 phosphorylation site [posttranslational modification] 640511000137 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511000138 ATP binding site [chemical binding]; other site 640511000139 Mg2+ binding site [ion binding]; other site 640511000140 G-X-G motif; other site 640511000141 Response regulator receiver domain; Region: Response_reg; pfam00072 640511000142 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511000143 active site 640511000144 phosphorylation site [posttranslational modification] 640511000145 intermolecular recognition site; other site 640511000146 dimerization interface [polypeptide binding]; other site 640511000147 Helix-turn-helix domains; Region: HTH; cl00088 640511000148 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 640511000149 Ligand Binding Site [chemical binding]; other site 640511000150 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 640511000151 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cl15377 640511000152 FeS/SAM binding site; other site 640511000153 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 640511000154 active site 640511000155 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 640511000156 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 640511000157 Sel1 repeat; Region: Sel1; cl02723 640511000158 Sel1 repeat; Region: Sel1; cl02723 640511000159 Sel1 repeat; Region: Sel1; cl02723 640511000160 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 640511000161 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 640511000162 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 640511000163 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 640511000164 rod shape-determining protein MreD; Region: MreD; cl01087 640511000165 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 640511000166 rod shape-determining protein MreC; Region: MreC; pfam04085 640511000167 rod shape-determining protein MreB; Provisional; Region: PRK13927 640511000168 Cell division protein FtsA; Region: FtsA; cl11496 640511000169 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 640511000170 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 640511000171 Amidase; Region: Amidase; cl11426 640511000172 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 640511000173 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 640511000174 GatB domain; Region: GatB_Yqey; cl11497 640511000175 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 640511000176 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 640511000177 putative active site [active] 640511000178 putative catalytic site [active] 640511000179 putative DNA binding site [nucleotide binding]; other site 640511000180 putative phosphate binding site [ion binding]; other site 640511000181 metal binding site A [ion binding]; metal-binding site 640511000182 putative AP binding site [nucleotide binding]; other site 640511000183 putative metal binding site B [ion binding]; other site 640511000184 Peptidase family M48; Region: Peptidase_M48; cl12018 640511000185 muropeptide transporter; Validated; Region: ampG; PRK11010 640511000186 muropeptide transporter; Reviewed; Region: ampG; PRK11902 640511000187 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 640511000188 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 640511000189 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 640511000190 division inhibitor protein; Provisional; Region: slmA; PRK09480 640511000191 Helix-turn-helix domains; Region: HTH; cl00088 640511000192 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 640511000193 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 640511000194 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 640511000195 feedback inhibition sensing region; other site 640511000196 homohexameric interface [polypeptide binding]; other site 640511000197 nucleotide binding site [chemical binding]; other site 640511000198 N-acetyl-L-glutamate binding site [chemical binding]; other site 640511000199 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640511000200 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 640511000201 dimer interface [polypeptide binding]; other site 640511000202 phosphorylation site [posttranslational modification] 640511000203 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511000204 ATP binding site [chemical binding]; other site 640511000205 Mg2+ binding site [ion binding]; other site 640511000206 G-X-G motif; other site 640511000207 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 640511000208 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511000209 active site 640511000210 phosphorylation site [posttranslational modification] 640511000211 intermolecular recognition site; other site 640511000212 dimerization interface [polypeptide binding]; other site 640511000213 Helix-turn-helix domains; Region: HTH; cl00088 640511000214 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 640511000215 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 640511000216 Walker A motif; other site 640511000217 ATP binding site [chemical binding]; other site 640511000218 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511000219 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 640511000220 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 640511000221 active site 640511000222 HslU subunit interaction site [polypeptide binding]; other site 640511000223 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 640511000224 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 640511000225 P-loop, Walker A motif; other site 640511000226 Base recognition motif; other site 640511000227 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 640511000228 PUA domain; Region: PUA; cl00607 640511000229 23S rRNA m(5)C1962 methyltransferase; Provisional; Region: PRK15128 640511000230 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 640511000231 putative RNA binding site [nucleotide binding]; other site 640511000232 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 640511000233 S-adenosylmethionine binding site [chemical binding]; other site 640511000234 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 640511000235 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 640511000236 active site 640511000237 Int/Topo IB signature motif; other site 640511000238 GAF domain; Region: GAF; cl15785 640511000239 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 640511000240 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 640511000241 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 640511000242 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 640511000243 putative acyl-acceptor binding pocket; other site 640511000244 S-adenosylmethionine synthetase; Validated; Region: PRK05250 640511000245 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 640511000246 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 640511000247 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 640511000248 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 640511000249 Protein of unknown function (DUF3185); Region: DUF3185; pfam11381 640511000250 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 640511000251 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 640511000252 active site 640511000253 catalytic tetrad [active] 640511000254 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 640511000255 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511000256 putative substrate translocation pore; other site 640511000257 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640511000258 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 640511000259 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 640511000260 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 640511000261 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 640511000262 Phosphotransferase enzyme family; Region: APH; pfam01636 640511000263 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 640511000264 active site 640511000265 ATP binding site [chemical binding]; other site 640511000266 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 640511000267 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 640511000268 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 640511000269 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 640511000270 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 640511000271 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 640511000272 XdhC Rossmann domain; Region: XdhC_C; pfam13478 640511000273 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 640511000274 putative hydrophobic ligand binding site [chemical binding]; other site 640511000275 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 640511000276 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 640511000277 metal ion-dependent adhesion site (MIDAS); other site 640511000278 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 640511000279 Walker A motif; other site 640511000280 ATP binding site [chemical binding]; other site 640511000281 Walker B motif; other site 640511000282 arginine finger; other site 640511000283 FAD binding domain in molybdopterin dehydrogenase; Region: FAD_binding_5; pfam00941 640511000284 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 640511000285 carbon-monoxide dehydrogenase, large subunit; Region: CO_dehy_Mo_lg; TIGR02416 640511000286 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 640511000287 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640511000288 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 640511000289 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 640511000290 amino acid transporter; Region: 2A0306; TIGR00909 640511000291 Spore germination protein; Region: Spore_permease; cl15802 640511000292 Spore germination protein; Region: Spore_permease; cl15802 640511000293 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640511000294 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511000295 active site 640511000296 phosphorylation site [posttranslational modification] 640511000297 intermolecular recognition site; other site 640511000298 dimerization interface [polypeptide binding]; other site 640511000299 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 640511000300 DNA binding residues [nucleotide binding] 640511000301 dimerization interface [polypeptide binding]; other site 640511000302 Histidine kinase; Region: HisKA_3; pfam07730 640511000303 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 640511000304 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 640511000305 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 640511000306 FAD binding pocket [chemical binding]; other site 640511000307 FAD binding motif [chemical binding]; other site 640511000308 phosphate binding motif [ion binding]; other site 640511000309 beta-alpha-beta structure motif; other site 640511000310 NAD binding pocket [chemical binding]; other site 640511000311 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 640511000312 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 640511000313 putative catalytic site [active] 640511000314 putative phosphate binding site [ion binding]; other site 640511000315 putative metal binding site [ion binding]; other site 640511000316 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 640511000317 Walker A motif; other site 640511000318 ATP binding site [chemical binding]; other site 640511000319 Walker B motif; other site 640511000320 arginine finger; other site 640511000321 Predicted dehydrogenase [General function prediction only]; Region: COG0579 640511000322 High potential iron-sulfur protein; Region: HIPIP; pfam01355 640511000323 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 640511000324 Amidase; Region: Amidase; cl11426 640511000325 Dienelactone hydrolase family; Region: DLH; pfam01738 640511000326 Nitronate monooxygenase; Region: NMO; pfam03060 640511000327 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 640511000328 FMN binding site [chemical binding]; other site 640511000329 substrate binding site [chemical binding]; other site 640511000330 putative catalytic residue [active] 640511000331 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 640511000332 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 640511000333 dimerization interface [polypeptide binding]; other site 640511000334 ligand binding site [chemical binding]; other site 640511000335 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 640511000336 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 640511000337 H-NS histone family; Region: Histone_HNS; pfam00816 640511000338 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 640511000339 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 640511000340 Cation efflux family; Region: Cation_efflux; cl00316 640511000341 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 640511000342 Helix-turn-helix domains; Region: HTH; cl00088 640511000343 AsnC family; Region: AsnC_trans_reg; pfam01037 640511000344 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 640511000345 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 640511000346 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 640511000347 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 640511000348 Helix-turn-helix domains; Region: HTH; cl00088 640511000349 Helix-turn-helix domains; Region: HTH; cl00088 640511000350 putative transposase OrfB; Reviewed; Region: PHA02517 640511000351 HTH-like domain; Region: HTH_21; pfam13276 640511000352 Integrase core domain; Region: rve; cl01316 640511000353 Integrase core domain; Region: rve_3; cl15866 640511000354 Predicted methyltransferases [General function prediction only]; Region: COG0313 640511000355 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 640511000356 Restriction endonuclease; Region: Mrr_cat; cl00516 640511000357 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 640511000358 dimer interface [polypeptide binding]; other site 640511000359 active site 640511000360 outer membrane lipoprotein; Provisional; Region: PRK11023 640511000361 BON domain; Region: BON; cl02771 640511000362 Cytochrome c; Region: Cytochrom_C; cl11414 640511000363 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 640511000364 Int/Topo IB signature motif; other site 640511000365 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 640511000366 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 640511000367 ATP binding site [chemical binding]; other site 640511000368 putative Mg++ binding site [ion binding]; other site 640511000369 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 640511000370 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 640511000371 nucleotide binding region [chemical binding]; other site 640511000372 ATP-binding site [chemical binding]; other site 640511000373 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 640511000374 Adenine-specific DNA methylase containing a Zn-ribbon [DNA replication, recombination, and repair]; Region: COG1743 640511000375 Protein of unknown function (DUF1156); Region: DUF1156; pfam06634 640511000376 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1483 640511000377 Protein of unknown function (DUF499); Region: DUF499; pfam04465 640511000378 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 640511000379 TPR repeat; Region: TPR_11; pfam13414 640511000380 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 640511000381 binding surface 640511000382 TPR motif; other site 640511000383 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 640511000384 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 640511000385 Walker A motif; other site 640511000386 ATP binding site [chemical binding]; other site 640511000387 Walker B motif; other site 640511000388 arginine finger; other site 640511000389 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 640511000390 TIR domain; Region: TIR_2; cl15770 640511000391 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 640511000392 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 640511000393 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 640511000394 Helix-turn-helix domains; Region: HTH; cl00088 640511000395 IS2 transposase TnpB; Reviewed; Region: PRK09409 640511000396 HTH-like domain; Region: HTH_21; pfam13276 640511000397 Integrase core domain; Region: rve; cl01316 640511000398 Integrase core domain; Region: rve_3; cl15866 640511000399 Transposase domain (DUF772); Region: DUF772; pfam05598 640511000400 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 640511000401 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 640511000402 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 640511000403 Restriction endonuclease; Region: Mrr_cat; cl00516 640511000404 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 640511000405 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 640511000406 active site 640511000407 DNA binding site [nucleotide binding] 640511000408 Int/Topo IB signature motif; other site 640511000409 Phage terminase, small subunit; Region: Terminase_4; cl01525 640511000410 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 640511000411 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 640511000412 iron-sulfur cluster [ion binding]; other site 640511000413 [2Fe-2S] cluster binding site [ion binding]; other site 640511000414 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 640511000415 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640511000416 metal binding site [ion binding]; metal-binding site 640511000417 active site 640511000418 I-site; other site 640511000419 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 640511000420 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 640511000421 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 640511000422 CutC family; Region: CutC; cl01218 640511000423 2-oxoacid ferredoxin oxidoreductase; Provisional; Region: PRK13030 640511000424 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 640511000425 dimer interface [polypeptide binding]; other site 640511000426 PYR/PP interface [polypeptide binding]; other site 640511000427 TPP binding site [chemical binding]; other site 640511000428 substrate binding site [chemical binding]; other site 640511000429 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 640511000430 TPP-binding site; other site 640511000431 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 640511000432 Ion channel; Region: Ion_trans_2; cl11596 640511000433 Protein of unknown function (DUF3828); Region: DUF3828; pfam12883 640511000434 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 640511000435 putative substrate binding site [chemical binding]; other site 640511000436 putative ATP binding site [chemical binding]; other site 640511000437 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 640511000438 N-acyl-D-glucosamine 2-epimerase [Carbohydrate transport and metabolism]; Region: COG2942 640511000439 dimerization interface [polypeptide binding]; other site 640511000440 putative active cleft [active] 640511000441 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640511000442 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640511000443 DNA binding site [nucleotide binding] 640511000444 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 640511000445 ligand binding site [chemical binding]; other site 640511000446 dimerization interface [polypeptide binding]; other site 640511000447 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 640511000448 Membrane transport protein; Region: Mem_trans; cl09117 640511000449 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 640511000450 trimer interface [polypeptide binding]; other site 640511000451 eyelet of channel; other site 640511000452 transcriptional regulator; Provisional; Region: PRK10632 640511000453 Helix-turn-helix domains; Region: HTH; cl00088 640511000454 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 640511000455 putative effector binding pocket; other site 640511000456 dimerization interface [polypeptide binding]; other site 640511000457 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 640511000458 B12 binding site [chemical binding]; other site 640511000459 cobalt ligand [ion binding]; other site 640511000460 Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]; Region: ArgK; COG1703 640511000461 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 640511000462 Walker A; other site 640511000463 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 640511000464 Methylmalonyl-CoA mutase, N-terminal domain/subunit [Lipid metabolism]; Region: Sbm; COG1884 640511000465 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 640511000466 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 640511000467 FMN binding site [chemical binding]; other site 640511000468 substrate binding site [chemical binding]; other site 640511000469 putative catalytic residue [active] 640511000470 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640511000471 Helix-turn-helix domains; Region: HTH; cl00088 640511000472 AsnC family; Region: AsnC_trans_reg; pfam01037 640511000473 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 640511000474 EamA-like transporter family; Region: EamA; cl01037 640511000475 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 640511000476 (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 640511000477 active site 640511000478 catalytic site [active] 640511000479 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 640511000480 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 640511000481 putative deacylase active site [active] 640511000482 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 640511000483 active site 640511000484 catalytic residues [active] 640511000485 metal binding site [ion binding]; metal-binding site 640511000486 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 640511000487 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511000488 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 640511000489 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 640511000490 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 640511000491 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 640511000492 biotin synthase; Region: bioB; TIGR00433 640511000493 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 640511000494 FeS/SAM binding site; other site 640511000495 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 640511000496 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511000497 AAA domain; Region: AAA_26; pfam13500 640511000498 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 640511000499 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 640511000500 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640511000501 catalytic residue [active] 640511000502 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06943 640511000503 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 640511000504 inhibitor-cofactor binding pocket; inhibition site 640511000505 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511000506 catalytic residue [active] 640511000507 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 640511000508 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 640511000509 hypothetical protein; Provisional; Region: PRK01842 640511000510 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 640511000511 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640511000512 active site 640511000513 oxidoreductase; Provisional; Region: PRK12742 640511000514 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 640511000515 NADP binding site [chemical binding]; other site 640511000516 homodimer interface [polypeptide binding]; other site 640511000517 active site 640511000518 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 640511000519 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 640511000520 dimer interface [polypeptide binding]; other site 640511000521 active site 640511000522 Isocitrate dehydrogenase kinase/phosphatase (AceK); Region: AceK; cl01891 640511000523 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 640511000524 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 640511000525 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 640511000526 DNA binding residues [nucleotide binding] 640511000527 putative dimer interface [polypeptide binding]; other site 640511000528 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 640511000529 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 640511000530 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 640511000531 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 640511000532 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 640511000533 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 640511000534 peptide binding site [polypeptide binding]; other site 640511000535 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 640511000536 cobalamin binding residues [chemical binding]; other site 640511000537 putative BtuC binding residues; other site 640511000538 dimer interface [polypeptide binding]; other site 640511000539 short chain dehydrogenase; Provisional; Region: PRK08251 640511000540 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511000541 NAD(P) binding site [chemical binding]; other site 640511000542 active site 640511000543 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 640511000544 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 640511000545 catalytic residues [active] 640511000546 hinge region; other site 640511000547 alpha helical domain; other site 640511000548 Sporulation related domain; Region: SPOR; cl10051 640511000549 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 640511000550 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 640511000551 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 640511000552 active site 640511000553 HIGH motif; other site 640511000554 KMSK motif region; other site 640511000555 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 640511000556 tRNA binding surface [nucleotide binding]; other site 640511000557 anticodon binding site; other site 640511000558 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 640511000559 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 640511000560 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 640511000561 substrate binding pocket [chemical binding]; other site 640511000562 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 640511000563 B12 binding site [chemical binding]; other site 640511000564 cobalt ligand [ion binding]; other site 640511000565 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 640511000566 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 640511000567 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 640511000568 Protein of unknown function (DUF3567); Region: DUF3567; pfam12091 640511000569 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 640511000570 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 640511000571 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640511000572 Helix-turn-helix domains; Region: HTH; cl00088 640511000573 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 640511000574 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 640511000575 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 640511000576 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 640511000577 putative ligand binding site [chemical binding]; other site 640511000578 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 640511000579 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 640511000580 substrate binding site [chemical binding]; other site 640511000581 oxyanion hole (OAH) forming residues; other site 640511000582 trimer interface [polypeptide binding]; other site 640511000583 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 640511000584 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 640511000585 dinuclear metal binding motif [ion binding]; other site 640511000586 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 640511000587 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 640511000588 active site 640511000589 nucleotide binding site [chemical binding]; other site 640511000590 HIGH motif; other site 640511000591 KMSKS motif; other site 640511000592 Type III pantothenate kinase; Region: Pan_kinase; cl09130 640511000593 biotin--protein ligase; Provisional; Region: PRK06955 640511000594 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 640511000595 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 640511000596 Permease; Region: Permease; cl00510 640511000597 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 640511000598 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 640511000599 Walker A/P-loop; other site 640511000600 ATP binding site [chemical binding]; other site 640511000601 Q-loop/lid; other site 640511000602 ABC transporter signature motif; other site 640511000603 Walker B; other site 640511000604 D-loop; other site 640511000605 H-loop/switch region; other site 640511000606 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 640511000607 mce related protein; Region: MCE; pfam02470 640511000608 Protein of unknown function (DUF330); Region: DUF330; cl01135 640511000609 VanZ like family; Region: VanZ; cl01971 640511000610 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 640511000611 dimer interface [polypeptide binding]; other site 640511000612 [2Fe-2S] cluster binding site [ion binding]; other site 640511000613 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 640511000614 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 640511000615 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 640511000616 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 640511000617 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 640511000618 homodimer interface [polypeptide binding]; other site 640511000619 substrate-cofactor binding pocket; other site 640511000620 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511000621 catalytic residue [active] 640511000622 Protein of unknown function (DUF493); Region: DUF493; cl01102 640511000623 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640511000624 Helix-turn-helix domains; Region: HTH; cl00088 640511000625 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 640511000626 dimerization interface [polypeptide binding]; other site 640511000627 substrate binding pocket [chemical binding]; other site 640511000628 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 640511000629 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 640511000630 lipoyl synthase; Provisional; Region: PRK05481 640511000631 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 640511000632 FeS/SAM binding site; other site 640511000633 putative transposase OrfB; Reviewed; Region: PHA02517 640511000634 HTH-like domain; Region: HTH_21; pfam13276 640511000635 Integrase core domain; Region: rve; cl01316 640511000636 Integrase core domain; Region: rve_3; cl15866 640511000637 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 640511000638 Helix-turn-helix domains; Region: HTH; cl00088 640511000639 Helix-turn-helix domains; Region: HTH; cl00088 640511000640 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 640511000641 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 640511000642 putative active site [active] 640511000643 catalytic site [active] 640511000644 putative metal binding site [ion binding]; other site 640511000645 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 640511000646 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 640511000647 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 640511000648 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 640511000649 dimer interface [polypeptide binding]; other site 640511000650 phosphorylation site [posttranslational modification] 640511000651 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511000652 ATP binding site [chemical binding]; other site 640511000653 Mg2+ binding site [ion binding]; other site 640511000654 G-X-G motif; other site 640511000655 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 640511000656 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511000657 active site 640511000658 phosphorylation site [posttranslational modification] 640511000659 intermolecular recognition site; other site 640511000660 dimerization interface [polypeptide binding]; other site 640511000661 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 640511000662 Walker A motif; other site 640511000663 ATP binding site [chemical binding]; other site 640511000664 Walker B motif; other site 640511000665 arginine finger; other site 640511000666 Helix-turn-helix domains; Region: HTH; cl00088 640511000667 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 640511000668 catalytic residues [active] 640511000669 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 640511000670 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 640511000671 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511000672 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 640511000673 Membrane fusogenic activity; Region: BMFP; cl01115 640511000674 Nitrogen regulatory protein P-II; Region: P-II; cl00412 640511000675 Nitrogen regulatory protein P-II; Region: P-II; smart00938 640511000676 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 640511000677 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 640511000678 Glutamate-cysteine ligase; Region: GshA; pfam08886 640511000679 glutathione synthetase; Provisional; Region: PRK05246 640511000680 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 640511000681 ATP-grasp domain; Region: ATP-grasp_4; cl03087 640511000682 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 640511000683 active pocket/dimerization site; other site 640511000684 active site 640511000685 phosphorylation site [posttranslational modification] 640511000686 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 640511000687 dimerization domain swap beta strand [polypeptide binding]; other site 640511000688 regulatory protein interface [polypeptide binding]; other site 640511000689 active site 640511000690 regulatory phosphorylation site [posttranslational modification]; other site 640511000691 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 640511000692 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 640511000693 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 640511000694 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 640511000695 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 640511000696 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 640511000697 ATP binding site [chemical binding]; other site 640511000698 substrate interface [chemical binding]; other site 640511000699 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 640511000700 C-terminal peptidase (prc); Region: prc; TIGR00225 640511000701 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 640511000702 protein binding site [polypeptide binding]; other site 640511000703 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 640511000704 Catalytic dyad [active] 640511000705 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 640511000706 catalytic core [active] 640511000707 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 640511000708 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 640511000709 active site residue [active] 640511000710 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 640511000711 GSH binding site [chemical binding]; other site 640511000712 catalytic residues [active] 640511000713 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cl00251 640511000714 SecA binding site; other site 640511000715 Preprotein binding site; other site 640511000716 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 640511000717 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511000718 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 640511000719 Macro domain, Appr-1'-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose...; Region: Macro_Appr_pase_like; cd02908 640511000720 putative ADP-ribose binding site [chemical binding]; other site 640511000721 putative active site [active] 640511000722 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 640511000723 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 640511000724 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 640511000725 active site 640511000726 Methyltransferase domain; Region: Methyltransf_31; pfam13847 640511000727 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 640511000728 S-adenosylmethionine binding site [chemical binding]; other site 640511000729 Integral membrane protein (DUF2244); Region: DUF2244; cl02302 640511000730 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 640511000731 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 640511000732 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 640511000733 Cytochrome c; Region: Cytochrom_C; cl11414 640511000734 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640511000735 ligand binding site [chemical binding]; other site 640511000736 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 640511000737 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 640511000738 Subunit I/III interface [polypeptide binding]; other site 640511000739 D-pathway; other site 640511000740 Subunit I/VIIc interface [polypeptide binding]; other site 640511000741 Subunit I/IV interface [polypeptide binding]; other site 640511000742 Subunit I/II interface [polypeptide binding]; other site 640511000743 Low-spin heme (heme a) binding site [chemical binding]; other site 640511000744 Subunit I/VIIa interface [polypeptide binding]; other site 640511000745 Subunit I/VIa interface [polypeptide binding]; other site 640511000746 Dimer interface; other site 640511000747 Putative water exit pathway; other site 640511000748 Binuclear center (heme a3/CuB) [ion binding]; other site 640511000749 K-pathway; other site 640511000750 Subunit I/Vb interface [polypeptide binding]; other site 640511000751 Putative proton exit pathway; other site 640511000752 Subunit I/VIb interface; other site 640511000753 Subunit I/VIc interface [polypeptide binding]; other site 640511000754 Electron transfer pathway; other site 640511000755 Subunit I/VIIIb interface [polypeptide binding]; other site 640511000756 Subunit I/VIIb interface [polypeptide binding]; other site 640511000757 Cytochrome c oxidase assembly protein CtaG/Cox11; Region: CtaG_Cox11; cl01240 640511000758 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 640511000759 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 640511000760 Subunit III/VIIa interface [polypeptide binding]; other site 640511000761 Phospholipid binding site [chemical binding]; other site 640511000762 Subunit I/III interface [polypeptide binding]; other site 640511000763 Subunit III/VIb interface [polypeptide binding]; other site 640511000764 Subunit III/VIa interface; other site 640511000765 Subunit III/Vb interface [polypeptide binding]; other site 640511000766 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 640511000767 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 640511000768 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 640511000769 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 640511000770 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 640511000771 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 640511000772 UbiA prenyltransferase family; Region: UbiA; cl00337 640511000773 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 640511000774 Cu(I) binding site [ion binding]; other site 640511000775 YCII-related domain; Region: YCII; cl00999 640511000776 NMT1-like family; Region: NMT1_2; cl15260 640511000777 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640511000778 Helix-turn-helix domains; Region: HTH; cl00088 640511000779 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 640511000780 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 640511000781 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511000782 DNA-binding site [nucleotide binding]; DNA binding site 640511000783 UTRA domain; Region: UTRA; cl01230 640511000784 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 640511000785 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 640511000786 active site 640511000787 dimer interface [polypeptide binding]; other site 640511000788 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 640511000789 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 640511000790 dimer interface [polypeptide binding]; other site 640511000791 active site 640511000792 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 640511000793 dimer interface [polypeptide binding]; other site 640511000794 active site 640511000795 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cl00162 640511000796 HPr interaction site; other site 640511000797 glycerol kinase (GK) interaction site [polypeptide binding]; other site 640511000798 active site 640511000799 phosphorylation site [posttranslational modification] 640511000800 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 640511000801 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 640511000802 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 640511000803 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 640511000804 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 640511000805 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 640511000806 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 640511000807 active site turn [active] 640511000808 phosphorylation site [posttranslational modification] 640511000809 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 640511000810 active site turn [active] 640511000811 phosphorylation site [posttranslational modification] 640511000812 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 640511000813 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 640511000814 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 640511000815 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 640511000816 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 640511000817 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 640511000818 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 640511000819 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640511000820 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 640511000821 DNA binding residues [nucleotide binding] 640511000822 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 640511000823 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 640511000824 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 640511000825 active site 640511000826 catalytic residues [active] 640511000827 metal binding site [ion binding]; metal-binding site 640511000828 glycosyl transferase family protein; Provisional; Region: PRK08136 640511000829 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 640511000830 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 640511000831 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 640511000832 maleylacetoacetate isomerase; Region: maiA; TIGR01262 640511000833 C-terminal domain interface [polypeptide binding]; other site 640511000834 GSH binding site (G-site) [chemical binding]; other site 640511000835 putative dimer interface [polypeptide binding]; other site 640511000836 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 640511000837 dimer interface [polypeptide binding]; other site 640511000838 N-terminal domain interface [polypeptide binding]; other site 640511000839 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 640511000840 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 640511000841 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 640511000842 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 640511000843 P loop; other site 640511000844 GTP binding site [chemical binding]; other site 640511000845 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 640511000846 S-adenosylmethionine binding site [chemical binding]; other site 640511000847 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 640511000848 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 640511000849 active site 640511000850 (T/H)XGH motif; other site 640511000851 Helix-turn-helix domains; Region: HTH; cl00088 640511000852 ferredoxin; Validated; Region: PRK07118 640511000853 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 640511000854 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 640511000855 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511000856 homodimer interface [polypeptide binding]; other site 640511000857 catalytic residue [active] 640511000858 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 640511000859 putative active site [active] 640511000860 catalytic residue [active] 640511000861 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 640511000862 ribosomal protein L25, Ctc-form; Region: ctc_TL5; TIGR00731 640511000863 5S rRNA interface [nucleotide binding]; other site 640511000864 CTC domain interface [polypeptide binding]; other site 640511000865 L16 interface [polypeptide binding]; other site 640511000866 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 640511000867 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 640511000868 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 640511000869 active site 640511000870 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 640511000871 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 640511000872 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 640511000873 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 640511000874 TPR motif; other site 640511000875 binding surface 640511000876 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 640511000877 binding surface 640511000878 TPR motif; other site 640511000879 TPR repeat; Region: TPR_11; pfam13414 640511000880 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 640511000881 TPR motif; other site 640511000882 binding surface 640511000883 TPR repeat; Region: TPR_11; pfam13414 640511000884 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 640511000885 binding surface 640511000886 TPR motif; other site 640511000887 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 640511000888 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 640511000889 DNA binding site [nucleotide binding] 640511000890 catalytic residue [active] 640511000891 H2TH interface [polypeptide binding]; other site 640511000892 putative catalytic residues [active] 640511000893 turnover-facilitating residue; other site 640511000894 intercalation triad [nucleotide binding]; other site 640511000895 8OG recognition residue [nucleotide binding]; other site 640511000896 putative reading head residues; other site 640511000897 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 640511000898 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 640511000899 adenine DNA glycosylase; Provisional; Region: PRK10880 640511000900 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 640511000901 minor groove reading motif; other site 640511000902 helix-hairpin-helix signature motif; other site 640511000903 substrate binding pocket [chemical binding]; other site 640511000904 active site 640511000905 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 640511000906 DNA binding and oxoG recognition site [nucleotide binding] 640511000907 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 640511000908 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 640511000909 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 640511000910 HPr kinase/phosphorylase; Provisional; Region: PRK05428 640511000911 DRTGG domain; Region: DRTGG; cl12147 640511000912 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 640511000913 Hpr binding site; other site 640511000914 active site 640511000915 homohexamer subunit interaction site [polypeptide binding]; other site 640511000916 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 640511000917 active site 640511000918 phosphorylation site [posttranslational modification] 640511000919 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site; Region: RaiA; cd00552 640511000920 30S subunit binding site; other site 640511000921 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 640511000922 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 640511000923 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 640511000924 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 640511000925 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 640511000926 Walker A/P-loop; other site 640511000927 ATP binding site [chemical binding]; other site 640511000928 Q-loop/lid; other site 640511000929 ABC transporter signature motif; other site 640511000930 Walker B; other site 640511000931 D-loop; other site 640511000932 H-loop/switch region; other site 640511000933 OstA-like protein; Region: OstA; cl00844 640511000934 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 640511000935 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 640511000936 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 640511000937 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 640511000938 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 640511000939 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 640511000940 putative active site [active] 640511000941 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 640511000942 putative cation:proton antiport protein; Provisional; Region: PRK10669 640511000943 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 640511000944 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 640511000945 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511000946 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 640511000947 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 640511000948 active site 640511000949 LysE type translocator; Region: LysE; cl00565 640511000950 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 640511000951 nudix motif; other site 640511000952 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 640511000953 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 640511000954 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 640511000955 putative active site [active] 640511000956 putative substrate binding site [chemical binding]; other site 640511000957 putative cosubstrate binding site; other site 640511000958 catalytic site [active] 640511000959 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 640511000960 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 640511000961 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 640511000962 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 640511000963 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 640511000964 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 640511000965 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 640511000966 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 640511000967 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511000968 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640511000969 putative substrate translocation pore; other site 640511000970 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 640511000971 dimer interface [polypeptide binding]; other site 640511000972 ssDNA binding site [nucleotide binding]; other site 640511000973 tetramer (dimer of dimers) interface [polypeptide binding]; other site 640511000974 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 640511000975 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 640511000976 dimerization interface [polypeptide binding]; other site 640511000977 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640511000978 dimer interface [polypeptide binding]; other site 640511000979 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 640511000980 putative CheW interface [polypeptide binding]; other site 640511000981 Cytochrome c; Region: Cytochrom_C; cl11414 640511000982 Cytochrome c; Region: Cytochrom_C; cl11414 640511000983 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 640511000984 D-pathway; other site 640511000985 Low-spin heme binding site [chemical binding]; other site 640511000986 Putative water exit pathway; other site 640511000987 Binuclear center (active site) [active] 640511000988 K-pathway; other site 640511000989 Putative proton exit pathway; other site 640511000990 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 640511000991 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 640511000992 Cytochrome c; Region: Cytochrom_C; cl11414 640511000993 Cytochrome c; Region: Cytochrom_C; cl11414 640511000994 Cytochrome c; Region: Cytochrom_C; cl11414 640511000995 Helix-turn-helix domains; Region: HTH; cl00088 640511000996 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 640511000997 dimerization interface [polypeptide binding]; other site 640511000998 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511000999 transcriptional regulator RcsB; Provisional; Region: PRK10840 640511001000 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511001001 active site 640511001002 phosphorylation site [posttranslational modification] 640511001003 intermolecular recognition site; other site 640511001004 dimerization interface [polypeptide binding]; other site 640511001005 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 640511001006 DNA binding residues [nucleotide binding] 640511001007 dimerization interface [polypeptide binding]; other site 640511001008 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640511001009 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511001010 active site 640511001011 phosphorylation site [posttranslational modification] 640511001012 intermolecular recognition site; other site 640511001013 dimerization interface [polypeptide binding]; other site 640511001014 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 640511001015 DNA binding residues [nucleotide binding] 640511001016 dimerization interface [polypeptide binding]; other site 640511001017 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640511001018 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511001019 active site 640511001020 phosphorylation site [posttranslational modification] 640511001021 intermolecular recognition site; other site 640511001022 dimerization interface [polypeptide binding]; other site 640511001023 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 640511001024 DNA binding residues [nucleotide binding] 640511001025 dimerization interface [polypeptide binding]; other site 640511001026 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 640511001027 amphipathic channel; other site 640511001028 Asn-Pro-Ala signature motifs; other site 640511001029 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 640511001030 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 640511001031 substrate binding pocket [chemical binding]; other site 640511001032 membrane-bound complex binding site; other site 640511001033 hinge residues; other site 640511001034 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 640511001035 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 640511001036 substrate binding pocket [chemical binding]; other site 640511001037 membrane-bound complex binding site; other site 640511001038 hinge residues; other site 640511001039 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 640511001040 PAS domain; Region: PAS_9; pfam13426 640511001041 putative active site [active] 640511001042 heme pocket [chemical binding]; other site 640511001043 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 640511001044 dimer interface [polypeptide binding]; other site 640511001045 phosphorylation site [posttranslational modification] 640511001046 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511001047 ATP binding site [chemical binding]; other site 640511001048 Mg2+ binding site [ion binding]; other site 640511001049 G-X-G motif; other site 640511001050 Response regulator receiver domain; Region: Response_reg; pfam00072 640511001051 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511001052 active site 640511001053 phosphorylation site [posttranslational modification] 640511001054 intermolecular recognition site; other site 640511001055 dimerization interface [polypeptide binding]; other site 640511001056 CHRD domain; Region: CHRD; cl06473 640511001057 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 640511001058 EcsC protein family; Region: EcsC; pfam12787 640511001059 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511001060 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640511001061 putative substrate translocation pore; other site 640511001062 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511001063 Helix-turn-helix domains; Region: HTH; cl00088 640511001064 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 640511001065 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Bacterial Cryptic D-Serine Dehydratase; Region: PLPDE_III_cryptic_DSD; cd06818 640511001066 dimer interface [polypeptide binding]; other site 640511001067 active site 640511001068 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 640511001069 substrate binding site [chemical binding]; other site 640511001070 catalytic residue [active] 640511001071 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 640511001072 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 640511001073 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 640511001074 putative active site [active] 640511001075 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 640511001076 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 640511001077 active site 640511001078 putative substrate binding pocket [chemical binding]; other site 640511001079 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 640511001080 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 640511001081 homotrimer interaction site [polypeptide binding]; other site 640511001082 putative active site [active] 640511001083 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 640511001084 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 640511001085 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 640511001086 5'-nucleotidase; Region: 5-nucleotidase; pfam06189 640511001087 threonine dehydratase; Reviewed; Region: PRK09224 640511001088 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 640511001089 tetramer interface [polypeptide binding]; other site 640511001090 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511001091 catalytic residue [active] 640511001092 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 640511001093 putative Ile/Val binding site [chemical binding]; other site 640511001094 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 640511001095 putative Ile/Val binding site [chemical binding]; other site 640511001096 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 640511001097 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 640511001098 FAD binding domain; Region: FAD_binding_4; pfam01565 640511001099 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 640511001100 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 640511001101 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 640511001102 Cysteine-rich domain; Region: CCG; pfam02754 640511001103 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 640511001104 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 640511001105 nucleotide binding site/active site [active] 640511001106 HIT family signature motif; other site 640511001107 catalytic residue [active] 640511001108 Protein of unknown function (DUF971); Region: DUF971; cl01414 640511001109 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 640511001110 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 640511001111 S-adenosylmethionine binding site [chemical binding]; other site 640511001112 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 640511001113 Tim44-like domain; Region: Tim44; cl09208 640511001114 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 640511001115 SCP-2 sterol transfer family; Region: SCP2; cl01225 640511001116 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 640511001117 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 640511001118 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 640511001119 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 640511001120 Protein of unknown function (DUF502); Region: DUF502; cl01107 640511001121 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 640511001122 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 640511001123 dimer interface [polypeptide binding]; other site 640511001124 anticodon binding site; other site 640511001125 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 640511001126 homodimer interface [polypeptide binding]; other site 640511001127 motif 1; other site 640511001128 active site 640511001129 motif 2; other site 640511001130 GAD domain; Region: GAD; pfam02938 640511001131 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 640511001132 motif 3; other site 640511001133 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 640511001134 nudix motif; other site 640511001135 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 640511001136 putative active site [active] 640511001137 catalytic site [active] 640511001138 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 640511001139 PLD-like domain; Region: PLDc_2; pfam13091 640511001140 putative active site [active] 640511001141 catalytic site [active] 640511001142 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 640511001143 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 640511001144 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 640511001145 FAD binding site [chemical binding]; other site 640511001146 substrate binding site [chemical binding]; other site 640511001147 catalytic residues [active] 640511001148 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 640511001149 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 640511001150 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511001151 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 640511001152 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 640511001153 substrate binding site [chemical binding]; other site 640511001154 oxyanion hole (OAH) forming residues; other site 640511001155 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 640511001156 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 640511001157 dimer interface [polypeptide binding]; other site 640511001158 active site 640511001159 enoyl-CoA hydratase; Provisional; Region: PRK06688 640511001160 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 640511001161 substrate binding site [chemical binding]; other site 640511001162 oxyanion hole (OAH) forming residues; other site 640511001163 trimer interface [polypeptide binding]; other site 640511001164 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 640511001165 Conserved nitrate reductase-associated protein (Nitr_red_assoc); Region: Nitr_red_assoc; cl09869 640511001166 PAS domain S-box; Region: sensory_box; TIGR00229 640511001167 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 640511001168 PAS fold; Region: PAS_4; pfam08448 640511001169 PAS domain; Region: PAS_9; pfam13426 640511001170 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 640511001171 putative active site [active] 640511001172 heme pocket [chemical binding]; other site 640511001173 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640511001174 metal binding site [ion binding]; metal-binding site 640511001175 active site 640511001176 I-site; other site 640511001177 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 640511001178 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 640511001179 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 640511001180 C-terminal domain interface [polypeptide binding]; other site 640511001181 GSH binding site (G-site) [chemical binding]; other site 640511001182 dimer interface [polypeptide binding]; other site 640511001183 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 640511001184 N-terminal domain interface [polypeptide binding]; other site 640511001185 putative substrate binding pocket (H-site) [chemical binding]; other site 640511001186 dimer interface [polypeptide binding]; other site 640511001187 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 640511001188 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 640511001189 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 640511001190 ATM1 is an ABC transporter that is expressed in the mitochondria. Although the specific function of ATM1 is unknown, its disruption results in the accumulation of excess mitochondrial iron, loss of mitochondrial cytochromes, oxidative damage to...; Region: ABCC_ATM1_transporter; cd03253 640511001191 Walker A/P-loop; other site 640511001192 ATP binding site [chemical binding]; other site 640511001193 Q-loop/lid; other site 640511001194 ABC transporter signature motif; other site 640511001195 Walker B; other site 640511001196 D-loop; other site 640511001197 H-loop/switch region; other site 640511001198 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 640511001199 Substrate binding site; other site 640511001200 metal-binding site 640511001201 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 640511001202 Phosphotransferase enzyme family; Region: APH; pfam01636 640511001203 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 640511001204 Organic solvent tolerance protein; Region: OstA_C; pfam04453 640511001205 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 640511001206 SurA N-terminal domain; Region: SurA_N_3; cl07813 640511001207 PPIC-type PPIASE domain; Region: Rotamase; cl08278 640511001208 PPIC-type PPIASE domain; Region: Rotamase; cl08278 640511001209 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 640511001210 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 640511001211 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 640511001212 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 640511001213 EamA-like transporter family; Region: EamA; cl01037 640511001214 EamA-like transporter family; Region: EamA; cl01037 640511001215 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640511001216 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 640511001217 dimer interface [polypeptide binding]; other site 640511001218 active site 640511001219 metal binding site [ion binding]; metal-binding site 640511001220 glutathione binding site [chemical binding]; other site 640511001221 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 640511001222 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 640511001223 substrate binding pocket [chemical binding]; other site 640511001224 membrane-bound complex binding site; other site 640511001225 hinge residues; other site 640511001226 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511001227 dimer interface [polypeptide binding]; other site 640511001228 conserved gate region; other site 640511001229 ABC-ATPase subunit interface; other site 640511001230 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511001231 dimer interface [polypeptide binding]; other site 640511001232 conserved gate region; other site 640511001233 putative PBP binding loops; other site 640511001234 ABC-ATPase subunit interface; other site 640511001235 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 640511001236 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 640511001237 Walker A/P-loop; other site 640511001238 ATP binding site [chemical binding]; other site 640511001239 Q-loop/lid; other site 640511001240 ABC transporter signature motif; other site 640511001241 Walker B; other site 640511001242 D-loop; other site 640511001243 H-loop/switch region; other site 640511001244 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640511001245 Helix-turn-helix domains; Region: HTH; cl00088 640511001246 Bacterial transcriptional regulator; Region: IclR; pfam01614 640511001247 Protein of unknown function DUF45; Region: DUF45; cl00636 640511001248 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 640511001249 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 640511001250 putative acyl-acceptor binding pocket; other site 640511001251 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 640511001252 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 640511001253 active site 640511001254 motif I; other site 640511001255 motif II; other site 640511001256 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 640511001257 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 640511001258 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 640511001259 dimer interface [polypeptide binding]; other site 640511001260 motif 1; other site 640511001261 active site 640511001262 motif 2; other site 640511001263 motif 3; other site 640511001264 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 640511001265 non-specific DNA binding site [nucleotide binding]; other site 640511001266 salt bridge; other site 640511001267 sequence-specific DNA binding site [nucleotide binding]; other site 640511001268 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 640511001269 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 640511001270 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511001271 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 640511001272 putative metal binding site [ion binding]; other site 640511001273 MASE1; Region: MASE1; pfam05231 640511001274 PAS domain S-box; Region: sensory_box; TIGR00229 640511001275 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 640511001276 putative active site [active] 640511001277 heme pocket [chemical binding]; other site 640511001278 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640511001279 metal binding site [ion binding]; metal-binding site 640511001280 active site 640511001281 I-site; other site 640511001282 Hydrolase of X-linked nucleoside diphosphate N terminal; Region: Nudix_N; pfam12535 640511001283 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 640511001284 nudix motif; other site 640511001285 Protein of unknown function DUF91; Region: DUF91; cl00709 640511001286 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 640511001287 putative acyl-acceptor binding pocket; other site 640511001288 H-NS histone family; Region: Histone_HNS; pfam00816 640511001289 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 640511001290 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 640511001291 Protein of unknown function (DUF2167); Region: DUF2167; cl01938 640511001292 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 640511001293 HSP70 interaction site [polypeptide binding]; other site 640511001294 Protein of unknown function (DUF4236); Region: DUF4236; pfam14020 640511001295 Uncharacterized protein with protein kinase and helix-hairpin-helix DNA-binding domains [General function prediction only]; Region: COG4248 640511001296 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 640511001297 substrate binding site [chemical binding]; other site 640511001298 activation loop (A-loop); other site 640511001299 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 640511001300 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 640511001301 metal ion-dependent adhesion site (MIDAS); other site 640511001302 Domain of unknown function (DUF4177); Region: DUF4177; pfam13783 640511001303 Haemolytic domain; Region: Haemolytic; cl00506 640511001304 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 640511001305 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511001306 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511001307 Family description; Region: UvrD_C_2; cl15862 640511001308 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 640511001309 active site 640511001310 metal binding site [ion binding]; metal-binding site 640511001311 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 640511001312 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 640511001313 active site 640511001314 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 640511001315 Protein of unknown function (DUF1052); Region: DUF1052; cl02197 640511001316 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 640511001317 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511001318 Family description; Region: UvrD_C_2; cl15862 640511001319 Putative phage integrase; Region: Phage_Integr_2; pfam13009 640511001320 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 640511001321 DNA binding site [nucleotide binding] 640511001322 active site 640511001323 Int/Topo IB signature motif; other site 640511001324 catalytic residues [active] 640511001325 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 640511001326 DNA binding site [nucleotide binding] 640511001327 Int/Topo IB signature motif; other site 640511001328 active site 640511001329 catalytic residues [active] 640511001330 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 640511001331 active site 640511001332 FMN binding site [chemical binding]; other site 640511001333 substrate binding site [chemical binding]; other site 640511001334 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 640511001335 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 640511001336 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 640511001337 nudix motif; other site 640511001338 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 640511001339 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 640511001340 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511001341 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 640511001342 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 640511001343 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 640511001344 Helix-turn-helix domains; Region: HTH; cl00088 640511001345 WYL domain; Region: WYL; cl14852 640511001346 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 640511001347 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640511001348 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 640511001349 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 640511001350 dimer interface [polypeptide binding]; other site 640511001351 ligand binding site [chemical binding]; other site 640511001352 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 640511001353 dimerization interface [polypeptide binding]; other site 640511001354 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640511001355 dimer interface [polypeptide binding]; other site 640511001356 putative CheW interface [polypeptide binding]; other site 640511001357 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 640511001358 THUMP domain; Region: THUMP; cl12076 640511001359 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 640511001360 Protein of unknown function (DUF330); Region: DUF330; cl01135 640511001361 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 640511001362 mce related protein; Region: MCE; pfam02470 640511001363 mce related protein; Region: MCE; pfam02470 640511001364 mce related protein; Region: MCE; pfam02470 640511001365 Paraquat-inducible protein A; Region: PqiA; pfam04403 640511001366 Paraquat-inducible protein A; Region: PqiA; pfam04403 640511001367 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 640511001368 YceI-like domain; Region: YceI; cl01001 640511001369 YceI-like domain; Region: YceI; cl01001 640511001370 citrate-proton symporter; Provisional; Region: PRK15075 640511001371 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511001372 putative substrate translocation pore; other site 640511001373 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 640511001374 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 640511001375 Protein export membrane protein; Region: SecD_SecF; cl14618 640511001376 SecD export protein N-terminal TM region; Region: SecD-TM1; cl08136 640511001377 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 640511001378 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 640511001379 Protein export membrane protein; Region: SecD_SecF; cl14618 640511001380 Preprotein translocase subunit; Region: YajC; cl00806 640511001381 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 640511001382 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 640511001383 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 640511001384 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 640511001385 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 640511001386 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 640511001387 generic binding surface II; other site 640511001388 ssDNA binding site; other site 640511001389 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 640511001390 ATP binding site [chemical binding]; other site 640511001391 putative Mg++ binding site [ion binding]; other site 640511001392 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 640511001393 nucleotide binding region [chemical binding]; other site 640511001394 ATP-binding site [chemical binding]; other site 640511001395 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511001396 Helix-turn-helix domains; Region: HTH; cl00088 640511001397 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 640511001398 dimerization interface [polypeptide binding]; other site 640511001399 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 640511001400 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 640511001401 tetramer interface [polypeptide binding]; other site 640511001402 heme binding pocket [chemical binding]; other site 640511001403 NADPH binding site [chemical binding]; other site 640511001404 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 640511001405 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 640511001406 dimerization interface [polypeptide binding]; other site 640511001407 DPS ferroxidase diiron center [ion binding]; other site 640511001408 ion pore; other site 640511001409 UbiA prenyltransferase family; Region: UbiA; cl00337 640511001410 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 640511001411 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511001412 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 640511001413 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 640511001414 catalytic residue [active] 640511001415 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 640511001416 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 640511001417 Cysteine-rich domain; Region: CCG; pfam02754 640511001418 Cysteine-rich domain; Region: CCG; pfam02754 640511001419 FAD binding domain; Region: FAD_binding_4; pfam01565 640511001420 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 640511001421 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 640511001422 FAD binding domain; Region: FAD_binding_4; pfam01565 640511001423 D-lactate dehydrogenase [cytochrome]; Region: PLN02805 640511001424 FAD binding domain; Region: FAD_binding_4; pfam01565 640511001425 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 640511001426 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 640511001427 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 640511001428 NeuB family; Region: NeuB; cl00496 640511001429 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 640511001430 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 640511001431 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 640511001432 Predicted amidohydrolase [General function prediction only]; Region: COG0388 640511001433 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 640511001434 putative active site [active] 640511001435 catalytic triad [active] 640511001436 dimer interface [polypeptide binding]; other site 640511001437 TIGR02099 family protein; Region: TIGR02099 640511001438 AsmA-like C-terminal region; Region: AsmA_2; cl15864 640511001439 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 640511001440 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 640511001441 metal binding triad; other site 640511001442 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 640511001443 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 640511001444 metal binding triad; other site 640511001445 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 640511001446 recombination and repair protein; Provisional; Region: PRK10869 640511001447 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 640511001448 Walker A/P-loop; other site 640511001449 ATP binding site [chemical binding]; other site 640511001450 Q-loop/lid; other site 640511001451 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 640511001452 ABC transporter signature motif; other site 640511001453 Walker B; other site 640511001454 D-loop; other site 640511001455 H-loop/switch region; other site 640511001456 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 640511001457 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 640511001458 Helix-turn-helix domains; Region: HTH; cl00088 640511001459 ferrochelatase; Reviewed; Region: hemH; PRK00035 640511001460 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 640511001461 C-terminal domain interface [polypeptide binding]; other site 640511001462 active site 640511001463 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 640511001464 active site 640511001465 N-terminal domain interface [polypeptide binding]; other site 640511001466 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 640511001467 RNA binding surface [nucleotide binding]; other site 640511001468 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 640511001469 dimer interface [polypeptide binding]; other site 640511001470 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 640511001471 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 640511001472 chaperone protein DnaJ; Provisional; Region: PRK10767 640511001473 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 640511001474 HSP70 interaction site [polypeptide binding]; other site 640511001475 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 640511001476 Zn binding sites [ion binding]; other site 640511001477 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 640511001478 dimer interface [polypeptide binding]; other site 640511001479 aminodeoxychorismate synthase; Provisional; Region: PRK07508 640511001480 chorismate binding enzyme; Region: Chorismate_bind; cl10555 640511001481 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cl00224 640511001482 substrate-cofactor binding pocket; other site 640511001483 homodimer interface [polypeptide binding]; other site 640511001484 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511001485 catalytic residue [active] 640511001486 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 640511001487 oligomerization interface [polypeptide binding]; other site 640511001488 active site 640511001489 metal binding site [ion binding]; metal-binding site 640511001490 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 640511001491 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 640511001492 Substrate-binding site [chemical binding]; other site 640511001493 Substrate specificity [chemical binding]; other site 640511001494 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 640511001495 catalytic center binding site [active] 640511001496 ATP binding site [chemical binding]; other site 640511001497 poly(A) polymerase; Region: pcnB; TIGR01942 640511001498 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 640511001499 active site 640511001500 NTP binding site [chemical binding]; other site 640511001501 metal binding triad [ion binding]; metal-binding site 640511001502 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 640511001503 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 640511001504 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 640511001505 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 640511001506 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511001507 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 640511001508 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 640511001509 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 640511001510 dimerization interface [polypeptide binding]; other site 640511001511 putative ATP binding site [chemical binding]; other site 640511001512 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511001513 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 640511001514 DNA mismatch repair enzyme (predicted ATPase) [DNA replication, recombination, and repair]; Region: MutL; COG0323 640511001515 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511001516 ATP binding site [chemical binding]; other site 640511001517 Mg2+ binding site [ion binding]; other site 640511001518 G-X-G motif; other site 640511001519 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 640511001520 ATP binding site [chemical binding]; other site 640511001521 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 640511001522 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 640511001523 Mechanosensitive ion channel; Region: MS_channel; pfam00924 640511001524 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 640511001525 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 640511001526 Tetratricopeptide repeat; Region: TPR_6; pfam13174 640511001527 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 640511001528 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640511001529 ligand binding site [chemical binding]; other site 640511001530 translocation protein TolB; Provisional; Region: tolB; PRK02889 640511001531 TolB amino-terminal domain; Region: TolB_N; cl00639 640511001532 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 640511001533 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 640511001534 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 640511001535 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 640511001536 TolA protein; Region: tolA_full; TIGR02794 640511001537 Gram-negative bacterial tonB protein; Region: TonB; cl10048 640511001538 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 640511001539 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 640511001540 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 640511001541 active site 640511001542 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 640511001543 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 640511001544 putative NAD(P) binding site [chemical binding]; other site 640511001545 homodimer interface [polypeptide binding]; other site 640511001546 homotetramer interface [polypeptide binding]; other site 640511001547 active site 640511001548 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 640511001549 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 640511001550 dimer interface [polypeptide binding]; other site 640511001551 active site 640511001552 glycine-pyridoxal phosphate binding site [chemical binding]; other site 640511001553 folate binding site [chemical binding]; other site 640511001554 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 640511001555 ATP cone domain; Region: ATP-cone; pfam03477 640511001556 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 640511001557 Type II transport protein GspH; Region: GspH; pfam12019 640511001558 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 640511001559 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 640511001560 Protein of unknown function (DUF3318); Region: DUF3318; pfam11780 640511001561 Protein of unknown function (DUF1469); Region: DUF1469; cl12095 640511001562 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 640511001563 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 640511001564 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 640511001565 dimer interface [polypeptide binding]; other site 640511001566 decamer (pentamer of dimers) interface [polypeptide binding]; other site 640511001567 catalytic triad [active] 640511001568 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 640511001569 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 640511001570 FAD binding site [chemical binding]; other site 640511001571 substrate binding pocket [chemical binding]; other site 640511001572 catalytic base [active] 640511001573 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640511001574 Helix-turn-helix domains; Region: HTH; cl00088 640511001575 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 640511001576 benzoate transport; Region: 2A0115; TIGR00895 640511001577 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511001578 putative substrate translocation pore; other site 640511001579 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511001580 Cupin domain; Region: Cupin_2; cl09118 640511001581 fumarylacetoacetase; Region: PLN02856 640511001582 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 640511001583 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 640511001584 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 640511001585 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 640511001586 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511001587 putative substrate translocation pore; other site 640511001588 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511001589 putative substrate translocation pore; other site 640511001590 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640511001591 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 640511001592 putative hydrophobic ligand binding site [chemical binding]; other site 640511001593 protein interface [polypeptide binding]; other site 640511001594 gate; other site 640511001595 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 640511001596 substrate binding site [chemical binding]; other site 640511001597 oxyanion hole (OAH) forming residues; other site 640511001598 trimer interface [polypeptide binding]; other site 640511001599 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 640511001600 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511001601 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 640511001602 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 640511001603 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640511001604 catalytic residue [active] 640511001605 Predicted ATP-grasp enzyme [General function prediction only]; Region: COG3919 640511001606 ATP-grasp domain; Region: ATP-grasp_4; cl03087 640511001607 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 640511001608 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511001609 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 640511001610 putative active site [active] 640511001611 putative metal binding site [ion binding]; other site 640511001612 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 640511001613 Chain length determinant protein; Region: Wzz; cl15801 640511001614 tyrosine kinase; Provisional; Region: PRK11519 640511001615 Chain length determinant protein; Region: Wzz; cl15801 640511001616 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511001617 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 640511001618 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 640511001619 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 640511001620 Probable Catalytic site; other site 640511001621 metal-binding site 640511001622 MatE; Region: MatE; cl10513 640511001623 major facilitator superfamily transporter; Provisional; Region: PRK05122 640511001624 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511001625 putative substrate translocation pore; other site 640511001626 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 640511001627 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 640511001628 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 640511001629 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 640511001630 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 640511001631 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 640511001632 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640511001633 XdhC Rossmann domain; Region: XdhC_C; pfam13478 640511001634 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511001635 Helix-turn-helix domains; Region: HTH; cl00088 640511001636 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 640511001637 putative substrate binding pocket [chemical binding]; other site 640511001638 putative dimerization interface [polypeptide binding]; other site 640511001639 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 640511001640 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 640511001641 putative catalytic residue [active] 640511001642 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 640511001643 NMT1-like family; Region: NMT1_2; cl15260 640511001644 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 640511001645 LysE type translocator; Region: LysE; cl00565 640511001646 Helix-turn-helix domains; Region: HTH; cl00088 640511001647 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 640511001648 putative dimerization interface [polypeptide binding]; other site 640511001649 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 640511001650 active site 640511001651 catalytic residues [active] 640511001652 metal binding site [ion binding]; metal-binding site 640511001653 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 640511001654 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640511001655 benzoate transport; Region: 2A0115; TIGR00895 640511001656 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511001657 putative substrate translocation pore; other site 640511001658 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511001659 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640511001660 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 640511001661 conserved cys residue [active] 640511001662 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 640511001663 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 640511001664 Substrate binding site; other site 640511001665 Cupin domain; Region: Cupin_2; cl09118 640511001666 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 640511001667 Bacterial sugar transferase; Region: Bac_transf; cl00939 640511001668 polysaccharide export protein Wza; Provisional; Region: PRK15078 640511001669 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 640511001670 Chain length determinant protein; Region: Wzz; cl15801 640511001671 tyrosine kinase; Provisional; Region: PRK11519 640511001672 Chain length determinant protein; Region: Wzz; cl15801 640511001673 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511001674 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 640511001675 oligomerisation interface [polypeptide binding]; other site 640511001676 mobile loop; other site 640511001677 roof hairpin; other site 640511001678 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 640511001679 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 640511001680 ring oligomerisation interface [polypeptide binding]; other site 640511001681 ATP/Mg binding site [chemical binding]; other site 640511001682 stacking interactions; other site 640511001683 hinge regions; other site 640511001684 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically 'activated' sulfate form important for the assimilation of...; Region: APSK; cd02027 640511001685 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 640511001686 ligand-binding site [chemical binding]; other site 640511001687 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 640511001688 dimer interface [polypeptide binding]; other site 640511001689 substrate binding site [chemical binding]; other site 640511001690 ATP binding site [chemical binding]; other site 640511001691 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 640511001692 Rubredoxin; Region: Rubredoxin; pfam00301 640511001693 iron binding site [ion binding]; other site 640511001694 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 640511001695 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 640511001696 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 640511001697 active site 640511001698 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 640511001699 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 640511001700 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511001701 dihydroorotase; Provisional; Region: PRK07627 640511001702 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 640511001703 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 640511001704 active site 640511001705 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 640511001706 putative acyl-acceptor binding pocket; other site 640511001707 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 640511001708 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 640511001709 active site 640511001710 metal binding site [ion binding]; metal-binding site 640511001711 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 640511001712 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 640511001713 NADP-binding site; other site 640511001714 homotetramer interface [polypeptide binding]; other site 640511001715 substrate binding site [chemical binding]; other site 640511001716 homodimer interface [polypeptide binding]; other site 640511001717 active site 640511001718 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 640511001719 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 640511001720 NAD binding site [chemical binding]; other site 640511001721 substrate binding site [chemical binding]; other site 640511001722 homodimer interface [polypeptide binding]; other site 640511001723 active site 640511001724 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 640511001725 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 640511001726 substrate binding site; other site 640511001727 tetramer interface; other site 640511001728 Cupin domain; Region: Cupin_2; cl09118 640511001729 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 640511001730 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 640511001731 NADP binding site [chemical binding]; other site 640511001732 active site 640511001733 putative substrate binding site [chemical binding]; other site 640511001734 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 640511001735 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 640511001736 Substrate binding site; other site 640511001737 Cupin domain; Region: Cupin_2; cl09118 640511001738 ABC-2 type transporter; Region: ABC2_membrane; cl11417 640511001739 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and...; Region: ABC_KpsT_Wzt; cd03220 640511001740 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 640511001741 Walker A/P-loop; other site 640511001742 ATP binding site [chemical binding]; other site 640511001743 Q-loop/lid; other site 640511001744 ABC transporter signature motif; other site 640511001745 Walker B; other site 640511001746 D-loop; other site 640511001747 H-loop/switch region; other site 640511001748 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 640511001749 AMP-binding enzyme; Region: AMP-binding; cl15778 640511001750 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u6; cd10930 640511001751 NodB motif; other site 640511001752 putative active site [active] 640511001753 putative catalytic site [active] 640511001754 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 640511001755 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 640511001756 active site 640511001757 homodimer interface [polypeptide binding]; other site 640511001758 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 640511001759 putative homodimer interface [polypeptide binding]; other site 640511001760 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640511001761 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 640511001762 putative ADP-binding pocket [chemical binding]; other site 640511001763 hypothetical protein; Validated; Region: PRK08238 640511001764 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 640511001765 UbiA prenyltransferase family; Region: UbiA; cl00337 640511001766 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 640511001767 FAD binding domain; Region: FAD_binding_4; pfam01565 640511001768 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 640511001769 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511001770 NAD(P) binding site [chemical binding]; other site 640511001771 active site 640511001772 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 640511001773 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 640511001774 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 640511001775 NAD(P) binding site [chemical binding]; other site 640511001776 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 640511001777 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 640511001778 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 640511001779 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 640511001780 catalytic core [active] 640511001781 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 640511001782 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 640511001783 Myxococcus xanthus RfbC like proteins are required for O-antigen biosynthesis; Region: GT2_RfbC_Mx_like; cd04184 640511001784 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 640511001785 Probable Catalytic site; other site 640511001786 metal-binding site 640511001787 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 640511001788 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 640511001789 Probable Catalytic site; other site 640511001790 metal-binding site 640511001791 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 640511001792 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 640511001793 UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs; Region: UDP_G4E_4_SDR_e; cd05232 640511001794 putative NAD(P) binding site [chemical binding]; other site 640511001795 active site 640511001796 putative substrate binding site [chemical binding]; other site 640511001797 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 640511001798 Mg++ binding site [ion binding]; other site 640511001799 putative catalytic motif [active] 640511001800 putative substrate binding site [chemical binding]; other site 640511001801 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 640511001802 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511001803 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 640511001804 NAD(P) binding site [chemical binding]; other site 640511001805 homodimer interface [polypeptide binding]; other site 640511001806 substrate binding site [chemical binding]; other site 640511001807 active site 640511001808 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 640511001809 Protein of unknown function (DUF3828); Region: DUF3828; pfam12883 640511001810 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 640511001811 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 640511001812 Mg++ binding site [ion binding]; other site 640511001813 putative catalytic motif [active] 640511001814 methyl-accepting protein IV; Provisional; Region: PRK09793 640511001815 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 640511001816 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 640511001817 dimerization interface [polypeptide binding]; other site 640511001818 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640511001819 dimer interface [polypeptide binding]; other site 640511001820 putative CheW interface [polypeptide binding]; other site 640511001821 UDP-glucose 4-epimerase; Region: PLN02240 640511001822 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 640511001823 NAD binding site [chemical binding]; other site 640511001824 homodimer interface [polypeptide binding]; other site 640511001825 active site 640511001826 substrate binding site [chemical binding]; other site 640511001827 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 640511001828 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640511001829 putative ADP-binding pocket [chemical binding]; other site 640511001830 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 640511001831 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 640511001832 active site 640511001833 MatE; Region: MatE; cl10513 640511001834 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 640511001835 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 640511001836 active site 640511001837 substrate binding site [chemical binding]; other site 640511001838 metal binding site [ion binding]; metal-binding site 640511001839 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 640511001840 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 640511001841 putative active site [active] 640511001842 3-deoxy-D-manno-oct-2-ulosonic acid (Kdo) hydroxylase; Region: Kdo_hydroxy; pfam11004 640511001843 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 640511001844 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 640511001845 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 640511001846 Fic family protein [Function unknown]; Region: COG3177 640511001847 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511001848 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 640511001849 UreF; Region: UreF; pfam01730 640511001850 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 640511001851 dimer interface [polypeptide binding]; other site 640511001852 catalytic residues [active] 640511001853 urease subunit alpha; Reviewed; Region: ureC; PRK13207 640511001854 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 640511001855 subunit interactions [polypeptide binding]; other site 640511001856 active site 640511001857 flap region; other site 640511001858 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 640511001859 gamma-beta subunit interface [polypeptide binding]; other site 640511001860 alpha-beta subunit interface [polypeptide binding]; other site 640511001861 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 640511001862 alpha-gamma subunit interface [polypeptide binding]; other site 640511001863 beta-gamma subunit interface [polypeptide binding]; other site 640511001864 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 640511001865 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 640511001866 substrate binding pocket [chemical binding]; other site 640511001867 membrane-bound complex binding site; other site 640511001868 hinge residues; other site 640511001869 UreD urease accessory protein; Region: UreD; cl00530 640511001870 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 640511001871 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 640511001872 Walker A/P-loop; other site 640511001873 ATP binding site [chemical binding]; other site 640511001874 Q-loop/lid; other site 640511001875 ABC transporter signature motif; other site 640511001876 Walker B; other site 640511001877 D-loop; other site 640511001878 H-loop/switch region; other site 640511001879 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 640511001880 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 640511001881 Walker A/P-loop; other site 640511001882 ATP binding site [chemical binding]; other site 640511001883 Q-loop/lid; other site 640511001884 ABC transporter signature motif; other site 640511001885 Walker B; other site 640511001886 D-loop; other site 640511001887 H-loop/switch region; other site 640511001888 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 640511001889 TM-ABC transporter signature motif; other site 640511001890 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 640511001891 TM-ABC transporter signature motif; other site 640511001892 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 640511001893 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 640511001894 putative ligand binding site [chemical binding]; other site 640511001895 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 640511001896 active site residue [active] 640511001897 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 640511001898 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 640511001899 S-adenosylmethionine binding site [chemical binding]; other site 640511001900 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640511001901 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640511001902 DNA binding site [nucleotide binding] 640511001903 domain linker motif; other site 640511001904 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 640511001905 dimerization interface [polypeptide binding]; other site 640511001906 ligand binding site [chemical binding]; other site 640511001907 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 640511001908 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 640511001909 Walker A/P-loop; other site 640511001910 ATP binding site [chemical binding]; other site 640511001911 Q-loop/lid; other site 640511001912 ABC transporter signature motif; other site 640511001913 Walker B; other site 640511001914 D-loop; other site 640511001915 H-loop/switch region; other site 640511001916 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 640511001917 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 640511001918 TM-ABC transporter signature motif; other site 640511001919 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_3; cd06311 640511001920 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640511001921 putative ligand binding site [chemical binding]; other site 640511001922 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 640511001923 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 640511001924 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 640511001925 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511001926 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 640511001927 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 640511001928 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 640511001929 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 640511001930 P-loop; other site 640511001931 Magnesium ion binding site [ion binding]; other site 640511001932 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 640511001933 Magnesium ion binding site [ion binding]; other site 640511001934 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 640511001935 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 640511001936 putative ligand binding site [chemical binding]; other site 640511001937 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12684 640511001938 Helix-turn-helix domains; Region: HTH; cl00088 640511001939 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 640511001940 substrate binding site [chemical binding]; other site 640511001941 dimerization interface [polypeptide binding]; other site 640511001942 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 640511001943 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 640511001944 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 640511001945 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 640511001946 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 640511001947 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 640511001948 Active Sites [active] 640511001949 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 640511001950 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 640511001951 Active Sites [active] 640511001952 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 640511001953 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 640511001954 CysD dimerization site [polypeptide binding]; other site 640511001955 G1 box; other site 640511001956 putative GEF interaction site [polypeptide binding]; other site 640511001957 GTP/Mg2+ binding site [chemical binding]; other site 640511001958 Switch I region; other site 640511001959 G2 box; other site 640511001960 G3 box; other site 640511001961 Switch II region; other site 640511001962 G4 box; other site 640511001963 G5 box; other site 640511001964 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 640511001965 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 640511001966 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 640511001967 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 640511001968 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 640511001969 putative active site [active] 640511001970 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 640511001971 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 640511001972 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 640511001973 multifunctional aminopeptidase A; Provisional; Region: PRK00913 640511001974 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 640511001975 interface (dimer of trimers) [polypeptide binding]; other site 640511001976 Substrate-binding/catalytic site; other site 640511001977 Zn-binding sites [ion binding]; other site 640511001978 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 640511001979 Protein of unknown function (DUF2486); Region: DUF2486; pfam10667 640511001980 Cytochrome c; Region: Cytochrom_C; cl11414 640511001981 Dehydratase family; Region: ILVD_EDD; cl00340 640511001982 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 640511001983 Helix-turn-helix domains; Region: HTH; cl00088 640511001984 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 640511001985 putative dimerization interface [polypeptide binding]; other site 640511001986 putative substrate binding pocket [chemical binding]; other site 640511001987 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 640511001988 Protein of unknown function (DUF541); Region: SIMPL; cl01077 640511001989 EVE domain; Region: EVE; cl00728 640511001990 Cell division protein ZapA; Region: ZapA; cl01146 640511001991 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 640511001992 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 640511001993 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 640511001994 N-terminal plug; other site 640511001995 ligand-binding site [chemical binding]; other site 640511001996 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 640511001997 ABC-ATPase subunit interface; other site 640511001998 dimer interface [polypeptide binding]; other site 640511001999 putative PBP binding regions; other site 640511002000 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 640511002001 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 640511002002 Walker A/P-loop; other site 640511002003 ATP binding site [chemical binding]; other site 640511002004 Q-loop/lid; other site 640511002005 ABC transporter signature motif; other site 640511002006 Walker B; other site 640511002007 D-loop; other site 640511002008 H-loop/switch region; other site 640511002009 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 640511002010 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 640511002011 putative dimer interface [polypeptide binding]; other site 640511002012 active site pocket [active] 640511002013 putative cataytic base [active] 640511002014 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 640511002015 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 640511002016 catalytic core [active] 640511002017 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 640511002018 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 640511002019 cobalamin binding residues [chemical binding]; other site 640511002020 putative BtuC binding residues; other site 640511002021 dimer interface [polypeptide binding]; other site 640511002022 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 640511002023 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 640511002024 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511002025 homodimer interface [polypeptide binding]; other site 640511002026 catalytic residue [active] 640511002027 CobD/Cbib protein; Region: CobD_Cbib; cl00561 640511002028 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 640511002029 homotrimer interface [polypeptide binding]; other site 640511002030 Walker A motif; other site 640511002031 GTP binding site [chemical binding]; other site 640511002032 Walker B motif; other site 640511002033 cobyric acid synthase; Provisional; Region: PRK00784 640511002034 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511002035 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 640511002036 catalytic triad [active] 640511002037 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 640511002038 CoenzymeA binding site [chemical binding]; other site 640511002039 subunit interaction site [polypeptide binding]; other site 640511002040 PHB binding site; other site 640511002041 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 640511002042 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 640511002043 P-loop; other site 640511002044 Magnesium ion binding site [ion binding]; other site 640511002045 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 640511002046 tetramerization interface [polypeptide binding]; other site 640511002047 active site 640511002048 pantoate--beta-alanine ligase; Region: panC; TIGR00018 640511002049 Pantoate-beta-alanine ligase; Region: PanC; cd00560 640511002050 active site 640511002051 ATP-binding site [chemical binding]; other site 640511002052 pantoate-binding site; other site 640511002053 HXXH motif; other site 640511002054 ScpA/B protein; Region: ScpA_ScpB; cl00598 640511002055 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 640511002056 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 640511002057 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 640511002058 Surface antigen; Region: Bac_surface_Ag; cl03097 640511002059 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 640511002060 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 640511002061 Family of unknown function (DUF490); Region: DUF490; pfam04357 640511002062 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 640511002063 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 640511002064 active site 640511002065 HIGH motif; other site 640511002066 KMSKS motif; other site 640511002067 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 640511002068 tRNA binding surface [nucleotide binding]; other site 640511002069 anticodon binding site; other site 640511002070 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 640511002071 dimer interface [polypeptide binding]; other site 640511002072 putative tRNA-binding site [nucleotide binding]; other site 640511002073 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640511002074 ligand binding site [chemical binding]; other site 640511002075 Domain of unknown function DUF59; Region: DUF59; cl00941 640511002076 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 640511002077 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 640511002078 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 640511002079 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 640511002080 E-class dimer interface [polypeptide binding]; other site 640511002081 P-class dimer interface [polypeptide binding]; other site 640511002082 active site 640511002083 Cu2+ binding site [ion binding]; other site 640511002084 Zn2+ binding site [ion binding]; other site 640511002085 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 640511002086 trimer interface [polypeptide binding]; other site 640511002087 active site 640511002088 arginine decarboxylase; Provisional; Region: PRK15029 640511002089 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 640511002090 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 640511002091 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640511002092 catalytic residue [active] 640511002093 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 640511002094 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 640511002095 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 640511002096 bifunctional glucokinase/RpiR family transcriptional regulator; Provisional; Region: PRK14101 640511002097 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 640511002098 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 640511002099 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 640511002100 putative active site [active] 640511002101 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 640511002102 putative active site [active] 640511002103 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 640511002104 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 640511002105 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 640511002106 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 640511002107 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 640511002108 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 640511002109 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511002110 putative PBP binding loops; other site 640511002111 dimer interface [polypeptide binding]; other site 640511002112 ABC-ATPase subunit interface; other site 640511002113 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 640511002114 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511002115 dimer interface [polypeptide binding]; other site 640511002116 conserved gate region; other site 640511002117 putative PBP binding loops; other site 640511002118 ABC-ATPase subunit interface; other site 640511002119 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 640511002120 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 640511002121 Walker A/P-loop; other site 640511002122 ATP binding site [chemical binding]; other site 640511002123 Q-loop/lid; other site 640511002124 ABC transporter signature motif; other site 640511002125 Walker B; other site 640511002126 D-loop; other site 640511002127 H-loop/switch region; other site 640511002128 TOBE domain; Region: TOBE_2; cl01440 640511002129 transcriptional regulator; Provisional; Region: PRK10632 640511002130 Helix-turn-helix domains; Region: HTH; cl00088 640511002131 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 640511002132 putative effector binding pocket; other site 640511002133 putative dimerization interface [polypeptide binding]; other site 640511002134 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 640511002135 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 640511002136 C-terminal domain interface [polypeptide binding]; other site 640511002137 GSH binding site (G-site) [chemical binding]; other site 640511002138 dimer interface [polypeptide binding]; other site 640511002139 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 640511002140 N-terminal domain interface [polypeptide binding]; other site 640511002141 dimer interface [polypeptide binding]; other site 640511002142 substrate binding pocket (H-site) [chemical binding]; other site 640511002143 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 640511002144 Smr domain; Region: Smr; cl02619 640511002145 thioredoxin reductase; Provisional; Region: PRK10262 640511002146 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640511002147 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 640511002148 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511002149 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 640511002150 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 640511002151 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 640511002152 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 640511002153 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 640511002154 recombination factor protein RarA; Reviewed; Region: PRK13342 640511002155 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 640511002156 Walker A motif; other site 640511002157 ATP binding site [chemical binding]; other site 640511002158 Walker B motif; other site 640511002159 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511002160 arginine finger; other site 640511002161 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 640511002162 seryl-tRNA synthetase; Provisional; Region: PRK05431 640511002163 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 640511002164 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme bound...; Region: SerRS_core; cd00770 640511002165 dimer interface [polypeptide binding]; other site 640511002166 active site 640511002167 motif 1; other site 640511002168 motif 2; other site 640511002169 motif 3; other site 640511002170 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 640511002171 active site 640511002172 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 640511002173 septum formation inhibitor; Reviewed; Region: PRK01973 640511002174 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 640511002175 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 640511002176 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 640511002177 Switch I; other site 640511002178 Switch II; other site 640511002179 Septum formation topological specificity factor MinE; Region: MinE; cl00538 640511002180 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 640511002181 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 640511002182 putative ion selectivity filter; other site 640511002183 putative pore gating glutamate residue; other site 640511002184 putative H+/Cl- coupling transport residue; other site 640511002185 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 640511002186 putative active site [active] 640511002187 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511002188 metabolite-proton symporter; Region: 2A0106; TIGR00883 640511002189 putative substrate translocation pore; other site 640511002190 argininosuccinate lyase; Provisional; Region: PRK00855 640511002191 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 640511002192 active sites [active] 640511002193 tetramer interface [polypeptide binding]; other site 640511002194 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 640511002195 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl14656 640511002196 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 640511002197 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 640511002198 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 640511002199 domain interfaces; other site 640511002200 active site 640511002201 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed; Region: PRK06975 640511002202 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 640511002203 active site 640511002204 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 640511002205 hemY protein; Region: hemY_coli; TIGR00540 640511002206 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 640511002207 TPR motif; other site 640511002208 binding surface 640511002209 short chain dehydrogenase; Provisional; Region: PRK07109 640511002210 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 640511002211 putative NAD(P) binding site [chemical binding]; other site 640511002212 active site 640511002213 Sulfate transporter family; Region: Sulfate_transp; cl15842 640511002214 high affinity sulphate transporter 1; Region: sulP; TIGR00815 640511002215 Sulfate transporter family; Region: Sulfate_transp; cl15842 640511002216 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 640511002217 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 640511002218 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 640511002219 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 640511002220 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 640511002221 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 640511002222 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 640511002223 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640511002224 NAD(P) binding site [chemical binding]; other site 640511002225 catalytic residues [active] 640511002226 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 640511002227 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 640511002228 Walker A motif; other site 640511002229 ATP binding site [chemical binding]; other site 640511002230 Walker B motif; other site 640511002231 arginine finger; other site 640511002232 Helix-turn-helix domains; Region: HTH; cl00088 640511002233 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511002234 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511002235 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 640511002236 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511002237 putative substrate translocation pore; other site 640511002238 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR), subgroup 3, classical (c) SDR; Region: BKR_3_SDR_c; cd05345 640511002239 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640511002240 putative NAD(P) binding site [chemical binding]; other site 640511002241 active site 640511002242 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640511002243 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 640511002244 NAD(P) binding site [chemical binding]; other site 640511002245 catalytic residues [active] 640511002246 catalytic residues [active] 640511002247 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 640511002248 dimer interface [polypeptide binding]; other site 640511002249 substrate binding site [chemical binding]; other site 640511002250 metal binding sites [ion binding]; metal-binding site 640511002251 Predicted membrane protein [Function unknown]; Region: COG1289 640511002252 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 640511002253 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 640511002254 GIY-YIG motif/motif A; other site 640511002255 putative active site [active] 640511002256 putative metal binding site [ion binding]; other site 640511002257 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 640511002258 Protein of unknown function, DUF482; Region: DUF482; pfam04339 640511002259 NAD synthetase; Provisional; Region: PRK13981 640511002260 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 640511002261 multimer interface [polypeptide binding]; other site 640511002262 active site 640511002263 catalytic triad [active] 640511002264 protein interface 1 [polypeptide binding]; other site 640511002265 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 640511002266 homodimer interface [polypeptide binding]; other site 640511002267 NAD binding pocket [chemical binding]; other site 640511002268 ATP binding pocket [chemical binding]; other site 640511002269 Mg binding site [ion binding]; other site 640511002270 active-site loop [active] 640511002271 Nitrogen regulatory protein P-II; Region: P-II; cl00412 640511002272 Nitrogen regulatory protein P-II; Region: P-II; smart00938 640511002273 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 640511002274 trimer interface [polypeptide binding]; other site 640511002275 eyelet of channel; other site 640511002276 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 640511002277 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 640511002278 Walker A/P-loop; other site 640511002279 ATP binding site [chemical binding]; other site 640511002280 Q-loop/lid; other site 640511002281 ABC transporter signature motif; other site 640511002282 Walker B; other site 640511002283 D-loop; other site 640511002284 H-loop/switch region; other site 640511002285 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640511002286 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511002287 dimer interface [polypeptide binding]; other site 640511002288 conserved gate region; other site 640511002289 putative PBP binding loops; other site 640511002290 ABC-ATPase subunit interface; other site 640511002291 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640511002292 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511002293 dimer interface [polypeptide binding]; other site 640511002294 conserved gate region; other site 640511002295 putative PBP binding loops; other site 640511002296 ABC-ATPase subunit interface; other site 640511002297 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional; Region: PRK15010 640511002298 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 640511002299 substrate binding pocket [chemical binding]; other site 640511002300 membrane-bound complex binding site; other site 640511002301 hinge residues; other site 640511002302 Pirin-related protein [General function prediction only]; Region: COG1741 640511002303 Cupin domain; Region: Cupin_2; cl09118 640511002304 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 640511002305 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 640511002306 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511002307 active site 640511002308 phosphorylation site [posttranslational modification] 640511002309 intermolecular recognition site; other site 640511002310 dimerization interface [polypeptide binding]; other site 640511002311 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 640511002312 DNA binding site [nucleotide binding] 640511002313 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 640511002314 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 640511002315 dimer interface [polypeptide binding]; other site 640511002316 phosphorylation site [posttranslational modification] 640511002317 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511002318 ATP binding site [chemical binding]; other site 640511002319 Mg2+ binding site [ion binding]; other site 640511002320 G-X-G motif; other site 640511002321 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 640511002322 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640511002323 metal binding site [ion binding]; metal-binding site 640511002324 active site 640511002325 I-site; other site 640511002326 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 640511002327 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511002328 dimer interface [polypeptide binding]; other site 640511002329 conserved gate region; other site 640511002330 putative PBP binding loops; other site 640511002331 ABC-ATPase subunit interface; other site 640511002332 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511002333 dimer interface [polypeptide binding]; other site 640511002334 conserved gate region; other site 640511002335 putative PBP binding loops; other site 640511002336 ABC-ATPase subunit interface; other site 640511002337 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 640511002338 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 640511002339 Walker A/P-loop; other site 640511002340 ATP binding site [chemical binding]; other site 640511002341 Q-loop/lid; other site 640511002342 ABC transporter signature motif; other site 640511002343 Walker B; other site 640511002344 D-loop; other site 640511002345 H-loop/switch region; other site 640511002346 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; cl15413 640511002347 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 640511002348 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 640511002349 Walker A motif; other site 640511002350 ATP binding site [chemical binding]; other site 640511002351 Walker B motif; other site 640511002352 arginine finger; other site 640511002353 Helix-turn-helix domains; Region: HTH; cl00088 640511002354 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 640511002355 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 640511002356 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511002357 active site 640511002358 phosphorylation site [posttranslational modification] 640511002359 intermolecular recognition site; other site 640511002360 dimerization interface [polypeptide binding]; other site 640511002361 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 640511002362 Walker A motif; other site 640511002363 ATP binding site [chemical binding]; other site 640511002364 Walker B motif; other site 640511002365 arginine finger; other site 640511002366 Helix-turn-helix domains; Region: HTH; cl00088 640511002367 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 640511002368 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 640511002369 active site 640511002370 homotetramer interface [polypeptide binding]; other site 640511002371 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511002372 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640511002373 putative substrate translocation pore; other site 640511002374 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511002375 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 640511002376 substrate binding site [chemical binding]; other site 640511002377 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 640511002378 additional DNA contacts [nucleotide binding]; other site 640511002379 mismatch recognition site; other site 640511002380 active site 640511002381 zinc binding site [ion binding]; other site 640511002382 DNA intercalation site [nucleotide binding]; other site 640511002383 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 640511002384 DNA cytosine methylase; Provisional; Region: PRK10458 640511002385 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 640511002386 cofactor binding site; other site 640511002387 DNA binding site [nucleotide binding] 640511002388 substrate interaction site [chemical binding]; other site 640511002389 CsbD-like; Region: CsbD; cl15799 640511002390 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 640511002391 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 640511002392 C-terminal domain interface [polypeptide binding]; other site 640511002393 GSH binding site (G-site) [chemical binding]; other site 640511002394 dimer interface [polypeptide binding]; other site 640511002395 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 640511002396 dimer interface [polypeptide binding]; other site 640511002397 N-terminal domain interface [polypeptide binding]; other site 640511002398 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 640511002399 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 640511002400 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 640511002401 Rubredoxin; Region: Rubredoxin; pfam00301 640511002402 iron binding site [ion binding]; other site 640511002403 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 640511002404 ABC transporter ATPase component; Reviewed; Region: PRK11147 640511002405 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511002406 Walker A/P-loop; other site 640511002407 ATP binding site [chemical binding]; other site 640511002408 Q-loop/lid; other site 640511002409 ABC transporter signature motif; other site 640511002410 Walker B; other site 640511002411 D-loop; other site 640511002412 H-loop/switch region; other site 640511002413 ABC transporter; Region: ABC_tran_2; pfam12848 640511002414 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 640511002415 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 640511002416 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511002417 ATP binding site [chemical binding]; other site 640511002418 Mg2+ binding site [ion binding]; other site 640511002419 G-X-G motif; other site 640511002420 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 640511002421 anchoring element; other site 640511002422 dimer interface [polypeptide binding]; other site 640511002423 ATP binding site [chemical binding]; other site 640511002424 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 640511002425 active site 640511002426 metal binding site [ion binding]; metal-binding site 640511002427 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 640511002428 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 640511002429 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 640511002430 CAP-like domain; other site 640511002431 active site 640511002432 primary dimer interface [polypeptide binding]; other site 640511002433 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 640511002434 Copper resistance protein D; Region: CopD; cl00563 640511002435 Chromate transporter; Region: Chromate_transp; pfam02417 640511002436 Chromate transporter; Region: Chromate_transp; pfam02417 640511002437 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640511002438 metal binding site [ion binding]; metal-binding site 640511002439 active site 640511002440 I-site; other site 640511002441 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 640511002442 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 640511002443 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 640511002444 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 640511002445 homotrimer interaction site [polypeptide binding]; other site 640511002446 putative active site [active] 640511002447 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 640511002448 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 640511002449 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511002450 homodimer interface [polypeptide binding]; other site 640511002451 catalytic residue [active] 640511002452 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 640511002453 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 640511002454 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511002455 DNA-binding site [nucleotide binding]; DNA binding site 640511002456 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 640511002457 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511002458 homodimer interface [polypeptide binding]; other site 640511002459 catalytic residue [active] 640511002460 heat shock protein 90; Provisional; Region: PRK05218 640511002461 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511002462 ATP binding site [chemical binding]; other site 640511002463 Mg2+ binding site [ion binding]; other site 640511002464 G-X-G motif; other site 640511002465 UTRA domain; Region: UTRA; cl01230 640511002466 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 640511002467 putative active site [active] 640511002468 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 640511002469 Cupin domain; Region: Cupin_2; cl09118 640511002470 Cupin domain; Region: Cupin_2; cl09118 640511002471 Helix-turn-helix domain; Region: HTH_18; pfam12833 640511002472 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 640511002473 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 640511002474 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 640511002475 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 640511002476 Na binding site [ion binding]; other site 640511002477 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 640511002478 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 640511002479 dimer interface [polypeptide binding]; other site 640511002480 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640511002481 transaldolase-like protein; Provisional; Region: PTZ00411 640511002482 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 640511002483 active site 640511002484 dimer interface [polypeptide binding]; other site 640511002485 catalytic residue [active] 640511002486 benzoate transporter; Region: benE; TIGR00843 640511002487 Benzoate membrane transport protein; Region: BenE; pfam03594 640511002488 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 640511002489 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 640511002490 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 640511002491 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 640511002492 Walker A motif; other site 640511002493 ATP binding site [chemical binding]; other site 640511002494 Walker B motif; other site 640511002495 arginine finger; other site 640511002496 Cytochrome c; Region: Cytochrom_C; cl11414 640511002497 Cytochrome c; Region: Cytochrom_C; cl11414 640511002498 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 640511002499 endonuclease III; Provisional; Region: PRK10702 640511002500 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 640511002501 minor groove reading motif; other site 640511002502 helix-hairpin-helix signature motif; other site 640511002503 substrate binding pocket [chemical binding]; other site 640511002504 active site 640511002505 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 640511002506 ferredoxin; Provisional; Region: PRK06991 640511002507 Putative Fe-S cluster; Region: FeS; pfam04060 640511002508 4Fe-4S binding domain; Region: Fer4; cl02805 640511002509 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 640511002510 Helix-turn-helix domains; Region: HTH; cl00088 640511002511 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 640511002512 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 640511002513 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 640511002514 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 640511002515 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 640511002516 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511002517 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 640511002518 META domain; Region: META; cl01245 640511002519 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 640511002520 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511002521 ATP-grasp domain; Region: ATP-grasp_4; cl03087 640511002522 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; cl01604 640511002523 acetolactate synthase; Reviewed; Region: PRK08322 640511002524 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 640511002525 PYR/PP interface [polypeptide binding]; other site 640511002526 dimer interface [polypeptide binding]; other site 640511002527 TPP binding site [chemical binding]; other site 640511002528 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 640511002529 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 640511002530 TPP-binding site [chemical binding]; other site 640511002531 dimer interface [polypeptide binding]; other site 640511002532 Aldehyde dehydrogenase family 21A1-like; Region: ALDH_F21_RNP123; cd07147 640511002533 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640511002534 NAD(P) binding site [chemical binding]; other site 640511002535 catalytic residues [active] 640511002536 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 640511002537 DEAD-like helicases superfamily; Region: DEXDc; smart00487 640511002538 ATP binding site [chemical binding]; other site 640511002539 Mg++ binding site [ion binding]; other site 640511002540 motif III; other site 640511002541 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 640511002542 nucleotide binding region [chemical binding]; other site 640511002543 ATP-binding site [chemical binding]; other site 640511002544 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 640511002545 active site 640511002546 HIGH motif; other site 640511002547 nucleotide binding site [chemical binding]; other site 640511002548 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 640511002549 active site 640511002550 KMSKS motif; other site 640511002551 rhodanese superfamily protein; Provisional; Region: PRK05320 640511002552 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 640511002553 active site residue [active] 640511002554 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 640511002555 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 640511002556 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 640511002557 generic binding surface II; other site 640511002558 generic binding surface I; other site 640511002559 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 640511002560 putative metal binding site; other site 640511002561 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 640511002562 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 640511002563 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 640511002564 Walker A/P-loop; other site 640511002565 ATP binding site [chemical binding]; other site 640511002566 Q-loop/lid; other site 640511002567 ABC transporter signature motif; other site 640511002568 Walker B; other site 640511002569 D-loop; other site 640511002570 H-loop/switch region; other site 640511002571 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 640511002572 Probable Catalytic site; other site 640511002573 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 640511002574 active site 640511002575 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 640511002576 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 640511002577 O-Antigen ligase; Region: Wzy_C; cl04850 640511002578 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 640511002579 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 640511002580 active site 640511002581 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 640511002582 Putative exonuclease, RdgC; Region: RdgC; cl01122 640511002583 fec operon regulator FecR; Reviewed; Region: PRK09774 640511002584 FecR protein; Region: FecR; pfam04773 640511002585 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511002586 H+ Antiporter protein; Region: 2A0121; TIGR00900 640511002587 putative substrate translocation pore; other site 640511002588 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640511002589 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 640511002590 dimer interface [polypeptide binding]; other site 640511002591 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 640511002592 putative dimer interface [polypeptide binding]; other site 640511002593 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640511002594 NLPC_P60 stabilising domain, N term; Region: N_NLPC_P60; pfam12912 640511002595 SH3 domain of the SH3b1 type; Region: SH3_6; pfam12913 640511002596 SH3 domain of SH3b2 type; Region: SH3_7; pfam12914 640511002597 NlpC/P60 family; Region: NLPC_P60; cl11438 640511002598 TOBE domain; Region: TOBE_2; cl01440 640511002599 TOBE domain; Region: TOBE_2; cl01440 640511002600 GAF domain; Region: GAF; cl15785 640511002601 Mechanosensitive ion channel; Region: MS_channel; pfam00924 640511002602 Integrase core domain; Region: rve_3; cl15866 640511002603 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 640511002604 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640511002605 ribonuclease G; Provisional; Region: PRK11712 640511002606 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 640511002607 homodimer interface [polypeptide binding]; other site 640511002608 oligonucleotide binding site [chemical binding]; other site 640511002609 Maf-like protein; Region: Maf; pfam02545 640511002610 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 640511002611 active site 640511002612 dimer interface [polypeptide binding]; other site 640511002613 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 640511002614 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 640511002615 Oligomerisation domain; Region: Oligomerisation; cl00519 640511002616 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 640511002617 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 640511002618 active site 640511002619 (T/H)XGH motif; other site 640511002620 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 640511002621 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 640511002622 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 640511002623 ATP-grasp domain; Region: ATP-grasp_4; cl03087 640511002624 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 640511002625 Transcriptional regulator; Region: Transcrip_reg; cl00361 640511002626 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 640511002627 active site 640511002628 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640511002629 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 640511002630 putative NAD(P) binding site [chemical binding]; other site 640511002631 putative active site [active] 640511002632 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 640511002633 active site 640511002634 dimer interfaces [polypeptide binding]; other site 640511002635 catalytic residues [active] 640511002636 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 640511002637 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 640511002638 NADP binding site [chemical binding]; other site 640511002639 dimer interface [polypeptide binding]; other site 640511002640 Potassium-transporting ATPase A subunit; Region: KdpA; cl00903 640511002641 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 640511002642 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 640511002643 K+-transporting ATPase, c chain; Region: KdpC; cl00944 640511002644 sensor protein KdpD; Provisional; Region: PRK10490 640511002645 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 640511002646 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 640511002647 Ligand Binding Site [chemical binding]; other site 640511002648 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 640511002649 GAF domain; Region: GAF; cl15785 640511002650 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 640511002651 dimer interface [polypeptide binding]; other site 640511002652 phosphorylation site [posttranslational modification] 640511002653 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511002654 ATP binding site [chemical binding]; other site 640511002655 Mg2+ binding site [ion binding]; other site 640511002656 G-X-G motif; other site 640511002657 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 640511002658 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511002659 active site 640511002660 phosphorylation site [posttranslational modification] 640511002661 intermolecular recognition site; other site 640511002662 dimerization interface [polypeptide binding]; other site 640511002663 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 640511002664 DNA binding site [nucleotide binding] 640511002665 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 640511002666 Domain of unknown function (DUF4126); Region: DUF4126; pfam13548 640511002667 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 640511002668 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 640511002669 apolar tunnel; other site 640511002670 heme binding site [chemical binding]; other site 640511002671 dimerization interface [polypeptide binding]; other site 640511002672 Bacterial protein of unknown function (DUF924); Region: DUF924; cl01561 640511002673 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 640511002674 short chain dehydrogenase; Provisional; Region: PRK06123 640511002675 classical (c) SDRs; Region: SDR_c; cd05233 640511002676 NAD(P) binding site [chemical binding]; other site 640511002677 active site 640511002678 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 640511002679 Helix-turn-helix domains; Region: HTH; cl00088 640511002680 Bacterial transcriptional repressor; Region: TetR; pfam13972 640511002681 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 640511002682 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640511002683 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 640511002684 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 640511002685 putative active site [active] 640511002686 putative metal binding site [ion binding]; other site 640511002687 RDD family; Region: RDD; cl00746 640511002688 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 640511002689 Protein of unknown function (DUF3619); Region: DUF3619; pfam12279 640511002690 RNA polymerase factor sigma-70; Validated; Region: PRK09047 640511002691 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 640511002692 DNA binding residues [nucleotide binding] 640511002693 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 640511002694 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 640511002695 PYR/PP interface [polypeptide binding]; other site 640511002696 dimer interface [polypeptide binding]; other site 640511002697 TPP binding site [chemical binding]; other site 640511002698 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 640511002699 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 640511002700 TPP-binding site [chemical binding]; other site 640511002701 dimer interface [polypeptide binding]; other site 640511002702 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 640511002703 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 640511002704 putative valine binding site [chemical binding]; other site 640511002705 dimer interface [polypeptide binding]; other site 640511002706 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 640511002707 ketol-acid reductoisomerase; Provisional; Region: PRK05479 640511002708 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511002709 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 640511002710 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 640511002711 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 640511002712 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 640511002713 2-isopropylmalate synthase; Validated; Region: PRK00915 640511002714 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 640511002715 active site 640511002716 catalytic residues [active] 640511002717 metal binding site [ion binding]; metal-binding site 640511002718 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 640511002719 Sulfate transporter family; Region: Sulfate_transp; cl15842 640511002720 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 640511002721 Sulfate transporter family; Region: Sulfate_transp; cl15842 640511002722 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 640511002723 active site clefts [active] 640511002724 zinc binding site [ion binding]; other site 640511002725 dimer interface [polypeptide binding]; other site 640511002726 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 640511002727 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 640511002728 putative ligand binding site [chemical binding]; other site 640511002729 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 640511002730 16S/18S rRNA binding site [nucleotide binding]; other site 640511002731 S13e-L30e interaction site [polypeptide binding]; other site 640511002732 25S rRNA binding site [nucleotide binding]; other site 640511002733 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 640511002734 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 640511002735 RNase E interface [polypeptide binding]; other site 640511002736 trimer interface [polypeptide binding]; other site 640511002737 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 640511002738 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 640511002739 RNase E interface [polypeptide binding]; other site 640511002740 trimer interface [polypeptide binding]; other site 640511002741 active site 640511002742 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 640511002743 putative nucleic acid binding region [nucleotide binding]; other site 640511002744 G-X-X-G motif; other site 640511002745 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 640511002746 RNA binding site [nucleotide binding]; other site 640511002747 domain interface; other site 640511002748 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 640511002749 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 640511002750 NAD(P) binding site [chemical binding]; other site 640511002751 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 640511002752 substrate binding site [chemical binding]; other site 640511002753 dimer interface [polypeptide binding]; other site 640511002754 catalytic triad [active] 640511002755 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 640511002756 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 640511002757 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 640511002758 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 640511002759 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 640511002760 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 640511002761 NADH-quinone oxidoreductase, E subunit; Region: nuoE_fam; TIGR01958 640511002762 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 640511002763 putative dimer interface [polypeptide binding]; other site 640511002764 [2Fe-2S] cluster binding site [ion binding]; other site 640511002765 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 640511002766 SLBB domain; Region: SLBB; pfam10531 640511002767 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 640511002768 NADH dehydrogenase subunit G; Validated; Region: PRK09129 640511002769 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 640511002770 catalytic loop [active] 640511002771 iron binding site [ion binding]; other site 640511002772 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 640511002773 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 640511002774 NADH dehydrogenase; Region: NADHdh; cl00469 640511002775 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 640511002776 4Fe-4S binding domain; Region: Fer4; cl02805 640511002777 4Fe-4S binding domain; Region: Fer4; cl02805 640511002778 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 640511002779 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 640511002780 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 640511002781 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 640511002782 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 640511002783 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 640511002784 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 640511002785 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 640511002786 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 640511002787 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 640511002788 Protein of unknown function (DUF2818); Region: DUF2818; pfam10993 640511002789 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 640511002790 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 640511002791 dimer interface [polypeptide binding]; other site 640511002792 ADP-ribose binding site [chemical binding]; other site 640511002793 active site 640511002794 nudix motif; other site 640511002795 metal binding site [ion binding]; metal-binding site 640511002796 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 640511002797 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 640511002798 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 640511002799 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 640511002800 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 640511002801 FAD binding site [chemical binding]; other site 640511002802 substrate binding site [chemical binding]; other site 640511002803 catalytic base [active] 640511002804 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 640511002805 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 640511002806 active site 640511002807 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 640511002808 putative active site [active] 640511002809 putative catalytic site [active] 640511002810 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 640511002811 putative active site [active] 640511002812 putative catalytic site [active] 640511002813 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 640511002814 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 640511002815 C-terminal domain interface [polypeptide binding]; other site 640511002816 GSH binding site (G-site) [chemical binding]; other site 640511002817 dimer interface [polypeptide binding]; other site 640511002818 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 640511002819 N-terminal domain interface [polypeptide binding]; other site 640511002820 putative dimer interface [polypeptide binding]; other site 640511002821 active site 640511002822 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 640511002823 Acyl-CoA dehydrogenases similar to fadE2; Region: ACAD_FadE2; cd01155 640511002824 FAD binding site [chemical binding]; other site 640511002825 substrate binding site [chemical binding]; other site 640511002826 catalytic base [active] 640511002827 Predicted aminoglycoside phosphotransferase [General function prediction only]; Region: COG3173 640511002828 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 640511002829 putative active site [active] 640511002830 putative substrate binding site [chemical binding]; other site 640511002831 ATP binding site [chemical binding]; other site 640511002832 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 640511002833 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 640511002834 catalytic core [active] 640511002835 enoyl-CoA hydratase; Provisional; Region: PRK07511 640511002836 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 640511002837 substrate binding site [chemical binding]; other site 640511002838 oxyanion hole (OAH) forming residues; other site 640511002839 trimer interface [polypeptide binding]; other site 640511002840 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 640511002841 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511002842 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 640511002843 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 640511002844 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 640511002845 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 640511002846 C-terminal domain interface [polypeptide binding]; other site 640511002847 GSH binding site (G-site) [chemical binding]; other site 640511002848 dimer interface [polypeptide binding]; other site 640511002849 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 640511002850 N-terminal domain interface [polypeptide binding]; other site 640511002851 dimer interface [polypeptide binding]; other site 640511002852 substrate binding pocket (H-site) [chemical binding]; other site 640511002853 methionine aminotransferase; Validated; Region: PRK09082 640511002854 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 640511002855 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511002856 homodimer interface [polypeptide binding]; other site 640511002857 catalytic residue [active] 640511002858 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 640511002859 Protein of unknown function (DUF328); Region: DUF328; cl01143 640511002860 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 640511002861 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 640511002862 putative active site [active] 640511002863 Zn binding site [ion binding]; other site 640511002864 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 640511002865 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640511002866 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 640511002867 active site 640511002868 phosphorylation site [posttranslational modification] 640511002869 intermolecular recognition site; other site 640511002870 dimerization interface [polypeptide binding]; other site 640511002871 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 640511002872 DNA binding residues [nucleotide binding] 640511002873 dimerization interface [polypeptide binding]; other site 640511002874 Protein of unknown function (DUF2863); Region: DUF2863; pfam11062 640511002875 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 640511002876 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 640511002877 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 640511002878 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 640511002879 Int/Topo IB signature motif; other site 640511002880 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 640511002881 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 640511002882 NADP binding site [chemical binding]; other site 640511002883 active site 640511002884 putative substrate binding site [chemical binding]; other site 640511002885 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 640511002886 metal-binding site [ion binding] 640511002887 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 640511002888 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 640511002889 DNA binding residues [nucleotide binding] 640511002890 dimer interface [polypeptide binding]; other site 640511002891 copper binding site [ion binding]; other site 640511002892 Protein of unknown function (DUF3563); Region: DUF3563; pfam12086 640511002893 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 640511002894 NMT1-like family; Region: NMT1_2; cl15260 640511002895 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 640511002896 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 640511002897 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 640511002898 active site 640511002899 catalytic tetrad [active] 640511002900 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK13394 640511002901 classical (c) SDRs; Region: SDR_c; cd05233 640511002902 NAD(P) binding site [chemical binding]; other site 640511002903 active site 640511002904 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 640511002905 nucleophile elbow; other site 640511002906 Patatin phospholipase; Region: DUF3734; pfam12536 640511002907 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 640511002908 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 640511002909 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511002910 homodimer interface [polypeptide binding]; other site 640511002911 catalytic residue [active] 640511002912 excinuclease ABC subunit B; Provisional; Region: PRK05298 640511002913 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 640511002914 ATP binding site [chemical binding]; other site 640511002915 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 640511002916 nucleotide binding region [chemical binding]; other site 640511002917 ATP-binding site [chemical binding]; other site 640511002918 Ultra-violet resistance protein B; Region: UvrB; pfam12344 640511002919 UvrB/uvrC motif; Region: UVR; pfam02151 640511002920 Fe2+ transport protein; Region: Iron_transport; cl01377 640511002921 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 640511002922 Iron permease FTR1 family; Region: FTR1; cl00475 640511002923 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 640511002924 4Fe-4S binding domain; Region: Fer4_5; pfam12801 640511002925 Hemin uptake protein hemP; Region: hemP; cl10043 640511002926 DUF1857, an uncharacterized ligand-binding domain of the SRPBCC domain superfamily; Region: SRPBCC_DUF1857; cd08863 640511002927 putative hydrophobic ligand binding site [chemical binding]; other site 640511002928 OsmC-like protein; Region: OsmC; cl00767 640511002929 Pirin-related protein [General function prediction only]; Region: COG1741 640511002930 Cupin domain; Region: Cupin_2; cl09118 640511002931 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 640511002932 LysR family transcriptional regulator; Provisional; Region: PRK14997 640511002933 Helix-turn-helix domains; Region: HTH; cl00088 640511002934 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 640511002935 putative effector binding pocket; other site 640511002936 putative dimerization interface [polypeptide binding]; other site 640511002937 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 640511002938 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 640511002939 Gram-negative bacterial tonB protein; Region: TonB; cl10048 640511002940 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 640511002941 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 640511002942 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 640511002943 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 640511002944 heme binding site [chemical binding]; other site 640511002945 ferroxidase pore; other site 640511002946 ferroxidase diiron center [ion binding]; other site 640511002947 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 640511002948 Fumarase C-terminus; Region: Fumerase_C; cl00795 640511002949 Uncharacterized protein family, UPF0114; Region: UPF0114; cl01078 640511002950 EamA-like transporter family; Region: EamA; cl01037 640511002951 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 640511002952 EamA-like transporter family; Region: EamA; cl01037 640511002953 acetyl-CoA synthetase; Provisional; Region: PRK00174 640511002954 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 640511002955 AMP-binding enzyme; Region: AMP-binding; cl15778 640511002956 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 640511002957 Domain of unknown function (DUF4212); Region: DUF4212; cl01781 640511002958 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 640511002959 Apolipoprotein A1/A4/E domain; Region: Apolipoprotein; pfam01442 640511002960 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 640511002961 Na binding site [ion binding]; other site 640511002962 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 640511002963 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 640511002964 dimer interface [polypeptide binding]; other site 640511002965 phosphorylation site [posttranslational modification] 640511002966 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511002967 ATP binding site [chemical binding]; other site 640511002968 Mg2+ binding site [ion binding]; other site 640511002969 G-X-G motif; other site 640511002970 Response regulator receiver domain; Region: Response_reg; pfam00072 640511002971 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511002972 active site 640511002973 phosphorylation site [posttranslational modification] 640511002974 intermolecular recognition site; other site 640511002975 dimerization interface [polypeptide binding]; other site 640511002976 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640511002977 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511002978 active site 640511002979 phosphorylation site [posttranslational modification] 640511002980 intermolecular recognition site; other site 640511002981 dimerization interface [polypeptide binding]; other site 640511002982 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 640511002983 DNA binding residues [nucleotide binding] 640511002984 dimerization interface [polypeptide binding]; other site 640511002985 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 640511002986 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 640511002987 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 640511002988 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 640511002989 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 640511002990 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 640511002991 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 640511002992 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 640511002993 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 640511002994 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 640511002995 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 640511002996 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 640511002997 enterobactin exporter EntS; Provisional; Region: PRK10489 640511002998 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511002999 putative substrate translocation pore; other site 640511003000 L-asparaginase II; Region: Asparaginase_II; cl01842 640511003001 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 640511003002 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 640511003003 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511003004 active site 640511003005 phosphorylation site [posttranslational modification] 640511003006 intermolecular recognition site; other site 640511003007 dimerization interface [polypeptide binding]; other site 640511003008 Domain of unknown function (DUF305); Region: DUF305; cl15795 640511003009 TPR repeat; Region: TPR_11; pfam13414 640511003010 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 640511003011 binding surface 640511003012 TPR motif; other site 640511003013 TPR repeat; Region: TPR_11; pfam13414 640511003014 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 640511003015 binding surface 640511003016 TPR motif; other site 640511003017 TPR repeat; Region: TPR_11; pfam13414 640511003018 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 640511003019 binding surface 640511003020 TPR motif; other site 640511003021 TPR repeat; Region: TPR_11; pfam13414 640511003022 ADP-heptose:LPS heptosyltransferase II; Provisional; Region: PRK10916; cl15782 640511003023 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 640511003024 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 640511003025 active site 640511003026 catalytic tetrad [active] 640511003027 short chain dehydrogenase; Provisional; Region: PRK12937 640511003028 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 640511003029 NADP binding site [chemical binding]; other site 640511003030 homodimer interface [polypeptide binding]; other site 640511003031 active site 640511003032 substrate binding site [chemical binding]; other site 640511003033 transcriptional regulator; Provisional; Region: PRK10632 640511003034 Helix-turn-helix domains; Region: HTH; cl00088 640511003035 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 640511003036 putative effector binding pocket; other site 640511003037 putative dimerization interface [polypeptide binding]; other site 640511003038 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 640511003039 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 640511003040 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 640511003041 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 640511003042 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 640511003043 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 640511003044 excinuclease ABC, A subunit; Region: uvra; TIGR00630 640511003045 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511003046 Walker A/P-loop; other site 640511003047 ATP binding site [chemical binding]; other site 640511003048 Q-loop/lid; other site 640511003049 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 640511003050 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 640511003051 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 640511003052 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640511003053 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 640511003054 conserved cys residue [active] 640511003055 Cupin domain; Region: Cupin_2; cl09118 640511003056 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 640511003057 Bacterial cellulose synthase subunit; Region: BcsB; cl15851 640511003058 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 640511003059 cellulose synthase subunit BcsC; Provisional; Region: PRK11447 640511003060 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 640511003061 cellulose biosynthesis protein BcsE; Region: cellulose_bcsE; TIGR03369 640511003062 Protein of unknown function (DUF2819); Region: DUF2819; pfam10995 640511003063 cellulose synthase operon protein YhjQ; Region: cellulose_yhjQ; TIGR03371 640511003064 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511003065 cellulose synthase catalytic subunit; Provisional; Region: bcsA; PRK11498 640511003066 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 640511003067 DXD motif; other site 640511003068 PilZ domain; Region: PilZ; cl01260 640511003069 Protein of unknown function (DUF3260); Region: DUF3260; cl11881 640511003070 LysE type translocator; Region: LysE; cl00565 640511003071 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 640511003072 Helix-turn-helix domains; Region: HTH; cl00088 640511003073 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 640511003074 dimerization interface [polypeptide binding]; other site 640511003075 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 640511003076 Helix-turn-helix domains; Region: HTH; cl00088 640511003077 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 640511003078 dimerization interface [polypeptide binding]; other site 640511003079 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 640511003080 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 640511003081 metal binding site [ion binding]; metal-binding site 640511003082 putative dimer interface [polypeptide binding]; other site 640511003083 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511003084 metabolite-proton symporter; Region: 2A0106; TIGR00883 640511003085 putative substrate translocation pore; other site 640511003086 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 640511003087 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 640511003088 Subunit I/III interface [polypeptide binding]; other site 640511003089 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 640511003090 Subunit I/III interface [polypeptide binding]; other site 640511003091 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 640511003092 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 640511003093 D-pathway; other site 640511003094 Low-spin heme binding site [chemical binding]; other site 640511003095 Putative water exit pathway; other site 640511003096 Binuclear center (active site) [active] 640511003097 K-pathway; other site 640511003098 Putative proton exit pathway; other site 640511003099 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 640511003100 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 640511003101 Cytochrome c; Region: Cytochrom_C; cl11414 640511003102 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511003103 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640511003104 putative substrate translocation pore; other site 640511003105 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 640511003106 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 640511003107 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511003108 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 640511003109 NAD(P) binding site [chemical binding]; other site 640511003110 active site 640511003111 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511003112 Helix-turn-helix domains; Region: HTH; cl00088 640511003113 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 640511003114 dimerization interface [polypeptide binding]; other site 640511003115 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 640511003116 active sites [active] 640511003117 tetramer interface [polypeptide binding]; other site 640511003118 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 640511003119 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511003120 DNA-binding site [nucleotide binding]; DNA binding site 640511003121 UTRA domain; Region: UTRA; cl01230 640511003122 urocanate hydratase; Provisional; Region: PRK05414 640511003123 HutD; Region: HutD; cl01532 640511003124 imidazolonepropionase; Validated; Region: PRK09356 640511003125 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 640511003126 active site 640511003127 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 640511003128 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 640511003129 active site 640511003130 N-formylglutamate amidohydrolase; Region: FGase; cl01522 640511003131 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 640511003132 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 640511003133 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 640511003134 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 640511003135 dimerization interface [polypeptide binding]; other site 640511003136 ligand binding site [chemical binding]; other site 640511003137 pyridoxamine kinase; Validated; Region: PRK05756 640511003138 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 640511003139 dimer interface [polypeptide binding]; other site 640511003140 pyridoxal binding site [chemical binding]; other site 640511003141 ATP binding site [chemical binding]; other site 640511003142 glycogen synthase; Provisional; Region: glgA; PRK00654 640511003143 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 640511003144 ADP-binding pocket [chemical binding]; other site 640511003145 homodimer interface [polypeptide binding]; other site 640511003146 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 640511003147 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 640511003148 ligand binding site; other site 640511003149 oligomer interface; other site 640511003150 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 640511003151 dimer interface [polypeptide binding]; other site 640511003152 N-terminal domain interface [polypeptide binding]; other site 640511003153 sulfate 1 binding site; other site 640511003154 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 640511003155 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640511003156 Predicted transcriptional regulator [Transcription]; Region: COG4742 640511003157 O-methyltransferase; Region: Methyltransf_2; pfam00891 640511003158 EamA-like transporter family; Region: EamA; cl01037 640511003159 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 640511003160 EamA-like transporter family; Region: EamA; cl01037 640511003161 transcriptional regulator; Provisional; Region: PRK10632 640511003162 Helix-turn-helix domains; Region: HTH; cl00088 640511003163 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 640511003164 putative effector binding pocket; other site 640511003165 dimerization interface [polypeptide binding]; other site 640511003166 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640511003167 classical (c) SDRs; Region: SDR_c; cd05233 640511003168 NAD(P) binding site [chemical binding]; other site 640511003169 active site 640511003170 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 640511003171 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 640511003172 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 640511003173 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 640511003174 active site residue [active] 640511003175 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 640511003176 active site residue [active] 640511003177 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 640511003178 active site residue [active] 640511003179 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 640511003180 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 640511003181 hypothetical protein; Provisional; Region: PRK10279 640511003182 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 640511003183 active site 640511003184 nucleophile elbow; other site 640511003185 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640511003186 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511003187 dimer interface [polypeptide binding]; other site 640511003188 conserved gate region; other site 640511003189 putative PBP binding loops; other site 640511003190 ABC-ATPase subunit interface; other site 640511003191 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640511003192 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511003193 dimer interface [polypeptide binding]; other site 640511003194 conserved gate region; other site 640511003195 putative PBP binding loops; other site 640511003196 ABC-ATPase subunit interface; other site 640511003197 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 640511003198 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 640511003199 Walker A/P-loop; other site 640511003200 ATP binding site [chemical binding]; other site 640511003201 Q-loop/lid; other site 640511003202 ABC transporter signature motif; other site 640511003203 Walker B; other site 640511003204 D-loop; other site 640511003205 H-loop/switch region; other site 640511003206 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640511003207 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 640511003208 conserved cys residue [active] 640511003209 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511003210 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511003211 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 640511003212 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 640511003213 inhibitor-cofactor binding pocket; inhibition site 640511003214 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511003215 catalytic residue [active] 640511003216 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 640511003217 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 640511003218 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640511003219 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 640511003220 NAD(P) binding site [chemical binding]; other site 640511003221 catalytic residues [active] 640511003222 Succinylarginine dihydrolase; Region: AstB; cl01511 640511003223 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 640511003224 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 640511003225 putative active site [active] 640511003226 Zn binding site [ion binding]; other site 640511003227 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 640511003228 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 640511003229 substrate binding pocket [chemical binding]; other site 640511003230 membrane-bound complex binding site; other site 640511003231 hinge residues; other site 640511003232 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 640511003233 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 640511003234 HDOD domain; Region: HDOD; pfam08668 640511003235 PAS domain; Region: PAS_9; pfam13426 640511003236 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 640511003237 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640511003238 metal binding site [ion binding]; metal-binding site 640511003239 active site 640511003240 I-site; other site 640511003241 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 640511003242 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 640511003243 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 640511003244 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 640511003245 catalytic triad [active] 640511003246 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 640511003247 Protein export membrane protein; Region: SecD_SecF; cl14618 640511003248 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 640511003249 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 640511003250 Protein export membrane protein; Region: SecD_SecF; cl14618 640511003251 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 640511003252 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 640511003253 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 640511003254 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640511003255 Helix-turn-helix domains; Region: HTH; cl00088 640511003256 Bacterial transcriptional regulator; Region: IclR; pfam01614 640511003257 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511003258 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640511003259 putative substrate translocation pore; other site 640511003260 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 640511003261 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511003262 active site 640511003263 phosphorylation site [posttranslational modification] 640511003264 intermolecular recognition site; other site 640511003265 dimerization interface [polypeptide binding]; other site 640511003266 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 640511003267 DNA binding residues [nucleotide binding] 640511003268 dimerization interface [polypeptide binding]; other site 640511003269 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 640511003270 PAS domain; Region: PAS_9; pfam13426 640511003271 putative active site [active] 640511003272 heme pocket [chemical binding]; other site 640511003273 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 640511003274 PAS domain; Region: PAS_9; pfam13426 640511003275 putative active site [active] 640511003276 heme pocket [chemical binding]; other site 640511003277 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 640511003278 putative active site [active] 640511003279 putative diguanylate cyclase; Provisional; Region: PRK09776 640511003280 heme pocket [chemical binding]; other site 640511003281 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 640511003282 dimer interface [polypeptide binding]; other site 640511003283 phosphorylation site [posttranslational modification] 640511003284 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511003285 ATP binding site [chemical binding]; other site 640511003286 Mg2+ binding site [ion binding]; other site 640511003287 G-X-G motif; other site 640511003288 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 640511003289 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511003290 active site 640511003291 phosphorylation site [posttranslational modification] 640511003292 intermolecular recognition site; other site 640511003293 dimerization interface [polypeptide binding]; other site 640511003294 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 640511003295 dimerization interface [polypeptide binding]; other site 640511003296 DNA binding residues [nucleotide binding] 640511003297 Response regulator receiver domain; Region: Response_reg; pfam00072 640511003298 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511003299 active site 640511003300 phosphorylation site [posttranslational modification] 640511003301 intermolecular recognition site; other site 640511003302 dimerization interface [polypeptide binding]; other site 640511003303 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 640511003304 BON domain; Region: BON; cl02771 640511003305 amidase; Provisional; Region: PRK07487 640511003306 Amidase; Region: Amidase; cl11426 640511003307 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 640511003308 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640511003309 NAD binding site [chemical binding]; other site 640511003310 catalytic residues [active] 640511003311 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 640511003312 homotrimer interaction site [polypeptide binding]; other site 640511003313 putative active site [active] 640511003314 CrcB-like protein; Region: CRCB; cl09114 640511003315 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 640511003316 CHASE3 domain; Region: CHASE3; cl05000 640511003317 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640511003318 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 640511003319 dimer interface [polypeptide binding]; other site 640511003320 phosphorylation site [posttranslational modification] 640511003321 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511003322 ATP binding site [chemical binding]; other site 640511003323 Mg2+ binding site [ion binding]; other site 640511003324 G-X-G motif; other site 640511003325 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 640511003326 DNA binding site [nucleotide binding] 640511003327 TolB amino-terminal domain; Region: TolB_N; cl00639 640511003328 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 640511003329 TPR motif; other site 640511003330 TPR repeat; Region: TPR_11; pfam13414 640511003331 binding surface 640511003332 TPR repeat; Region: TPR_11; pfam13414 640511003333 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 640511003334 binding surface 640511003335 TPR motif; other site 640511003336 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511003337 NAD(P) binding site [chemical binding]; other site 640511003338 active site 640511003339 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 640511003340 Cupin domain; Region: Cupin_2; cl09118 640511003341 short chain dehydrogenase; Provisional; Region: PRK06180 640511003342 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 640511003343 NADP binding site [chemical binding]; other site 640511003344 active site 640511003345 steroid binding site; other site 640511003346 Helix-turn-helix domains; Region: HTH; cl00088 640511003347 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 640511003348 NADH(P)-binding; Region: NAD_binding_10; pfam13460 640511003349 NAD binding site [chemical binding]; other site 640511003350 substrate binding site [chemical binding]; other site 640511003351 putative active site [active] 640511003352 Mechanosensitive ion channel; Region: MS_channel; pfam00924 640511003353 Cysteine dioxygenase type I; Region: CDO_I; cl15835 640511003354 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 640511003355 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 640511003356 putative DNA binding site [nucleotide binding]; other site 640511003357 putative Zn2+ binding site [ion binding]; other site 640511003358 AsnC family; Region: AsnC_trans_reg; pfam01037 640511003359 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 640511003360 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 640511003361 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 640511003362 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 640511003363 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 640511003364 Family description; Region: UvrD_C_2; cl15862 640511003365 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 640511003366 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 640511003367 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511003368 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 640511003369 Family description; Region: UvrD_C_2; cl15862 640511003370 RF-1 domain; Region: RF-1; cl02875 640511003371 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 640511003372 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 640511003373 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 640511003374 putative active site [active] 640511003375 DDE superfamily endonuclease; Region: DDE_4; cl15789 640511003376 Helix-turn-helix domains; Region: HTH; cl00088 640511003377 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 640511003378 putative dimerization interface [polypeptide binding]; other site 640511003379 aspartate aminotransferase; Provisional; Region: PRK06108 640511003380 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 640511003381 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511003382 homodimer interface [polypeptide binding]; other site 640511003383 catalytic residue [active] 640511003384 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 640511003385 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 640511003386 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 640511003387 RNA binding surface [nucleotide binding]; other site 640511003388 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 640511003389 probable active site [active] 640511003390 ribosome maturation protein RimP; Reviewed; Region: PRK00092 640511003391 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 640511003392 YxlS is a Bacillus subtilis gene of unknown function with two domains that each have an alpha/beta fold. The N-terminal domain is composed of two alpha-helices and a three-stranded beta-sheet, while the C-terminal domain is composed of one alpha-helix...; Region: YlxS_C; cd01734 640511003393 Sm1 motif; other site 640511003394 predicted subunit interaction site [polypeptide binding]; other site 640511003395 RNA binding pocket [nucleotide binding]; other site 640511003396 Sm2 motif; other site 640511003397 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 640511003398 NusA N-terminal domain; Region: NusA_N; pfam08529 640511003399 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 640511003400 RNA binding site [nucleotide binding]; other site 640511003401 homodimer interface [polypeptide binding]; other site 640511003402 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 640511003403 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 640511003404 G-X-X-G motif; other site 640511003405 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 640511003406 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 640511003407 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 640511003408 translation initiation factor IF-2; Region: IF-2; TIGR00487 640511003409 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 640511003410 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 640511003411 G1 box; other site 640511003412 putative GEF interaction site [polypeptide binding]; other site 640511003413 GTP/Mg2+ binding site [chemical binding]; other site 640511003414 Switch I region; other site 640511003415 G2 box; other site 640511003416 G3 box; other site 640511003417 Switch II region; other site 640511003418 G4 box; other site 640511003419 G5 box; other site 640511003420 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 640511003421 Translation-initiation factor 2; Region: IF-2; pfam11987 640511003422 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 640511003423 Ribosome-binding factor A; Region: RBFA; cl00542 640511003424 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 640511003425 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 640511003426 RNA binding site [nucleotide binding]; other site 640511003427 active site 640511003428 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 640511003429 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 640511003430 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511003431 putative substrate translocation pore; other site 640511003432 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511003433 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 640511003434 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 640511003435 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 640511003436 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640511003437 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640511003438 Helix-turn-helix domains; Region: HTH; cl00088 640511003439 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 640511003440 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 640511003441 G1 box; other site 640511003442 putative GEF interaction site [polypeptide binding]; other site 640511003443 GTP/Mg2+ binding site [chemical binding]; other site 640511003444 Switch I region; other site 640511003445 G2 box; other site 640511003446 G3 box; other site 640511003447 Switch II region; other site 640511003448 G4 box; other site 640511003449 G5 box; other site 640511003450 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 640511003451 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 640511003452 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 640511003453 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 640511003454 TPP-binding site [chemical binding]; other site 640511003455 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 640511003456 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 640511003457 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 640511003458 E3 interaction surface; other site 640511003459 lipoyl attachment site [posttranslational modification]; other site 640511003460 e3 binding domain; Region: E3_binding; pfam02817 640511003461 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 640511003462 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 640511003463 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640511003464 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 640511003465 Predicted ATPase [General function prediction only]; Region: COG1485 640511003466 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511003467 Walker A/P-loop; other site 640511003468 ATP binding site [chemical binding]; other site 640511003469 Q-loop/lid; other site 640511003470 Walker B; other site 640511003471 D-loop; other site 640511003472 H-loop/switch region; other site 640511003473 DDE superfamily endonuclease; Region: DDE_4; cl15789 640511003474 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 640511003475 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 640511003476 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 640511003477 Sm1 motif; other site 640511003478 D1 - D2 interaction site; other site 640511003479 D3 - B interaction site; other site 640511003480 Hfq - Hfq interaction site; other site 640511003481 RNA binding pocket [nucleotide binding]; other site 640511003482 Sm2 motif; other site 640511003483 RNA polymerase sigma factor; Provisional; Region: PRK12547 640511003484 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640511003485 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 640511003486 DNA binding residues [nucleotide binding] 640511003487 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 640511003488 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 640511003489 FAD binding domain; Region: FAD_binding_4; pfam01565 640511003490 Protein of unknown function (DUF1571); Region: DUF1571; pfam07608 640511003491 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 640511003492 AMP-binding enzyme; Region: AMP-binding; cl15778 640511003493 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 640511003494 acetyl-CoA acetyltransferase; Provisional; Region: PRK09268 640511003495 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 640511003496 dimer interface [polypeptide binding]; other site 640511003497 active site 640511003498 enoyl-CoA hydratase; Region: PLN02864 640511003499 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 640511003500 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08261 640511003501 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511003502 NAD(P) binding site [chemical binding]; other site 640511003503 active site 640511003504 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 640511003505 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640511003506 active site 640511003507 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 640511003508 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640511003509 Helix-turn-helix domains; Region: HTH; cl00088 640511003510 putative sialic acid transporter; Region: 2A0112; TIGR00891 640511003511 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511003512 putative substrate translocation pore; other site 640511003513 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 640511003514 D-inositol-3-phosphate glycosyltransferase; Region: mycothiol_MshA; TIGR03449 640511003515 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 640511003516 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 640511003517 membrane-bound complex binding site; other site 640511003518 hinge residues; other site 640511003519 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 640511003520 dimer interface [polypeptide binding]; other site 640511003521 phosphorylation site [posttranslational modification] 640511003522 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 640511003523 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511003524 ATP binding site [chemical binding]; other site 640511003525 Mg2+ binding site [ion binding]; other site 640511003526 G-X-G motif; other site 640511003527 Response regulator receiver domain; Region: Response_reg; pfam00072 640511003528 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511003529 active site 640511003530 phosphorylation site [posttranslational modification] 640511003531 intermolecular recognition site; other site 640511003532 dimerization interface [polypeptide binding]; other site 640511003533 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640511003534 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 640511003535 classical (c) SDRs; Region: SDR_c; cd05233 640511003536 NAD(P) binding site [chemical binding]; other site 640511003537 active site 640511003538 LysR family transcriptional regulator; Provisional; Region: PRK14997 640511003539 Helix-turn-helix domains; Region: HTH; cl00088 640511003540 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 640511003541 putative effector binding pocket; other site 640511003542 dimerization interface [polypeptide binding]; other site 640511003543 YCII-related domain; Region: YCII; cl00999 640511003544 Domain of unknown function (DUF336); Region: DUF336; cl01249 640511003545 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 640511003546 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 640511003547 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 640511003548 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 640511003549 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 640511003550 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640511003551 multidrug resistance protein MdtN; Provisional; Region: PRK10476 640511003552 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 640511003553 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 640511003554 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 640511003555 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 640511003556 Ion channel; Region: Ion_trans_2; cl11596 640511003557 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 640511003558 Clp amino terminal domain; Region: Clp_N; pfam02861 640511003559 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 640511003560 Walker A motif; other site 640511003561 ATP binding site [chemical binding]; other site 640511003562 Walker B motif; other site 640511003563 arginine finger; other site 640511003564 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 640511003565 Walker A motif; other site 640511003566 ATP binding site [chemical binding]; other site 640511003567 Walker B motif; other site 640511003568 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 640511003569 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 640511003570 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 640511003571 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 640511003572 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 640511003573 active site 640511003574 catalytic site [active] 640511003575 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 640511003576 homodimer interface [polypeptide binding]; other site 640511003577 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 640511003578 active site pocket [active] 640511003579 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 640511003580 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 640511003581 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 640511003582 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 640511003583 generic binding surface I; other site 640511003584 generic binding surface II; other site 640511003585 DNA Polymerase Y-family; Region: PolY_like; cd03468 640511003586 active site 640511003587 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 640511003588 DNA binding site [nucleotide binding] 640511003589 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 640511003590 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511003591 Helix-turn-helix domains; Region: HTH; cl00088 640511003592 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 640511003593 putative dimerization interface [polypeptide binding]; other site 640511003594 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 640511003595 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 640511003596 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 640511003597 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 640511003598 citrate-proton symporter; Provisional; Region: PRK15075 640511003599 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511003600 putative substrate translocation pore; other site 640511003601 Succinyl-CoA synthetase, alpha subunit [Energy production and conversion]; Region: SucD; COG0074 640511003602 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511003603 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 640511003604 oxalacetate binding site [chemical binding]; other site 640511003605 citrylCoA binding site [chemical binding]; other site 640511003606 coenzyme A binding site [chemical binding]; other site 640511003607 catalytic triad [active] 640511003608 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 640511003609 High potential iron-sulfur protein; Region: HIPIP; pfam01355 640511003610 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 640511003611 substrate binding pocket [chemical binding]; other site 640511003612 membrane-bound complex binding site; other site 640511003613 hinge residues; other site 640511003614 Cytochrome c; Region: Cytochrom_C; cl11414 640511003615 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 640511003616 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 640511003617 dimer interface [polypeptide binding]; other site 640511003618 Trp docking motif [polypeptide binding]; other site 640511003619 active site 640511003620 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 640511003621 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 640511003622 Walker A motif; other site 640511003623 ATP binding site [chemical binding]; other site 640511003624 Walker B motif; other site 640511003625 arginine finger; other site 640511003626 Helix-turn-helix domains; Region: HTH; cl00088 640511003627 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 640511003628 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640511003629 classical (c) SDRs; Region: SDR_c; cd05233 640511003630 NAD(P) binding site [chemical binding]; other site 640511003631 active site 640511003632 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 640511003633 Helix-turn-helix domains; Region: HTH; cl00088 640511003634 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 640511003635 dimerization interface [polypeptide binding]; other site 640511003636 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640511003637 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511003638 Cupin domain; Region: Cupin_2; cl09118 640511003639 classical (c) SDRs; Region: SDR_c; cd05233 640511003640 short chain dehydrogenase; Provisional; Region: PRK07041 640511003641 NAD(P) binding site [chemical binding]; other site 640511003642 active site 640511003643 short chain dehydrogenase; Provisional; Region: PRK06197 640511003644 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 640511003645 putative NAD(P) binding site [chemical binding]; other site 640511003646 active site 640511003647 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 640511003648 TIR domain; Region: TIR_2; cl15770 640511003649 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511003650 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 640511003651 structural tetrad; other site 640511003652 PQQ-like domain; Region: PQQ_2; pfam13360 640511003653 FOG: WD40 repeat [General function prediction only]; Region: COG2319 640511003654 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 640511003655 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 640511003656 structural tetrad; other site 640511003657 4Fe-4S single cluster domain; Region: Fer4_13; pfam13370 640511003658 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 640511003659 ribonuclease R; Region: RNase_R; TIGR02063 640511003660 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 640511003661 RNB domain; Region: RNB; pfam00773 640511003662 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase play an important...; Region: S1_RNase_R; cd04471 640511003663 RNA binding site [nucleotide binding]; other site 640511003664 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 640511003665 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 640511003666 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 640511003667 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 640511003668 tetramer (dimer of dimers) interface [polypeptide binding]; other site 640511003669 active site 640511003670 dimer interface [polypeptide binding]; other site 640511003671 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640511003672 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 640511003673 putative ADP-binding pocket [chemical binding]; other site 640511003674 Predicted transcription regulator containing HTH domain [Transcription]; Region: COG5499 640511003675 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 640511003676 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 640511003677 Bacterial sugar transferase; Region: Bac_transf; cl00939 640511003678 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 640511003679 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 640511003680 ligand binding site [chemical binding]; other site 640511003681 flexible hinge region; other site 640511003682 Helix-turn-helix domains; Region: HTH; cl00088 640511003683 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 640511003684 Domain of unknown function (DUF1839); Region: DUF1839; pfam08893 640511003685 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 640511003686 motif 1; other site 640511003687 dimer interface [polypeptide binding]; other site 640511003688 active site 640511003689 motif 2; other site 640511003690 motif 3; other site 640511003691 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 640511003692 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640511003693 active site 640511003694 Phosphopantetheine attachment site; Region: PP-binding; cl09936 640511003695 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 640511003696 MatE; Region: MatE; cl10513 640511003697 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640511003698 exosortase A system-associated hydrolase 1; Region: hydr1_PEP; TIGR03100 640511003699 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 640511003700 active site 640511003701 Cupin domain; Region: Cupin_2; cl09118 640511003702 Flavin Reductases; Region: FlaRed; cl00801 640511003703 Transcriptional regulators [Transcription]; Region: FadR; COG2186 640511003704 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511003705 DNA-binding site [nucleotide binding]; DNA binding site 640511003706 FCD domain; Region: FCD; cl11656 640511003707 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 640511003708 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511003709 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640511003710 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511003711 dimer interface [polypeptide binding]; other site 640511003712 conserved gate region; other site 640511003713 putative PBP binding loops; other site 640511003714 ABC-ATPase subunit interface; other site 640511003715 cystine transporter subunit; Provisional; Region: PRK11260 640511003716 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 640511003717 substrate binding pocket [chemical binding]; other site 640511003718 membrane-bound complex binding site; other site 640511003719 hinge residues; other site 640511003720 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 640511003721 quinone interaction residues [chemical binding]; other site 640511003722 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 640511003723 active site 640511003724 catalytic residues [active] 640511003725 FMN binding site [chemical binding]; other site 640511003726 substrate binding site [chemical binding]; other site 640511003727 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 640511003728 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 640511003729 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 640511003730 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 640511003731 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 640511003732 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 640511003733 nudix motif; other site 640511003734 Domain of unknown function (DUF336); Region: DUF336; cl01249 640511003735 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 640511003736 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 640511003737 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 640511003738 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511003739 NAD(P) binding site [chemical binding]; other site 640511003740 active site 640511003741 Helix-turn-helix domains; Region: HTH; cl00088 640511003742 WHG domain; Region: WHG; pfam13305 640511003743 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 640511003744 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 640511003745 substrate binding site [chemical binding]; other site 640511003746 oxyanion hole (OAH) forming residues; other site 640511003747 trimer interface [polypeptide binding]; other site 640511003748 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 640511003749 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 640511003750 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 640511003751 active site 640511003752 dimer interface [polypeptide binding]; other site 640511003753 non-prolyl cis peptide bond; other site 640511003754 insertion regions; other site 640511003755 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 640511003756 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511003757 dimer interface [polypeptide binding]; other site 640511003758 conserved gate region; other site 640511003759 putative PBP binding loops; other site 640511003760 ABC-ATPase subunit interface; other site 640511003761 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511003762 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 640511003763 Walker A/P-loop; other site 640511003764 ATP binding site [chemical binding]; other site 640511003765 Q-loop/lid; other site 640511003766 ABC transporter signature motif; other site 640511003767 Walker B; other site 640511003768 D-loop; other site 640511003769 H-loop/switch region; other site 640511003770 TOBE domain; Region: TOBE_2; cl01440 640511003771 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 640511003772 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 640511003773 FMN binding site [chemical binding]; other site 640511003774 active site 640511003775 catalytic residues [active] 640511003776 substrate binding site [chemical binding]; other site 640511003777 Protein of unknown function (DUF3820); Region: DUF3820; cl01411 640511003778 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 640511003779 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 640511003780 active site 640511003781 catalytic tetrad [active] 640511003782 hypothetical protein; Provisional; Region: PRK07079 640511003783 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_2; cd05679 640511003784 metal binding site [ion binding]; metal-binding site 640511003785 putative dimer interface [polypeptide binding]; other site 640511003786 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511003787 Helix-turn-helix domains; Region: HTH; cl00088 640511003788 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 640511003789 dimerization interface [polypeptide binding]; other site 640511003790 ABC-2 type transporter; Region: ABC2_membrane; cl11417 640511003791 nodulation ABC transporter NodI; Provisional; Region: PRK13537 640511003792 The ABCA subfamily mediates the transport of a variety of lipid compounds. Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency; Region: ABC_subfamily_A; cd03263 640511003793 Walker A/P-loop; other site 640511003794 ATP binding site [chemical binding]; other site 640511003795 Q-loop/lid; other site 640511003796 ABC transporter signature motif; other site 640511003797 Walker B; other site 640511003798 D-loop; other site 640511003799 H-loop/switch region; other site 640511003800 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 640511003801 Ligand Binding Site [chemical binding]; other site 640511003802 Protein of unknown function (DUF2939); Region: DUF2939; pfam11159 640511003803 LexA repressor; Validated; Region: PRK00215 640511003804 Helix-turn-helix domains; Region: HTH; cl00088 640511003805 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 640511003806 Catalytic site [active] 640511003807 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 640511003808 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 640511003809 sulfate transport protein; Provisional; Region: cysT; CHL00187 640511003810 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511003811 dimer interface [polypeptide binding]; other site 640511003812 conserved gate region; other site 640511003813 putative PBP binding loops; other site 640511003814 ABC-ATPase subunit interface; other site 640511003815 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511003816 dimer interface [polypeptide binding]; other site 640511003817 conserved gate region; other site 640511003818 putative PBP binding loops; other site 640511003819 ABC-ATPase subunit interface; other site 640511003820 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 640511003821 Part of the ABC transporter complex cysAWTP involved in sulfate import. Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a...; Region: ABC_CysA_sulfate_importer; cd03296 640511003822 Walker A/P-loop; other site 640511003823 ATP binding site [chemical binding]; other site 640511003824 Q-loop/lid; other site 640511003825 ABC transporter signature motif; other site 640511003826 Walker B; other site 640511003827 D-loop; other site 640511003828 H-loop/switch region; other site 640511003829 TOBE-like domain; Region: TOBE_3; pfam12857 640511003830 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12683 640511003831 Helix-turn-helix domains; Region: HTH; cl00088 640511003832 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 640511003833 substrate binding site [chemical binding]; other site 640511003834 dimerization interface [polypeptide binding]; other site 640511003835 Haemagglutinin; Region: HIM; pfam05662 640511003836 YadA-like C-terminal region; Region: YadA; pfam03895 640511003837 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 640511003838 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 640511003839 active site 640511003840 homotetramer interface [polypeptide binding]; other site 640511003841 homodimer interface [polypeptide binding]; other site 640511003842 tartronate semialdehyde reductase; Provisional; Region: PRK15059 640511003843 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511003844 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 640511003845 glyoxylate carboligase; Provisional; Region: PRK11269 640511003846 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 640511003847 PYR/PP interface [polypeptide binding]; other site 640511003848 dimer interface [polypeptide binding]; other site 640511003849 TPP binding site [chemical binding]; other site 640511003850 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 640511003851 Thiamine pyrophosphate (TPP) family, Gcl subfamily, TPP-binding module; composed of proteins similar to Escherichia coli glyoxylate carboligase (Gcl). E. coli glyoxylate carboligase, plays a key role in glyoxylate metabolism where it catalyzes the...; Region: TPP_Gcl; cd02006 640511003852 TPP-binding site [chemical binding]; other site 640511003853 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511003854 Helix-turn-helix domains; Region: HTH; cl00088 640511003855 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 640511003856 putative effector binding pocket; other site 640511003857 dimerization interface [polypeptide binding]; other site 640511003858 RNA polymerase sigma factor; Provisional; Region: PRK12533 640511003859 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640511003860 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 640511003861 DNA binding residues [nucleotide binding] 640511003862 Putative zinc-finger; Region: zf-HC2; cl15806 640511003863 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 640511003864 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 640511003865 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 640511003866 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 640511003867 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 640511003868 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 640511003869 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 640511003870 replicative DNA helicase; Provisional; Region: PRK07004 640511003871 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 640511003872 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 640511003873 Walker A motif; other site 640511003874 ATP binding site [chemical binding]; other site 640511003875 Walker B motif; other site 640511003876 DNA binding loops [nucleotide binding] 640511003877 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 640511003878 Phosphate transporter family; Region: PHO4; cl00396 640511003879 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 640511003880 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511003881 NAD(P) binding site [chemical binding]; other site 640511003882 active site 640511003883 NlpC/P60 family; Region: NLPC_P60; cl11438 640511003884 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 640511003885 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 640511003886 putative active site [active] 640511003887 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511003888 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 640511003889 catalytic triad [active] 640511003890 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 640511003891 Catalytic domain of Escherichia coli 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD and other bacterial homologs; Region: CE4_ArnD; cd10939 640511003892 putative active site [active] 640511003893 putative catalytic site [active] 640511003894 putative Zn binding site [ion binding]; other site 640511003895 NAD-dependent epimerase/dehydratase family protein; Provisional; Region: PRK11908 640511003896 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 640511003897 NAD binding site [chemical binding]; other site 640511003898 substrate binding site [chemical binding]; other site 640511003899 active site 640511003900 putative formyltransferase; Provisional; Region: PRK06988 640511003901 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 640511003902 active site 640511003903 substrate binding site [chemical binding]; other site 640511003904 cosubstrate binding site; other site 640511003905 catalytic site [active] 640511003906 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 640511003907 active site 640511003908 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 640511003909 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 640511003910 Ligand binding site; other site 640511003911 Putative Catalytic site; other site 640511003912 DXD motif; other site 640511003913 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 640511003914 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 640511003915 inhibitor-cofactor binding pocket; inhibition site 640511003916 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511003917 catalytic residue [active] 640511003918 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 640511003919 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 640511003920 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 640511003921 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 640511003922 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 640511003923 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511003924 homodimer interface [polypeptide binding]; other site 640511003925 catalytic residue [active] 640511003926 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511003927 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 640511003928 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 640511003929 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 640511003930 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants, cyanobacteria; Region: Thr-synth_2; cd01560 640511003931 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511003932 catalytic residue [active] 640511003933 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 640511003934 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 640511003935 dimer interface [polypeptide binding]; other site 640511003936 putative functional site; other site 640511003937 putative MPT binding site; other site 640511003938 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 640511003939 MoaE interaction surface [polypeptide binding]; other site 640511003940 MoeB interaction surface [polypeptide binding]; other site 640511003941 thiocarboxylated glycine; other site 640511003942 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 640511003943 MoaE homodimer interface [polypeptide binding]; other site 640511003944 MoaD interaction [polypeptide binding]; other site 640511003945 active site residues [active] 640511003946 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 640511003947 apolar tunnel; other site 640511003948 heme binding site [chemical binding]; other site 640511003949 dimerization interface [polypeptide binding]; other site 640511003950 Helix-turn-helix domains; Region: HTH; cl00088 640511003951 Rrf2 family protein; Region: rrf2_super; TIGR00738 640511003952 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 640511003953 Clp amino terminal domain; Region: Clp_N; pfam02861 640511003954 Clp amino terminal domain; Region: Clp_N; pfam02861 640511003955 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 640511003956 Walker A motif; other site 640511003957 ATP binding site [chemical binding]; other site 640511003958 Walker B motif; other site 640511003959 arginine finger; other site 640511003960 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 640511003961 Walker A motif; other site 640511003962 ATP binding site [chemical binding]; other site 640511003963 Walker B motif; other site 640511003964 arginine finger; other site 640511003965 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 640511003966 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 640511003967 Protein of unknown function, DUF655; Region: DUF655; pfam04919 640511003968 multidrug efflux protein; Reviewed; Region: PRK01766 640511003969 MatE; Region: MatE; cl10513 640511003970 MatE; Region: MatE; cl10513 640511003971 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 640511003972 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 640511003973 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; cl01267 640511003974 transcription termination factor Rho; Provisional; Region: rho; PRK09376 640511003975 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 640511003976 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 640511003977 RNA binding site [nucleotide binding]; other site 640511003978 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 640511003979 multimer interface [polypeptide binding]; other site 640511003980 Walker A motif; other site 640511003981 ATP binding site [chemical binding]; other site 640511003982 Walker B motif; other site 640511003983 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 640511003984 catalytic residues [active] 640511003985 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07003 640511003986 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 640511003987 Walker A motif; other site 640511003988 ATP binding site [chemical binding]; other site 640511003989 Walker B motif; other site 640511003990 arginine finger; other site 640511003991 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 640511003992 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 640511003993 recombination protein RecR; Reviewed; Region: recR; PRK00076 640511003994 RecR protein; Region: RecR; pfam02132 640511003995 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 640511003996 putative active site [active] 640511003997 putative metal-binding site [ion binding]; other site 640511003998 tetramer interface [polypeptide binding]; other site 640511003999 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 640511004000 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640511004001 NMT1-like family; Region: NMT1_2; cl15260 640511004002 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 640511004003 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 640511004004 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 640511004005 Walker A/P-loop; other site 640511004006 ATP binding site [chemical binding]; other site 640511004007 Q-loop/lid; other site 640511004008 ABC transporter signature motif; other site 640511004009 Walker B; other site 640511004010 D-loop; other site 640511004011 H-loop/switch region; other site 640511004012 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 640511004013 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511004014 dimer interface [polypeptide binding]; other site 640511004015 conserved gate region; other site 640511004016 putative PBP binding loops; other site 640511004017 ABC-ATPase subunit interface; other site 640511004018 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 640511004019 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 640511004020 NAD(P) binding site [chemical binding]; other site 640511004021 Survival protein SurE; Region: SurE; cl00448 640511004022 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 640511004023 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 640511004024 S-adenosylmethionine binding site [chemical binding]; other site 640511004025 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 640511004026 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 640511004027 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 640511004028 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 640511004029 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640511004030 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 640511004031 DNA binding residues [nucleotide binding] 640511004032 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 640511004033 active site 640511004034 catalytic site [active] 640511004035 substrate binding site [chemical binding]; other site 640511004036 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 640511004037 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 640511004038 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 640511004039 S-adenosylmethionine binding site [chemical binding]; other site 640511004040 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 640511004041 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 640511004042 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 640511004043 RNA binding surface [nucleotide binding]; other site 640511004044 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 640511004045 active site 640511004046 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 640511004047 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 640511004048 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 640511004049 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 640511004050 putative acyltransferase; Provisional; Region: PRK05790 640511004051 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 640511004052 dimer interface [polypeptide binding]; other site 640511004053 active site 640511004054 acetyacetyl-CoA reductase; Provisional; Region: PRK12938 640511004055 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 640511004056 NAD(P) binding site [chemical binding]; other site 640511004057 homotetramer interface [polypeptide binding]; other site 640511004058 homodimer interface [polypeptide binding]; other site 640511004059 active site 640511004060 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 640511004061 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 640511004062 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 640511004063 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 640511004064 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 640511004065 FMN binding site [chemical binding]; other site 640511004066 active site 640511004067 catalytic residues [active] 640511004068 substrate binding site [chemical binding]; other site 640511004069 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 640511004070 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 640511004071 TRAM domain; Region: TRAM; cl01282 640511004072 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 640511004073 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 640511004074 substrate binding site [chemical binding]; other site 640511004075 ATP binding site [chemical binding]; other site 640511004076 beta-ketothiolase; Provisional; Region: PRK09051 640511004077 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 640511004078 dimer interface [polypeptide binding]; other site 640511004079 active site 640511004080 cystathionine beta-lyase; Provisional; Region: PRK07050 640511004081 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 640511004082 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640511004083 catalytic residue [active] 640511004084 Domain of unknown function (DUF4072); Region: DUF4072; pfam13284 640511004085 phosphoserine phosphatase SerB; Region: serB; TIGR00338 640511004086 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 640511004087 motif II; other site 640511004088 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 640511004089 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 640511004090 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 640511004091 putative DNA binding site [nucleotide binding]; other site 640511004092 putative homodimer interface [polypeptide binding]; other site 640511004093 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 640511004094 DNA polymerase Ligase (LigD); Region: LigD_N; cl11819 640511004095 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 640511004096 active site 640511004097 DNA binding site [nucleotide binding] 640511004098 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 640511004099 DNA binding site [nucleotide binding] 640511004100 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 640511004101 nucleotide binding site [chemical binding]; other site 640511004102 transcriptional activator TtdR; Provisional; Region: PRK09801 640511004103 Helix-turn-helix domains; Region: HTH; cl00088 640511004104 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 640511004105 putative effector binding pocket; other site 640511004106 dimerization interface [polypeptide binding]; other site 640511004107 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 640511004108 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 640511004109 putative NAD(P) binding site [chemical binding]; other site 640511004110 dimer interface [polypeptide binding]; other site 640511004111 Uncharacterized protein family (UPF0014); Region: UPF0014; cl00424 640511004112 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4619 640511004113 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511004114 Walker A/P-loop; other site 640511004115 ATP binding site [chemical binding]; other site 640511004116 Q-loop/lid; other site 640511004117 ABC transporter signature motif; other site 640511004118 Walker B; other site 640511004119 D-loop; other site 640511004120 H-loop/switch region; other site 640511004121 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 640511004122 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 640511004123 AsmA-like C-terminal region; Region: AsmA_2; cl15864 640511004124 CHASE3 domain; Region: CHASE3; cl05000 640511004125 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640511004126 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 640511004127 dimer interface [polypeptide binding]; other site 640511004128 phosphorylation site [posttranslational modification] 640511004129 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511004130 ATP binding site [chemical binding]; other site 640511004131 Mg2+ binding site [ion binding]; other site 640511004132 G-X-G motif; other site 640511004133 Response regulator receiver domain; Region: Response_reg; pfam00072 640511004134 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511004135 active site 640511004136 phosphorylation site [posttranslational modification] 640511004137 intermolecular recognition site; other site 640511004138 dimerization interface [polypeptide binding]; other site 640511004139 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 640511004140 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511004141 active site 640511004142 phosphorylation site [posttranslational modification] 640511004143 intermolecular recognition site; other site 640511004144 dimerization interface [polypeptide binding]; other site 640511004145 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 640511004146 PAS fold; Region: PAS_3; pfam08447 640511004147 putative active site [active] 640511004148 heme pocket [chemical binding]; other site 640511004149 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 640511004150 dimer interface [polypeptide binding]; other site 640511004151 phosphorylation site [posttranslational modification] 640511004152 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511004153 ATP binding site [chemical binding]; other site 640511004154 Mg2+ binding site [ion binding]; other site 640511004155 G-X-G motif; other site 640511004156 Response regulator receiver domain; Region: Response_reg; pfam00072 640511004157 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511004158 active site 640511004159 phosphorylation site [posttranslational modification] 640511004160 intermolecular recognition site; other site 640511004161 dimerization interface [polypeptide binding]; other site 640511004162 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 640511004163 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 640511004164 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 640511004165 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 640511004166 tetramer interface [polypeptide binding]; other site 640511004167 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511004168 catalytic residue [active] 640511004169 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 640511004170 acetylornithine deacetylase (ArgE); Region: AcOrn-deacetyl; TIGR01892 640511004171 metal binding site [ion binding]; metal-binding site 640511004172 putative dimer interface [polypeptide binding]; other site 640511004173 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 640511004174 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 640511004175 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 640511004176 ATP binding site [chemical binding]; other site 640511004177 putative Mg++ binding site [ion binding]; other site 640511004178 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 640511004179 nucleotide binding region [chemical binding]; other site 640511004180 ATP-binding site [chemical binding]; other site 640511004181 TRCF domain; Region: TRCF; cl04088 640511004182 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 640511004183 substrate binding site; other site 640511004184 dimer interface; other site 640511004185 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 640511004186 homotrimer interaction site [polypeptide binding]; other site 640511004187 zinc binding site [ion binding]; other site 640511004188 CDP-binding sites; other site 640511004189 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 640511004190 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 640511004191 dimer interface [polypeptide binding]; other site 640511004192 decamer (pentamer of dimers) interface [polypeptide binding]; other site 640511004193 catalytic triad [active] 640511004194 peroxidatic and resolving cysteines [active] 640511004195 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 640511004196 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 640511004197 dimer interface [polypeptide binding]; other site 640511004198 phosphorylation site [posttranslational modification] 640511004199 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511004200 ATP binding site [chemical binding]; other site 640511004201 Mg2+ binding site [ion binding]; other site 640511004202 G-X-G motif; other site 640511004203 osmolarity response regulator; Provisional; Region: ompR; PRK09468 640511004204 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511004205 active site 640511004206 phosphorylation site [posttranslational modification] 640511004207 intermolecular recognition site; other site 640511004208 dimerization interface [polypeptide binding]; other site 640511004209 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 640511004210 DNA binding site [nucleotide binding] 640511004211 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4102 640511004212 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 640511004213 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 640511004214 active site lid residues [active] 640511004215 substrate binding pocket [chemical binding]; other site 640511004216 catalytic residues [active] 640511004217 substrate-Mg2+ binding site; other site 640511004218 aspartate-rich region 1; other site 640511004219 aspartate-rich region 2; other site 640511004220 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640511004221 Helix-turn-helix domains; Region: HTH; cl00088 640511004222 Helix-turn-helix domains; Region: HTH; cl00088 640511004223 Glycerate kinase family; Region: Gly_kinase; cl00841 640511004224 trigger factor; Provisional; Region: tig; PRK01490 640511004225 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 640511004226 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 640511004227 Clp protease; Region: CLP_protease; pfam00574 640511004228 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 640511004229 oligomer interface [polypeptide binding]; other site 640511004230 active site residues [active] 640511004231 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 640511004232 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 640511004233 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 640511004234 Walker A motif; other site 640511004235 ATP binding site [chemical binding]; other site 640511004236 Walker B motif; other site 640511004237 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 640511004238 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 640511004239 Found in ATP-dependent protease La (LON); Region: LON; smart00464 640511004240 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 640511004241 Walker A motif; other site 640511004242 ATP binding site [chemical binding]; other site 640511004243 Walker B motif; other site 640511004244 arginine finger; other site 640511004245 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 640511004246 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 640511004247 IHF dimer interface [polypeptide binding]; other site 640511004248 IHF - DNA interface [nucleotide binding]; other site 640511004249 periplasmic folding chaperone; Provisional; Region: PRK10788 640511004250 SurA N-terminal domain; Region: SurA_N_3; cl07813 640511004251 PPIC-type PPIASE domain; Region: Rotamase; cl08278 640511004252 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 640511004253 active site 640511004254 catalytic triad [active] 640511004255 oxyanion hole [active] 640511004256 switch loop; other site 640511004257 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 640511004258 Q-loop/lid; other site 640511004259 ABC transporter signature motif; other site 640511004260 Walker B; other site 640511004261 D-loop; other site 640511004262 H-loop/switch region; other site 640511004263 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 640511004264 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 640511004265 active site 640511004266 dimer interface [polypeptide binding]; other site 640511004267 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 640511004268 dimer interface [polypeptide binding]; other site 640511004269 active site 640511004270 putative carbohydrate kinase; Provisional; Region: PRK10565 640511004271 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 640511004272 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 640511004273 putative substrate binding site [chemical binding]; other site 640511004274 putative ATP binding site [chemical binding]; other site 640511004275 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 640511004276 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 640511004277 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 640511004278 dimerization interface [polypeptide binding]; other site 640511004279 ATP binding site [chemical binding]; other site 640511004280 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 640511004281 dimerization interface [polypeptide binding]; other site 640511004282 ATP binding site [chemical binding]; other site 640511004283 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 640511004284 putative active site [active] 640511004285 catalytic triad [active] 640511004286 SurA N-terminal domain; Region: SurA_N_3; cl07813 640511004287 PPIC-type PPIASE domain; Region: Rotamase; cl08278 640511004288 BolA-like protein; Region: BolA; cl00386 640511004289 Intracellular septation protein A; Region: IspA; cl01098 640511004290 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 640511004291 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 640511004292 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 640511004293 Uncharacterized ACR, YdiU/UPF0061 family; Region: UPF0061; pfam02696 640511004294 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 640511004295 AMP-binding enzyme; Region: AMP-binding; cl15778 640511004296 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 640511004297 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 640511004298 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 640511004299 substrate binding site [chemical binding]; other site 640511004300 oxyanion hole (OAH) forming residues; other site 640511004301 trimer interface [polypeptide binding]; other site 640511004302 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511004303 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 640511004304 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 640511004305 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 640511004306 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 640511004307 dimer interface [polypeptide binding]; other site 640511004308 active site 640511004309 Late embryogenesis abundant protein; Region: LEA_2; cl12118 640511004310 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 640511004311 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511004312 DNA-binding site [nucleotide binding]; DNA binding site 640511004313 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 640511004314 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511004315 homodimer interface [polypeptide binding]; other site 640511004316 catalytic residue [active] 640511004317 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 640511004318 CoenzymeA binding site [chemical binding]; other site 640511004319 subunit interaction site [polypeptide binding]; other site 640511004320 PHB binding site; other site 640511004321 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 640511004322 Prostaglandin dehydrogenases; Region: PGDH; cd05288 640511004323 NAD(P) binding site [chemical binding]; other site 640511004324 substrate binding site [chemical binding]; other site 640511004325 dimer interface [polypeptide binding]; other site 640511004326 hypothetical protein; Provisional; Region: PRK06194 640511004327 classical (c) SDRs; Region: SDR_c; cd05233 640511004328 NAD(P) binding site [chemical binding]; other site 640511004329 active site 640511004330 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 640511004331 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 640511004332 substrate binding pocket [chemical binding]; other site 640511004333 NRDE protein; Region: NRDE; cl01315 640511004334 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 640511004335 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 640511004336 YceG-like family; Region: YceG; pfam02618 640511004337 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 640511004338 dimerization interface [polypeptide binding]; other site 640511004339 thymidylate kinase; Validated; Region: tmk; PRK00698 640511004340 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 640511004341 TMP-binding site; other site 640511004342 ATP-binding site [chemical binding]; other site 640511004343 DNA polymerase III subunit delta'; Validated; Region: PRK06964 640511004344 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511004345 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 640511004346 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640511004347 Coenzyme A binding pocket [chemical binding]; other site 640511004348 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 640511004349 active site 640511004350 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 640511004351 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 640511004352 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 640511004353 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 640511004354 Mechanosensitive ion channel; Region: MS_channel; pfam00924 640511004355 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 640511004356 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 640511004357 active site 640511004358 homotetramer interface [polypeptide binding]; other site 640511004359 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 640511004360 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640511004361 putative ADP-binding pocket [chemical binding]; other site 640511004362 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 640511004363 Domain of unknown function DUF221; Region: DUF221; pfam02714 640511004364 hypothetical protein; Provisional; Region: PRK11505 640511004365 psiF repeat; Region: PsiF_repeat; pfam07769 640511004366 psiF repeat; Region: PsiF_repeat; pfam07769 640511004367 YCII-related domain; Region: YCII; cl00999 640511004368 DDE superfamily endonuclease; Region: DDE_4; cl15789 640511004369 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 640511004370 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 640511004371 Substrate binding site; other site 640511004372 Cupin domain; Region: Cupin_2; cl09118 640511004373 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 640511004374 Bacterial sugar transferase; Region: Bac_transf; cl00939 640511004375 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 640511004376 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 640511004377 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511004378 Low molecular weight phosphatase family; Region: LMWPc; cd00115 640511004379 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 640511004380 active site 640511004381 polysaccharide export protein Wza; Provisional; Region: PRK15078 640511004382 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 640511004383 SLBB domain; Region: SLBB; pfam10531 640511004384 tyrosine kinase; Provisional; Region: PRK11519 640511004385 Chain length determinant protein; Region: Wzz; cl15801 640511004386 Chain length determinant protein; Region: Wzz; cl15801 640511004387 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511004388 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 640511004389 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 640511004390 DXD motif; other site 640511004391 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 640511004392 O-Antigen ligase; Region: Wzy_C; cl04850 640511004393 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 640511004394 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 640511004395 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 640511004396 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 640511004397 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 640511004398 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 640511004399 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 640511004400 putative binding surface; other site 640511004401 active site 640511004402 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511004403 ATP binding site [chemical binding]; other site 640511004404 Mg2+ binding site [ion binding]; other site 640511004405 G-X-G motif; other site 640511004406 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 640511004407 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640511004408 putative CheW interface [polypeptide binding]; other site 640511004409 Chemotaxis phosphatase CheX; Region: CheX; cl15816 640511004410 Response regulator receiver domain; Region: Response_reg; pfam00072 640511004411 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511004412 active site 640511004413 phosphorylation site [posttranslational modification] 640511004414 intermolecular recognition site; other site 640511004415 dimerization interface [polypeptide binding]; other site 640511004416 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 640511004417 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 640511004418 NADP-binding site; other site 640511004419 homotetramer interface [polypeptide binding]; other site 640511004420 substrate binding site [chemical binding]; other site 640511004421 homodimer interface [polypeptide binding]; other site 640511004422 active site 640511004423 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 640511004424 active site 640511004425 catalytic triad [active] 640511004426 oxyanion hole [active] 640511004427 OpgC protein; Region: OpgC_C; cl00792 640511004428 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 640511004429 MatE; Region: MatE; cl10513 640511004430 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640511004431 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 640511004432 putative ADP-binding pocket [chemical binding]; other site 640511004433 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640511004434 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 640511004435 OpgC protein; Region: OpgC_C; cl00792 640511004436 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 640511004437 active site 640511004438 tetramer interface; other site 640511004439 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 640511004440 active site 640511004441 Domain of unknown function (DUF336); Region: DUF336; cl01249 640511004442 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 640511004443 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 640511004444 MOSC domain; Region: MOSC; pfam03473 640511004445 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 640511004446 nitrite reductase subunit NirD; Provisional; Region: PRK14989 640511004447 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640511004448 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 640511004449 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 640511004450 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 640511004451 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 640511004452 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 640511004453 [4Fe-4S] binding site [ion binding]; other site 640511004454 molybdopterin cofactor binding site; other site 640511004455 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 640511004456 molybdopterin cofactor binding site; other site 640511004457 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 640511004458 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 640511004459 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 640511004460 FAD binding pocket [chemical binding]; other site 640511004461 FAD binding motif [chemical binding]; other site 640511004462 catalytic residues [active] 640511004463 NAD binding pocket [chemical binding]; other site 640511004464 phosphate binding motif [ion binding]; other site 640511004465 beta-alpha-beta structure motif; other site 640511004466 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 640511004467 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511004468 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_5; cd08898 640511004469 putative hydrophobic ligand binding site [chemical binding]; other site 640511004470 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 640511004471 dimerization interface [polypeptide binding]; other site 640511004472 putative DNA binding site [nucleotide binding]; other site 640511004473 putative Zn2+ binding site [ion binding]; other site 640511004474 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 640511004475 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 640511004476 S-adenosylmethionine binding site [chemical binding]; other site 640511004477 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511004478 Helix-turn-helix domains; Region: HTH; cl00088 640511004479 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 640511004480 putative dimerization interface [polypeptide binding]; other site 640511004481 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 640511004482 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 640511004483 putative C-terminal domain interface [polypeptide binding]; other site 640511004484 putative GSH binding site (G-site) [chemical binding]; other site 640511004485 putative dimer interface [polypeptide binding]; other site 640511004486 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 640511004487 putative N-terminal domain interface [polypeptide binding]; other site 640511004488 putative dimer interface [polypeptide binding]; other site 640511004489 putative substrate binding pocket (H-site) [chemical binding]; other site 640511004490 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 640511004491 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 640511004492 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511004493 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 640511004494 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 640511004495 Transglycosylase; Region: Transgly; cl07896 640511004496 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 640511004497 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511004498 D-galactonate transporter; Region: 2A0114; TIGR00893 640511004499 putative substrate translocation pore; other site 640511004500 Cupin domain; Region: Cupin_2; cl09118 640511004501 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 640511004502 transcriptional regulator RcsB; Provisional; Region: PRK10840 640511004503 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511004504 active site 640511004505 phosphorylation site [posttranslational modification] 640511004506 intermolecular recognition site; other site 640511004507 dimerization interface [polypeptide binding]; other site 640511004508 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 640511004509 DNA binding residues [nucleotide binding] 640511004510 dimerization interface [polypeptide binding]; other site 640511004511 Phospholipid methyltransferase; Region: PEMT; cl00763 640511004512 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 640511004513 classical (c) SDRs; Region: SDR_c; cd05233 640511004514 NAD(P) binding site [chemical binding]; other site 640511004515 active site 640511004516 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 640511004517 homotrimer interaction site [polypeptide binding]; other site 640511004518 putative active site [active] 640511004519 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 640511004520 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 640511004521 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640511004522 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640511004523 Helix-turn-helix domains; Region: HTH; cl00088 640511004524 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 640511004525 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511004526 putative substrate translocation pore; other site 640511004527 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511004528 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 640511004529 classical (c) SDRs; Region: SDR_c; cd05233 640511004530 NAD(P) binding site [chemical binding]; other site 640511004531 active site 640511004532 Helix-turn-helix domains; Region: HTH; cl00088 640511004533 LysR family transcriptional regulator; Provisional; Region: PRK14997 640511004534 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 640511004535 putative effector binding pocket; other site 640511004536 dimerization interface [polypeptide binding]; other site 640511004537 Nitronate monooxygenase; Region: NMO; pfam03060 640511004538 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 640511004539 FMN binding site [chemical binding]; other site 640511004540 substrate binding site [chemical binding]; other site 640511004541 putative catalytic residue [active] 640511004542 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511004543 putative substrate translocation pore; other site 640511004544 Helix-turn-helix domains; Region: HTH; cl00088 640511004545 LysR family transcriptional regulator; Provisional; Region: PRK14997 640511004546 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 640511004547 putative dimerization interface [polypeptide binding]; other site 640511004548 putative effector binding pocket; other site 640511004549 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 640511004550 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 640511004551 Beta-Casp domain; Region: Beta-Casp; cl12567 640511004552 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 640511004553 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 640511004554 BON domain; Region: BON; cl02771 640511004555 BON domain; Region: BON; cl02771 640511004556 BON domain; Region: BON; cl02771 640511004557 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 640511004558 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 640511004559 putative dimer interface [polypeptide binding]; other site 640511004560 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 640511004561 Ion channel; Region: Ion_trans_2; cl11596 640511004562 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 640511004563 Chromate transporter; Region: Chromate_transp; pfam02417 640511004564 Chromate transporter; Region: Chromate_transp; pfam02417 640511004565 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH2; cd08286 640511004566 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 640511004567 catalytic Zn binding site [ion binding]; other site 640511004568 structural Zn binding site [ion binding]; other site 640511004569 NAD(P) binding site [chemical binding]; other site 640511004570 transcriptional regulator EutR; Provisional; Region: PRK10130 640511004571 Phosphotransferase enzyme family; Region: APH; pfam01636 640511004572 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 640511004573 active site 640511004574 ATP binding site [chemical binding]; other site 640511004575 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 640511004576 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 640511004577 inhibitor-cofactor binding pocket; inhibition site 640511004578 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511004579 catalytic residue [active] 640511004580 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 640511004581 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640511004582 NAD(P) binding site [chemical binding]; other site 640511004583 catalytic residues [active] 640511004584 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 640511004585 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 640511004586 Protein export membrane protein; Region: SecD_SecF; cl14618 640511004587 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 640511004588 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 640511004589 Cytochrome c; Region: Cytochrom_C; cl11414 640511004590 Cytochrome c; Region: Cytochrom_C; cl11414 640511004591 Methylamine dehydrogenase, L chain; Region: Me-amine-dh_L; cl03812 640511004592 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 640511004593 DoxX; Region: DoxX; cl00976 640511004594 methylamine dehydrogenase (amicyanin) heavy chain; Region: TTQ_MADH_Hv; TIGR02658 640511004595 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 640511004596 non-specific DNA binding site [nucleotide binding]; other site 640511004597 salt bridge; other site 640511004598 sequence-specific DNA binding site [nucleotide binding]; other site 640511004599 Uncharacterized conserved protein [Function unknown]; Region: COG2128 640511004600 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 640511004601 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD_like; cd08296 640511004602 putative NAD(P) binding site [chemical binding]; other site 640511004603 putative substrate binding site [chemical binding]; other site 640511004604 catalytic Zn binding site [ion binding]; other site 640511004605 structural Zn binding site [ion binding]; other site 640511004606 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 640511004607 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 640511004608 dimer interface [polypeptide binding]; other site 640511004609 active site 640511004610 heme binding site [chemical binding]; other site 640511004611 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 640511004612 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 640511004613 Int/Topo IB signature motif; other site 640511004614 Domain of unknown function (DUF2760); Region: DUF2760; pfam10816 640511004615 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 640511004616 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 640511004617 DNA-K related protein; Region: DUF3731; pfam12531 640511004618 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 640511004619 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640511004620 Helix-turn-helix domains; Region: HTH; cl00088 640511004621 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 640511004622 dimerization interface [polypeptide binding]; other site 640511004623 substrate binding pocket [chemical binding]; other site 640511004624 3HB-oligomer hydrolase (3HBOH); Region: 3HBOH; pfam10605 640511004625 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 640511004626 homotrimer interaction site [polypeptide binding]; other site 640511004627 putative active site [active] 640511004628 Predicted soluble lytic transglycosylase fused to an ABC-type amino acid-binding protein [Cell envelope biogenesis, outer membrane]; Region: COG4623 640511004629 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 640511004630 substrate binding pocket [chemical binding]; other site 640511004631 membrane-bound complex binding site; other site 640511004632 hinge residues; other site 640511004633 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 640511004634 N-acetyl-D-glucosamine binding site [chemical binding]; other site 640511004635 catalytic residue [active] 640511004636 GAF domain; Region: GAF; cl15785 640511004637 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640511004638 metal binding site [ion binding]; metal-binding site 640511004639 active site 640511004640 I-site; other site 640511004641 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 640511004642 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 640511004643 Ligand Binding Site [chemical binding]; other site 640511004644 cytosine deaminase; Provisional; Region: PRK05985 640511004645 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 640511004646 active site 640511004647 Helix-turn-helix domains; Region: HTH; cl00088 640511004648 LysR family transcriptional regulator; Provisional; Region: PRK14997 640511004649 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 640511004650 putative effector binding pocket; other site 640511004651 dimerization interface [polypeptide binding]; other site 640511004652 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 640511004653 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 640511004654 active site 640511004655 motif I; other site 640511004656 motif II; other site 640511004657 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 640511004658 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 640511004659 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640511004660 catalytic residue [active] 640511004661 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 640511004662 Helix-turn-helix domains; Region: HTH; cl00088 640511004663 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 640511004664 dimerization interface [polypeptide binding]; other site 640511004665 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 640511004666 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511004667 NAD(P) binding site [chemical binding]; other site 640511004668 active site 640511004669 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 640511004670 Helix-turn-helix domains; Region: HTH; cl00088 640511004671 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 640511004672 dimerizarion interface [polypeptide binding]; other site 640511004673 CrgA pocket; other site 640511004674 substrate binding pocket [chemical binding]; other site 640511004675 Bacterial Ig-like domain; Region: Big_5; cl01012 640511004676 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 640511004677 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 640511004678 NMT1-like family; Region: NMT1_2; cl15260 640511004679 FinO bacterial conjugation repressor domain; the basic protein FinO is part of the the two component FinOP system which is responsible for repressing bacterial conjugation; the FinOP system represses the transfer (tra) operon of the F-plasmid which...; Region: FinO_conjug_rep; cl15270 640511004680 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640511004681 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 640511004682 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 640511004683 dimer interface [polypeptide binding]; other site 640511004684 phosphorylation site [posttranslational modification] 640511004685 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511004686 ATP binding site [chemical binding]; other site 640511004687 Mg2+ binding site [ion binding]; other site 640511004688 G-X-G motif; other site 640511004689 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 640511004690 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511004691 active site 640511004692 phosphorylation site [posttranslational modification] 640511004693 intermolecular recognition site; other site 640511004694 dimerization interface [polypeptide binding]; other site 640511004695 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 640511004696 DNA binding site [nucleotide binding] 640511004697 hopanoid biosynthesis associated protein HpnK and similar proteins; Region: YdjC_HpnK_like; cd10804 640511004698 putative active site [active] 640511004699 YdjC motif; other site 640511004700 Mg binding site [ion binding]; other site 640511004701 putative homodimer interface [polypeptide binding]; other site 640511004702 hopanoid biosynthesis associated glycosyl transferase protein HpnI; Region: HpnI; TIGR03472 640511004703 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 640511004704 ligand binding site; other site 640511004705 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 640511004706 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511004707 active site 640511004708 phosphorylation site [posttranslational modification] 640511004709 intermolecular recognition site; other site 640511004710 dimerization interface [polypeptide binding]; other site 640511004711 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 640511004712 DNA binding site [nucleotide binding] 640511004713 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640511004714 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 640511004715 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 640511004716 dimer interface [polypeptide binding]; other site 640511004717 phosphorylation site [posttranslational modification] 640511004718 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511004719 ATP binding site [chemical binding]; other site 640511004720 G-X-G motif; other site 640511004721 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 640511004722 hopanoid biosynthesis associated glycosyl transferase protein HpnI; Region: HpnI; TIGR03472 640511004723 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 640511004724 ligand binding site; other site 640511004725 hopanoid biosynthesis associated radical SAM protein HpnJ; Region: HpnJ; TIGR03471 640511004726 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 640511004727 B12 binding site [chemical binding]; other site 640511004728 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 640511004729 FeS/SAM binding site; other site 640511004730 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 640511004731 DNA-binding site [nucleotide binding]; DNA binding site 640511004732 RNA-binding motif; other site 640511004733 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640511004734 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 640511004735 tetramerization interface [polypeptide binding]; other site 640511004736 NAD(P) binding site [chemical binding]; other site 640511004737 catalytic residues [active] 640511004738 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 640511004739 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 640511004740 2-keto-3-deoxygluconate permease; Region: KdgT; cl14653 640511004741 KduI/IolB family; Region: KduI; cl01508 640511004742 2-deoxy-D-gluconate 3-dehydrogenase; Region: kduD; TIGR01832 640511004743 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 640511004744 NADP binding site [chemical binding]; other site 640511004745 homodimer interface [polypeptide binding]; other site 640511004746 active site 640511004747 DNA-binding transcriptional regulator KdgR; Provisional; Region: PRK15090 640511004748 Helix-turn-helix domains; Region: HTH; cl00088 640511004749 Bacterial transcriptional regulator; Region: IclR; pfam01614 640511004750 benzoate transport; Region: 2A0115; TIGR00895 640511004751 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511004752 putative substrate translocation pore; other site 640511004753 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511004754 Cupin domain; Region: Cupin_2; cl09118 640511004755 Helix-turn-helix domain; Region: HTH_18; pfam12833 640511004756 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511004757 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 640511004758 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511004759 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511004760 threonine dehydratase; Reviewed; Region: PRK09224 640511004761 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 640511004762 tetramer interface [polypeptide binding]; other site 640511004763 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511004764 catalytic residue [active] 640511004765 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 640511004766 putative Ile/Val binding site [chemical binding]; other site 640511004767 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 640511004768 putative Ile/Val binding site [chemical binding]; other site 640511004769 Type IV secretory pathway, VirJ component [Intracellular trafficking and secretion]; Region: VirJ; COG3946 640511004770 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 640511004771 Predicted integral membrane protein [Function unknown]; Region: COG0392 640511004772 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 640511004773 Uncharacterized conserved protein [Function unknown]; Region: COG2898 640511004774 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 640511004775 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511004776 putative transporter; Provisional; Region: PRK10504 640511004777 putative substrate translocation pore; other site 640511004778 Protein of unknown function (DUF421); Region: DUF421; cl00990 640511004779 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 640511004780 active site 640511004781 Nodulation protein S (NodS); Region: NodS; pfam05401 640511004782 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640511004783 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 640511004784 PAS domain; Region: PAS_9; pfam13426 640511004785 putative active site [active] 640511004786 heme pocket [chemical binding]; other site 640511004787 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 640511004788 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 640511004789 putative active site [active] 640511004790 heme pocket [chemical binding]; other site 640511004791 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 640511004792 dimer interface [polypeptide binding]; other site 640511004793 phosphorylation site [posttranslational modification] 640511004794 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511004795 ATP binding site [chemical binding]; other site 640511004796 Mg2+ binding site [ion binding]; other site 640511004797 G-X-G motif; other site 640511004798 Response regulator receiver domain; Region: Response_reg; pfam00072 640511004799 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511004800 active site 640511004801 phosphorylation site [posttranslational modification] 640511004802 intermolecular recognition site; other site 640511004803 dimerization interface [polypeptide binding]; other site 640511004804 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 640511004805 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511004806 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640511004807 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 640511004808 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511004809 Helix-turn-helix domains; Region: HTH; cl00088 640511004810 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 640511004811 dimerization interface [polypeptide binding]; other site 640511004812 putative transporter; Provisional; Region: PRK10504 640511004813 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511004814 putative substrate translocation pore; other site 640511004815 transcriptional regulator; Provisional; Region: PRK10632 640511004816 Helix-turn-helix domains; Region: HTH; cl00088 640511004817 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 640511004818 putative effector binding pocket; other site 640511004819 dimerization interface [polypeptide binding]; other site 640511004820 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 640511004821 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 640511004822 active site 640511004823 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 640511004824 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511004825 putative substrate translocation pore; other site 640511004826 SpoVR family protein; Provisional; Region: PRK11767 640511004827 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 640511004828 Uncharacterized conserved protein [Function unknown]; Region: COG2718 640511004829 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 640511004830 PrkA family serine protein kinase; Provisional; Region: PRK15455 640511004831 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511004832 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 640511004833 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 640511004834 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 640511004835 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 640511004836 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 640511004837 dimerization interface [polypeptide binding]; other site 640511004838 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640511004839 dimer interface [polypeptide binding]; other site 640511004840 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 640511004841 putative CheW interface [polypeptide binding]; other site 640511004842 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 640511004843 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 640511004844 substrate binding site [chemical binding]; other site 640511004845 dimer interface [polypeptide binding]; other site 640511004846 ATP binding site [chemical binding]; other site 640511004847 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640511004848 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640511004849 DNA binding site [nucleotide binding] 640511004850 domain linker motif; other site 640511004851 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 640511004852 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 640511004853 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 640511004854 TM-ABC transporter signature motif; other site 640511004855 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 640511004856 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 640511004857 Walker A/P-loop; other site 640511004858 ATP binding site [chemical binding]; other site 640511004859 Q-loop/lid; other site 640511004860 ABC transporter signature motif; other site 640511004861 Walker B; other site 640511004862 D-loop; other site 640511004863 H-loop/switch region; other site 640511004864 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 640511004865 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 640511004866 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640511004867 ligand binding site [chemical binding]; other site 640511004868 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 640511004869 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 640511004870 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 640511004871 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 640511004872 AAA domain; Region: AAA_33; pfam13671 640511004873 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511004874 Walker A motif; other site 640511004875 ATP binding site [chemical binding]; other site 640511004876 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 640511004877 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511004878 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 640511004879 Helix-turn-helix domains; Region: HTH; cl00088 640511004880 AsnC family; Region: AsnC_trans_reg; pfam01037 640511004881 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 640511004882 PGDYG protein; Region: PGDYG; pfam14083 640511004883 Protein of unknown function (DUF3022); Region: DUF3022; pfam11226 640511004884 Putative membrane peptidase family (DUF2324); Region: DUF2324; cl01810 640511004885 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640511004886 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 640511004887 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 640511004888 putative dimerization interface [polypeptide binding]; other site 640511004889 putative ligand binding site [chemical binding]; other site 640511004890 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 640511004891 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511004892 D-galactonate transporter; Region: 2A0114; TIGR00893 640511004893 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511004894 putative substrate translocation pore; other site 640511004895 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 640511004896 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 640511004897 substrate binding site [chemical binding]; other site 640511004898 ATP binding site [chemical binding]; other site 640511004899 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 640511004900 Helix-turn-helix domains; Region: HTH; cl00088 640511004901 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 640511004902 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 640511004903 putative dimerization interface [polypeptide binding]; other site 640511004904 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 640511004905 glutathione s-transferase; Provisional; Region: PTZ00057 640511004906 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 640511004907 C-terminal, alpha helical domain of Class Sigma-like Glutathione S-transferases; Region: GST_C_Sigma_like; cd03192 640511004908 dimer interface [polypeptide binding]; other site 640511004909 N-terminal domain interface [polypeptide binding]; other site 640511004910 substrate binding pocket (H-site) [chemical binding]; other site 640511004911 putative voltage-gated ClC-type chloride channel ClcB; Provisional; Region: PRK01862 640511004912 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 640511004913 Cl- selectivity filter; other site 640511004914 Cl- binding residues [ion binding]; other site 640511004915 pore gating glutamate residue; other site 640511004916 dimer interface [polypeptide binding]; other site 640511004917 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 640511004918 Phospholipase B; Region: Phospholip_B; pfam04916 640511004919 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 640511004920 transcriptional regulator; Provisional; Region: PRK10632 640511004921 Helix-turn-helix domains; Region: HTH; cl00088 640511004922 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 640511004923 putative effector binding pocket; other site 640511004924 dimerization interface [polypeptide binding]; other site 640511004925 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640511004926 Helix-turn-helix domains; Region: HTH; cl00088 640511004927 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 640511004928 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 640511004929 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 640511004930 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 640511004931 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640511004932 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 640511004933 Transglycosylase; Region: Transgly; cl07896 640511004934 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 640511004935 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 640511004936 Tetratricopeptide repeat; Region: TPR_16; pfam13432 640511004937 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 640511004938 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 640511004939 Helix-turn-helix domains; Region: HTH; cl00088 640511004940 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 640511004941 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511004942 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 640511004943 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511004944 dimer interface [polypeptide binding]; other site 640511004945 conserved gate region; other site 640511004946 putative PBP binding loops; other site 640511004947 ABC-ATPase subunit interface; other site 640511004948 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 640511004949 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511004950 dimer interface [polypeptide binding]; other site 640511004951 conserved gate region; other site 640511004952 putative PBP binding loops; other site 640511004953 ABC-ATPase subunit interface; other site 640511004954 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 640511004955 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511004956 Walker A/P-loop; other site 640511004957 ATP binding site [chemical binding]; other site 640511004958 Q-loop/lid; other site 640511004959 ABC transporter signature motif; other site 640511004960 Walker B; other site 640511004961 D-loop; other site 640511004962 H-loop/switch region; other site 640511004963 TOBE domain; Region: TOBE_2; cl01440 640511004964 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 640511004965 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 640511004966 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 640511004967 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 640511004968 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 640511004969 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 640511004970 ligand binding site [chemical binding]; other site 640511004971 active site 640511004972 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 640511004973 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511004974 Walker A/P-loop; other site 640511004975 ATP binding site [chemical binding]; other site 640511004976 Q-loop/lid; other site 640511004977 ABC transporter signature motif; other site 640511004978 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 640511004979 Walker B; other site 640511004980 D-loop; other site 640511004981 H-loop/switch region; other site 640511004982 ABC transporter; Region: ABC_tran_2; pfam12848 640511004983 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 640511004984 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 640511004985 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511004986 Dodecin; Region: Dodecin; cl01328 640511004987 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 640511004988 putative ligand binding site [chemical binding]; other site 640511004989 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 640511004990 TM-ABC transporter signature motif; other site 640511004991 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 640511004992 TM-ABC transporter signature motif; other site 640511004993 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 640511004994 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 640511004995 Walker A/P-loop; other site 640511004996 ATP binding site [chemical binding]; other site 640511004997 Q-loop/lid; other site 640511004998 ABC transporter signature motif; other site 640511004999 Walker B; other site 640511005000 D-loop; other site 640511005001 H-loop/switch region; other site 640511005002 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 640511005003 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511005004 Helix-turn-helix domains; Region: HTH; cl00088 640511005005 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 640511005006 putative substrate binding pocket [chemical binding]; other site 640511005007 putative dimerization interface [polypeptide binding]; other site 640511005008 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 640511005009 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 640511005010 active site 640511005011 putative substrate binding pocket [chemical binding]; other site 640511005012 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 640511005013 active site 640511005014 homotetramer interface [polypeptide binding]; other site 640511005015 Predicted membrane protein [Function unknown]; Region: COG3748 640511005016 Protein of unknown function (DUF989); Region: DUF989; pfam06181 640511005017 Cytochrome c; Region: Cytochrom_C; cl11414 640511005018 HipA N-terminal domain; Region: Couple_hipA; cl11853 640511005019 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 640511005020 HipA-like N-terminal domain; Region: HipA_N; pfam07805 640511005021 HipA-like C-terminal domain; Region: HipA_C; pfam07804 640511005022 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 640511005023 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; cl01250 640511005024 allantoicase; Provisional; Region: PRK13257 640511005025 Allantoicase repeat; Region: Allantoicase; pfam03561 640511005026 Allantoicase repeat; Region: Allantoicase; pfam03561 640511005027 OHCU decarboxylase; Region: OHCU_decarbox; cl01251 640511005028 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 640511005029 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 640511005030 active site 640511005031 catalytic site [active] 640511005032 tetramer interface [polypeptide binding]; other site 640511005033 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 640511005034 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 640511005035 Na binding site [ion binding]; other site 640511005036 putative substrate binding site [chemical binding]; other site 640511005037 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511005038 DNA-binding site [nucleotide binding]; DNA binding site 640511005039 FCD domain; Region: FCD; cl11656 640511005040 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 640511005041 dimer interface [polypeptide binding]; other site 640511005042 catalytic triad [active] 640511005043 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 640511005044 nucleoside/Zn binding site; other site 640511005045 dimer interface [polypeptide binding]; other site 640511005046 catalytic motif [active] 640511005047 Domain of unknown function (DUF1992); Region: DUF1992; cl08096 640511005048 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 640511005049 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 640511005050 GMP synthase; Reviewed; Region: guaA; PRK00074 640511005051 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 640511005052 AMP/PPi binding site [chemical binding]; other site 640511005053 candidate oxyanion hole; other site 640511005054 catalytic triad [active] 640511005055 potential glutamine specificity residues [chemical binding]; other site 640511005056 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 640511005057 ATP Binding subdomain [chemical binding]; other site 640511005058 Ligand Binding sites [chemical binding]; other site 640511005059 Dimerization subdomain; other site 640511005060 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 640511005061 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 640511005062 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a key...; Region: CBS_pair_IMPDH; cd04601 640511005063 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the guanine...; Region: IMPDH; cd00381 640511005064 active site 640511005065 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 640511005066 EamA-like transporter family; Region: EamA; cl01037 640511005067 The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information...; Region: TGS; cl15768 640511005068 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 640511005069 putative coenzyme Q binding site [chemical binding]; other site 640511005070 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 640511005071 SmpB-tmRNA interface; other site 640511005072 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 640511005073 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 640511005074 phosphoenolpyruvate synthase; Validated; Region: PRK06464 640511005075 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 640511005076 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 640511005077 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 640511005078 Kinase/pyrophosphorylase; Region: Kinase-PPPase; cl00780 640511005079 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 640511005080 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 640511005081 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 640511005082 RNA/DNA hybrid binding site [nucleotide binding]; other site 640511005083 active site 640511005084 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 640511005085 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 640511005086 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 640511005087 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 640511005088 active site 640511005089 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 640511005090 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 640511005091 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 640511005092 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 640511005093 trimer interface [polypeptide binding]; other site 640511005094 active site 640511005095 UDP-GlcNAc binding site [chemical binding]; other site 640511005096 lipid binding site [chemical binding]; lipid-binding site 640511005097 periplasmic chaperone; Provisional; Region: PRK10780 640511005098 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 640511005099 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 640511005100 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 640511005101 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 640511005102 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 640511005103 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 640511005104 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 640511005105 Surface antigen; Region: Bac_surface_Ag; cl03097 640511005106 zinc metallopeptidase RseP; Provisional; Region: PRK10779 640511005107 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 640511005108 active site 640511005109 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 640511005110 protein binding site [polypeptide binding]; other site 640511005111 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 640511005112 putative substrate binding region [chemical binding]; other site 640511005113 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 640511005114 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 640511005115 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 640511005116 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 640511005117 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 640511005118 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 640511005119 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 640511005120 catalytic residue [active] 640511005121 putative FPP diphosphate binding site; other site 640511005122 putative FPP binding hydrophobic cleft; other site 640511005123 dimer interface [polypeptide binding]; other site 640511005124 putative IPP diphosphate binding site; other site 640511005125 ribosome recycling factor; Reviewed; Region: frr; PRK00083 640511005126 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are 'recycled' and ready for another round of...; Region: RRF; cd00520 640511005127 hinge region; other site 640511005128 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 640511005129 putative nucleotide binding site [chemical binding]; other site 640511005130 uridine monophosphate binding site [chemical binding]; other site 640511005131 homohexameric interface [polypeptide binding]; other site 640511005132 elongation factor Ts; Provisional; Region: tsf; PRK09377 640511005133 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 640511005134 Elongation factor TS; Region: EF_TS; pfam00889 640511005135 Elongation factor TS; Region: EF_TS; pfam00889 640511005136 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 640511005137 rRNA interaction site [nucleotide binding]; other site 640511005138 S8 interaction site; other site 640511005139 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 640511005140 active site 640511005141 PII uridylyl-transferase; Provisional; Region: PRK03059 640511005142 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 640511005143 metal binding triad; other site 640511005144 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 640511005145 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 640511005146 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 640511005147 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 640511005148 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 640511005149 active site 640511005150 catalytic residues [active] 640511005151 metal binding site [ion binding]; metal-binding site 640511005152 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 640511005153 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 640511005154 nucleotide binding pocket [chemical binding]; other site 640511005155 K-X-D-G motif; other site 640511005156 catalytic site [active] 640511005157 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 640511005158 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 640511005159 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 640511005160 Dimer interface [polypeptide binding]; other site 640511005161 BRCT sequence motif; other site 640511005162 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 640511005163 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 640511005164 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 640511005165 Walker A/P-loop; other site 640511005166 ATP binding site [chemical binding]; other site 640511005167 Q-loop/lid; other site 640511005168 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 640511005169 Q-loop/lid; other site 640511005170 ABC transporter signature motif; other site 640511005171 Walker B; other site 640511005172 D-loop; other site 640511005173 H-loop/switch region; other site 640511005174 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 640511005175 EamA-like transporter family; Region: EamA; cl01037 640511005176 succinyldiaminopimelate transaminase; Region: DapC_gpp; TIGR03538 640511005177 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 640511005178 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511005179 homodimer interface [polypeptide binding]; other site 640511005180 catalytic residue [active] 640511005181 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 640511005182 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 640511005183 trimer interface [polypeptide binding]; other site 640511005184 active site 640511005185 substrate binding site [chemical binding]; other site 640511005186 CoA binding site [chemical binding]; other site 640511005187 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 640511005188 ArsC family; Region: ArsC; pfam03960 640511005189 putative catalytic residues [active] 640511005190 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 640511005191 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 640511005192 metal binding site [ion binding]; metal-binding site 640511005193 dimer interface [polypeptide binding]; other site 640511005194 HemK family putative methylases; Region: hemK_fam; TIGR00536 640511005195 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 640511005196 S-adenosylmethionine binding site [chemical binding]; other site 640511005197 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 640511005198 Putative catalytic domain, repeat 1, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_1; cd09155 640511005199 putative active site [active] 640511005200 catalytic site [active] 640511005201 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 640511005202 putative active site [active] 640511005203 catalytic site [active] 640511005204 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 640511005205 catalytic residues [active] 640511005206 dimer interface [polypeptide binding]; other site 640511005207 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 640511005208 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 640511005209 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 640511005210 ABC transporter; Region: ABC_tran_2; pfam12848 640511005211 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 640511005212 mesaconyl-CoA isomerase; Region: mesacon_CoA_iso; TIGR04253 640511005213 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640511005214 Protein of unknown function (DUF2866); Region: DUF2866; pfam11065 640511005215 DNA repair protein RadA; Provisional; Region: PRK11823 640511005216 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 640511005217 Walker A motif/ATP binding site; other site 640511005218 ATP binding site [chemical binding]; other site 640511005219 Walker B motif; other site 640511005220 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 640511005221 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 640511005222 alanine racemase; Reviewed; Region: alr; PRK00053 640511005223 active site 640511005224 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 640511005225 substrate binding site [chemical binding]; other site 640511005226 catalytic residues [active] 640511005227 dimer interface [polypeptide binding]; other site 640511005228 lysophospholipid transporter LplT; Provisional; Region: PRK11195 640511005229 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 640511005230 dimer interface [polypeptide binding]; other site 640511005231 substrate binding site [chemical binding]; other site 640511005232 ATP binding site [chemical binding]; other site 640511005233 Domain of unknown function (DUF1853); Region: DUF1853; cl01545 640511005234 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 640511005235 Fe-S cluster binding site [ion binding]; other site 640511005236 active site 640511005237 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 640511005238 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 640511005239 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 640511005240 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 640511005241 acyl-CoA binding pocket [chemical binding]; other site 640511005242 CoA binding site [chemical binding]; other site 640511005243 helicase 45; Provisional; Region: PTZ00424 640511005244 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 640511005245 ATP binding site [chemical binding]; other site 640511005246 Mg++ binding site [ion binding]; other site 640511005247 motif III; other site 640511005248 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 640511005249 nucleotide binding region [chemical binding]; other site 640511005250 ATP-binding site [chemical binding]; other site 640511005251 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 640511005252 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 640511005253 tetramer interface [polypeptide binding]; other site 640511005254 active site 640511005255 Mg2+/Mn2+ binding site [ion binding]; other site 640511005256 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 640511005257 Ligand Binding Site [chemical binding]; other site 640511005258 transcriptional regulator; Provisional; Region: PRK10632 640511005259 Helix-turn-helix domains; Region: HTH; cl00088 640511005260 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 640511005261 putative effector binding pocket; other site 640511005262 dimerization interface [polypeptide binding]; other site 640511005263 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 640511005264 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 640511005265 motif II; other site 640511005266 malate synthase A; Region: malate_syn_A; TIGR01344 640511005267 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 640511005268 active site 640511005269 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 640511005270 Cupin domain; Region: Cupin_2; cl09118 640511005271 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 640511005272 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511005273 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511005274 Predicted acetyltransferase [General function prediction only]; Region: COG3393 640511005275 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640511005276 Coenzyme A binding pocket [chemical binding]; other site 640511005277 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 640511005278 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 640511005279 active site 640511005280 HIGH motif; other site 640511005281 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 640511005282 active site 640511005283 KMSKS motif; other site 640511005284 hypothetical protein; Provisional; Region: PRK10279 640511005285 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 640511005286 nucleophile elbow; other site 640511005287 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 640511005288 NlpC/P60 family; Region: NLPC_P60; cl11438 640511005289 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 640511005290 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 640511005291 Walker A/P-loop; other site 640511005292 ATP binding site [chemical binding]; other site 640511005293 Q-loop/lid; other site 640511005294 ABC transporter signature motif; other site 640511005295 Walker B; other site 640511005296 D-loop; other site 640511005297 H-loop/switch region; other site 640511005298 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640511005299 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 640511005300 Walker A/P-loop; other site 640511005301 ATP binding site [chemical binding]; other site 640511005302 Q-loop/lid; other site 640511005303 ABC transporter signature motif; other site 640511005304 Walker B; other site 640511005305 D-loop; other site 640511005306 H-loop/switch region; other site 640511005307 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640511005308 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 640511005309 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 640511005310 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511005311 dimer interface [polypeptide binding]; other site 640511005312 conserved gate region; other site 640511005313 putative PBP binding loops; other site 640511005314 ABC-ATPase subunit interface; other site 640511005315 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 640511005316 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511005317 dimer interface [polypeptide binding]; other site 640511005318 conserved gate region; other site 640511005319 putative PBP binding loops; other site 640511005320 ABC-ATPase subunit interface; other site 640511005321 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 640511005322 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 640511005323 aspartate kinase; Reviewed; Region: PRK06635 640511005324 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 640511005325 putative nucleotide binding site [chemical binding]; other site 640511005326 putative catalytic residues [active] 640511005327 putative Mg ion binding site [ion binding]; other site 640511005328 putative aspartate binding site [chemical binding]; other site 640511005329 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 640511005330 putative allosteric regulatory site; other site 640511005331 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 640511005332 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 640511005333 Ligand Binding Site [chemical binding]; other site 640511005334 TilS substrate binding domain; Region: TilS; pfam09179 640511005335 B3/4 domain; Region: B3_4; cl11458 640511005336 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 640511005337 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 640511005338 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 640511005339 endonuclease III; Region: ENDO3c; smart00478 640511005340 minor groove reading motif; other site 640511005341 helix-hairpin-helix signature motif; other site 640511005342 substrate binding pocket [chemical binding]; other site 640511005343 active site 640511005344 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 640511005345 tRNA synthetases class I (C) catalytic domain; Region: tRNA-synt_1e; pfam01406 640511005346 active site 640511005347 HIGH motif; other site 640511005348 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 640511005349 KMSKS motif; other site 640511005350 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 640511005351 tRNA binding surface [nucleotide binding]; other site 640511005352 anticodon binding site; other site 640511005353 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 640511005354 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 640511005355 TPR motif; other site 640511005356 TPR repeat; Region: TPR_11; pfam13414 640511005357 binding surface 640511005358 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 640511005359 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 640511005360 substrate binding site [chemical binding]; other site 640511005361 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 640511005362 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 640511005363 substrate binding site [chemical binding]; other site 640511005364 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 640511005365 putative active site [active] 640511005366 putative metal binding site [ion binding]; other site 640511005367 serine O-acetyltransferase; Region: cysE; TIGR01172 640511005368 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 640511005369 trimer interface [polypeptide binding]; other site 640511005370 active site 640511005371 substrate binding site [chemical binding]; other site 640511005372 CoA binding site [chemical binding]; other site 640511005373 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 640511005374 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 640511005375 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 640511005376 active site 640511005377 dimerization interface [polypeptide binding]; other site 640511005378 lysophospholipid transporter LplT; Provisional; Region: PRK11195 640511005379 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 640511005380 MutS domain I; Region: MutS_I; pfam01624 640511005381 MutS domain II; Region: MutS_II; pfam05188 640511005382 MutS family domain IV; Region: MutS_IV; pfam05190 640511005383 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 640511005384 Walker A/P-loop; other site 640511005385 ATP binding site [chemical binding]; other site 640511005386 Q-loop/lid; other site 640511005387 ABC transporter signature motif; other site 640511005388 Walker B; other site 640511005389 D-loop; other site 640511005390 H-loop/switch region; other site 640511005391 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 640511005392 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 640511005393 Uncharacterized conserved protein [Function unknown]; Region: COG2850 640511005394 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 640511005395 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511005396 DEAD_2; Region: DEAD_2; pfam06733 640511005397 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511005398 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 640511005399 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 640511005400 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 640511005401 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 640511005402 RNA binding site [nucleotide binding]; other site 640511005403 K+ potassium transporter; Region: K_trans; cl15781 640511005404 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 640511005405 active site 640511005406 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 640511005407 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 640511005408 GDP-binding site [chemical binding]; other site 640511005409 ACT binding site; other site 640511005410 IMP binding site; other site 640511005411 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 640511005412 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 640511005413 dimer interface [polypeptide binding]; other site 640511005414 motif 1; other site 640511005415 active site 640511005416 motif 2; other site 640511005417 motif 3; other site 640511005418 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; cl01275 640511005419 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 640511005420 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 640511005421 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 640511005422 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 640511005423 HflK protein; Region: hflK; TIGR01933 640511005424 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 640511005425 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 640511005426 HflX GTPase family; Region: HflX; cd01878 640511005427 G1 box; other site 640511005428 GTP/Mg2+ binding site [chemical binding]; other site 640511005429 Switch I region; other site 640511005430 G2 box; other site 640511005431 G3 box; other site 640511005432 Switch II region; other site 640511005433 G4 box; other site 640511005434 G5 box; other site 640511005435 Hfq, an abundant, ubiquitous RNA-binding protein, functions as a pleiotrophic regulator of RNA metabolism in prokaryotes, required for transcription of some transcripts and degradation of others. Hfq binds small RNA molecules called riboregulators that...; Region: Hfq; cd01716 640511005436 Sm1 motif; other site 640511005437 intra - hexamer interaction site; other site 640511005438 inter - hexamer interaction site [polypeptide binding]; other site 640511005439 nucleotide binding pocket [chemical binding]; other site 640511005440 Sm2 motif; other site 640511005441 GTP-binding protein Der; Reviewed; Region: PRK00093 640511005442 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 640511005443 G1 box; other site 640511005444 GTP/Mg2+ binding site [chemical binding]; other site 640511005445 Switch I region; other site 640511005446 G2 box; other site 640511005447 Switch II region; other site 640511005448 G3 box; other site 640511005449 G4 box; other site 640511005450 G5 box; other site 640511005451 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 640511005452 G1 box; other site 640511005453 GTP/Mg2+ binding site [chemical binding]; other site 640511005454 Switch I region; other site 640511005455 G2 box; other site 640511005456 G3 box; other site 640511005457 Switch II region; other site 640511005458 G4 box; other site 640511005459 G5 box; other site 640511005460 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 640511005461 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 640511005462 Trp docking motif [polypeptide binding]; other site 640511005463 active site 640511005464 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 640511005465 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 640511005466 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 640511005467 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 640511005468 dimer interface [polypeptide binding]; other site 640511005469 motif 1; other site 640511005470 active site 640511005471 motif 2; other site 640511005472 motif 3; other site 640511005473 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 640511005474 anticodon binding site; other site 640511005475 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 640511005476 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 640511005477 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 640511005478 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 640511005479 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 640511005480 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 640511005481 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 640511005482 FeS/SAM binding site; other site 640511005483 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 640511005484 active site 640511005485 multimer interface [polypeptide binding]; other site 640511005486 YccA-like proteins; Region: YccA_like; cd10433 640511005487 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 640511005488 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 640511005489 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 640511005490 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 640511005491 dihydrodipicolinate synthase; Region: dapA; TIGR00674 640511005492 dimer interface [polypeptide binding]; other site 640511005493 active site 640511005494 catalytic residue [active] 640511005495 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 640511005496 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 640511005497 active site 640511005498 HIGH motif; other site 640511005499 dimer interface [polypeptide binding]; other site 640511005500 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 640511005501 active site 640511005502 KMSKS motif; other site 640511005503 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 640511005504 active site 640511005505 putative substrate binding region [chemical binding]; other site 640511005506 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 640511005507 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 640511005508 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 640511005509 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640511005510 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 640511005511 dinuclear metal binding motif [ion binding]; other site 640511005512 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 640511005513 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 640511005514 trimer interface [polypeptide binding]; other site 640511005515 putative metal binding site [ion binding]; other site 640511005516 Disulfide bond chaperones of the HSP33 family [Posttranslational modification, protein turnover, chaperones]; Region: COG1281 640511005517 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 640511005518 dimerization interface [polypeptide binding]; other site 640511005519 domain crossover interface; other site 640511005520 redox-dependent activation switch; other site 640511005521 Septum formation initiator; Region: DivIC; cl11433 640511005522 enolase; Provisional; Region: eno; PRK00077 640511005523 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 640511005524 dimer interface [polypeptide binding]; other site 640511005525 metal binding site [ion binding]; metal-binding site 640511005526 substrate binding pocket [chemical binding]; other site 640511005527 NeuB family; Region: NeuB; cl00496 640511005528 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 640511005529 CTP synthetase; Validated; Region: pyrG; PRK05380 640511005530 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 640511005531 Catalytic site [active] 640511005532 active site 640511005533 UTP binding site [chemical binding]; other site 640511005534 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 640511005535 active site 640511005536 putative oxyanion hole; other site 640511005537 catalytic triad [active] 640511005538 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640511005539 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation', the process of becoming...; Region: Lipase; cl14883 640511005540 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 640511005541 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 640511005542 Competence protein; Region: Competence; cl00471 640511005543 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 640511005544 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 640511005545 active site 640511005546 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 640511005547 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 640511005548 Walker A/P-loop; other site 640511005549 ATP binding site [chemical binding]; other site 640511005550 Q-loop/lid; other site 640511005551 ABC transporter signature motif; other site 640511005552 Walker B; other site 640511005553 D-loop; other site 640511005554 H-loop/switch region; other site 640511005555 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 640511005556 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 640511005557 FtsX-like permease family; Region: FtsX; cl15850 640511005558 Sulfatase; Region: Sulfatase; cl10460 640511005559 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 640511005560 DHH family; Region: DHH; pfam01368 640511005561 peptide chain release factor 2; Validated; Region: prfB; PRK00578 640511005562 RF-1 domain; Region: RF-1; cl02875 640511005563 RF-1 domain; Region: RF-1; cl02875 640511005564 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 640511005565 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 640511005566 dimer interface [polypeptide binding]; other site 640511005567 putative anticodon binding site; other site 640511005568 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 640511005569 motif 1; other site 640511005570 active site 640511005571 motif 2; other site 640511005572 motif 3; other site 640511005573 Iron-sulphur cluster assembly; Region: Fe-S_assembly; cl01123 640511005574 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 640511005575 catalytic loop [active] 640511005576 iron binding site [ion binding]; other site 640511005577 chaperone protein HscA; Provisional; Region: hscA; PRK05183 640511005578 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 640511005579 co-chaperone HscB; Provisional; Region: hscB; PRK03578 640511005580 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 640511005581 HSP70 interaction site [polypeptide binding]; other site 640511005582 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 640511005583 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 640511005584 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 640511005585 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 640511005586 trimerization site [polypeptide binding]; other site 640511005587 active site 640511005588 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 640511005589 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 640511005590 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640511005591 catalytic residue [active] 640511005592 Helix-turn-helix domains; Region: HTH; cl00088 640511005593 Rrf2 family protein; Region: rrf2_super; TIGR00738 640511005594 Low molecular weight phosphatase family; Region: LMWPc; cd00115 640511005595 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 640511005596 active site 640511005597 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 640511005598 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 640511005599 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 640511005600 Cysteine-rich domain; Region: CCG; pfam02754 640511005601 Cysteine-rich domain; Region: CCG; pfam02754 640511005602 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640511005603 Helix-turn-helix domains; Region: HTH; cl00088 640511005604 Bacterial transcriptional regulator; Region: IclR; pfam01614 640511005605 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 640511005606 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 640511005607 Phasin protein; Region: Phasin_2; cl11491 640511005608 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 640511005609 E3 interaction surface; other site 640511005610 lipoyl attachment site [posttranslational modification]; other site 640511005611 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 640511005612 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640511005613 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 640511005614 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 640511005615 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 640511005616 E3 interaction surface; other site 640511005617 lipoyl attachment site [posttranslational modification]; other site 640511005618 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 640511005619 E3 interaction surface; other site 640511005620 lipoyl attachment site [posttranslational modification]; other site 640511005621 e3 binding domain; Region: E3_binding; pfam02817 640511005622 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 640511005623 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 640511005624 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 640511005625 dimer interface [polypeptide binding]; other site 640511005626 TPP-binding site [chemical binding]; other site 640511005627 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 640511005628 PAS domain S-box; Region: sensory_box; TIGR00229 640511005629 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 640511005630 putative active site [active] 640511005631 heme pocket [chemical binding]; other site 640511005632 two-component VirA-like sensor kinase; Provisional; Region: PRK13837 640511005633 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 640511005634 dimer interface [polypeptide binding]; other site 640511005635 phosphorylation site [posttranslational modification] 640511005636 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511005637 ATP binding site [chemical binding]; other site 640511005638 Mg2+ binding site [ion binding]; other site 640511005639 G-X-G motif; other site 640511005640 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 640511005641 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511005642 active site 640511005643 phosphorylation site [posttranslational modification] 640511005644 intermolecular recognition site; other site 640511005645 dimerization interface [polypeptide binding]; other site 640511005646 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 640511005647 DNA binding residues [nucleotide binding] 640511005648 dimerization interface [polypeptide binding]; other site 640511005649 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14189 640511005650 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 640511005651 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 640511005652 homodimer interface [polypeptide binding]; other site 640511005653 NADP binding site [chemical binding]; other site 640511005654 substrate binding site [chemical binding]; other site 640511005655 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 640511005656 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 640511005657 active site 640511005658 Zn binding site [ion binding]; other site 640511005659 cytosine deaminase; Validated; Region: PRK07572 640511005660 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 640511005661 active site 640511005662 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 640511005663 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 640511005664 putative catalytic site [active] 640511005665 putative phosphate binding site [ion binding]; other site 640511005666 active site 640511005667 metal binding site A [ion binding]; metal-binding site 640511005668 DNA binding site [nucleotide binding] 640511005669 putative AP binding site [nucleotide binding]; other site 640511005670 putative metal binding site B [ion binding]; other site 640511005671 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 640511005672 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 640511005673 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 640511005674 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511005675 active site 640511005676 phosphorylation site [posttranslational modification] 640511005677 intermolecular recognition site; other site 640511005678 dimerization interface [polypeptide binding]; other site 640511005679 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 640511005680 Walker A motif; other site 640511005681 ATP binding site [chemical binding]; other site 640511005682 Walker B motif; other site 640511005683 arginine finger; other site 640511005684 Helix-turn-helix domains; Region: HTH; cl00088 640511005685 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 640511005686 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 640511005687 dimer interface [polypeptide binding]; other site 640511005688 phosphorylation site [posttranslational modification] 640511005689 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511005690 ATP binding site [chemical binding]; other site 640511005691 Mg2+ binding site [ion binding]; other site 640511005692 G-X-G motif; other site 640511005693 glutamine synthetase; Provisional; Region: glnA; PRK09469 640511005694 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 640511005695 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 640511005696 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 640511005697 active site residue [active] 640511005698 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 640511005699 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 640511005700 putative MPT binding site; other site 640511005701 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 640511005702 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 640511005703 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 640511005704 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 640511005705 Haemagglutinin; Region: HIM; pfam05662 640511005706 Haemagglutinin; Region: HIM; pfam05662 640511005707 Haemagglutinin; Region: HIM; pfam05662 640511005708 YadA-like C-terminal region; Region: YadA; pfam03895 640511005709 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 640511005710 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 640511005711 ATP binding site [chemical binding]; other site 640511005712 putative Mg++ binding site [ion binding]; other site 640511005713 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 640511005714 nucleotide binding region [chemical binding]; other site 640511005715 ATP-binding site [chemical binding]; other site 640511005716 Helicase associated domain (HA2); Region: HA2; cl04503 640511005717 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 640511005718 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 640511005719 N-acetylglutamate synthase; Validated; Region: PRK05279 640511005720 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 640511005721 putative feedback inhibition sensing region; other site 640511005722 putative nucleotide binding site [chemical binding]; other site 640511005723 putative substrate binding site [chemical binding]; other site 640511005724 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640511005725 Coenzyme A binding pocket [chemical binding]; other site 640511005726 Bacterial Fe(2+) trafficking; Region: Iron_traffic; cl01104 640511005727 proline/glycine betaine transporter; Provisional; Region: PRK10642 640511005728 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511005729 putative substrate translocation pore; other site 640511005730 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 640511005731 active site 640511005732 metal binding site [ion binding]; metal-binding site 640511005733 homotetramer interface [polypeptide binding]; other site 640511005734 Protein of unknown function (DUF1211); Region: DUF1211; cl01421 640511005735 Cupin domain; Region: Cupin_2; cl09118 640511005736 mercuric reductase; Validated; Region: PRK06370 640511005737 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511005738 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640511005739 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 640511005740 GAF domain; Region: GAF_2; pfam13185 640511005741 GAF domain; Region: GAF; cl15785 640511005742 PAS fold; Region: PAS; pfam00989 640511005743 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 640511005744 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640511005745 metal binding site [ion binding]; metal-binding site 640511005746 active site 640511005747 I-site; other site 640511005748 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 640511005749 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 640511005750 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 640511005751 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511005752 DNA-binding site [nucleotide binding]; DNA binding site 640511005753 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 640511005754 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511005755 homodimer interface [polypeptide binding]; other site 640511005756 catalytic residue [active] 640511005757 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 640511005758 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 640511005759 putative molybdopterin cofactor binding site [chemical binding]; other site 640511005760 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 640511005761 putative molybdopterin cofactor binding site; other site 640511005762 Protein of unknown function DUF45; Region: DUF45; cl00636 640511005763 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640511005764 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640511005765 DNA binding site [nucleotide binding] 640511005766 domain linker motif; other site 640511005767 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 640511005768 putative dimerization interface [polypeptide binding]; other site 640511005769 putative ligand binding site [chemical binding]; other site 640511005770 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 640511005771 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 640511005772 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 640511005773 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 640511005774 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 640511005775 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511005776 dimer interface [polypeptide binding]; other site 640511005777 conserved gate region; other site 640511005778 putative PBP binding loops; other site 640511005779 ABC-ATPase subunit interface; other site 640511005780 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 640511005781 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511005782 Walker A/P-loop; other site 640511005783 ATP binding site [chemical binding]; other site 640511005784 Q-loop/lid; other site 640511005785 ABC transporter signature motif; other site 640511005786 Walker B; other site 640511005787 D-loop; other site 640511005788 H-loop/switch region; other site 640511005789 TOBE domain; Region: TOBE_2; cl01440 640511005790 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 640511005791 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 640511005792 active site 640511005793 metal binding site [ion binding]; metal-binding site 640511005794 hexamer interface [polypeptide binding]; other site 640511005795 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 640511005796 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511005797 Phosphopantetheine attachment site; Region: PP-binding; cl09936 640511005798 Response regulator receiver domain; Region: Response_reg; pfam00072 640511005799 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511005800 active site 640511005801 phosphorylation site [posttranslational modification] 640511005802 intermolecular recognition site; other site 640511005803 dimerization interface [polypeptide binding]; other site 640511005804 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640511005805 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511005806 active site 640511005807 phosphorylation site [posttranslational modification] 640511005808 intermolecular recognition site; other site 640511005809 dimerization interface [polypeptide binding]; other site 640511005810 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 640511005811 DNA binding residues [nucleotide binding] 640511005812 dimerization interface [polypeptide binding]; other site 640511005813 Ferritin-like domain; Region: Ferritin; pfam00210 640511005814 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 640511005815 dinuclear metal binding motif [ion binding]; other site 640511005816 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 640511005817 Histidine kinase; Region: HisKA_3; pfam07730 640511005818 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511005819 ATP binding site [chemical binding]; other site 640511005820 Mg2+ binding site [ion binding]; other site 640511005821 G-X-G motif; other site 640511005822 Entericidin EcnA/B family; Region: Entericidin; cl02322 640511005823 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 640511005824 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 640511005825 active site 640511005826 FMN binding site [chemical binding]; other site 640511005827 2,4-decadienoyl-CoA binding site; other site 640511005828 catalytic residue [active] 640511005829 4Fe-4S cluster binding site [ion binding]; other site 640511005830 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 640511005831 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511005832 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 640511005833 EamA-like transporter family; Region: EamA; cl01037 640511005834 EamA-like transporter family; Region: EamA; cl01037 640511005835 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 640511005836 Moco binding site; other site 640511005837 metal coordination site [ion binding]; other site 640511005838 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 640511005839 Protein of unknown function (DUF1223); Region: DUF1223; cl10501 640511005840 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 640511005841 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 640511005842 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 640511005843 ThiC-associated domain; Region: ThiC-associated; pfam13667 640511005844 ThiC family; Region: ThiC; cl08031 640511005845 L-lactate permease; Region: Lactate_perm; cl00701 640511005846 glycolate transporter; Provisional; Region: PRK09695 640511005847 EamA-like transporter family; Region: EamA; cl01037 640511005848 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 640511005849 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 640511005850 Protein of unknown function (DUF2844); Region: DUF2844; pfam11005 640511005851 Protein of unknown function (DUF3443); Region: DUF3443; pfam11925 640511005852 2-isopropylmalate synthase; Validated; Region: PRK03739 640511005853 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 640511005854 active site 640511005855 catalytic residues [active] 640511005856 metal binding site [ion binding]; metal-binding site 640511005857 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 640511005858 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 640511005859 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 640511005860 substrate binding pocket [chemical binding]; other site 640511005861 membrane-bound complex binding site; other site 640511005862 hinge residues; other site 640511005863 benzoyl-CoA oxygenase/reductase, BoxA protein; Region: benzo_boxA; TIGR03224 640511005864 4Fe-4S binding domain; Region: Fer4; cl02805 640511005865 4Fe-4S binding domain; Region: Fer4; cl02805 640511005866 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 640511005867 dimerization interface [polypeptide binding]; other site 640511005868 FAD binding pocket [chemical binding]; other site 640511005869 FAD binding motif [chemical binding]; other site 640511005870 catalytic residues [active] 640511005871 NAD binding pocket [chemical binding]; other site 640511005872 phosphate binding motif [ion binding]; other site 640511005873 beta-alpha-beta structure motif; other site 640511005874 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 640511005875 benzoyl-CoA-dihydrodiol lyase; Provisional; Region: PRK08184 640511005876 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 640511005877 substrate binding site [chemical binding]; other site 640511005878 oxyanion hole (OAH) forming residues; other site 640511005879 trimer interface [polypeptide binding]; other site 640511005880 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 640511005881 oxyanion hole (OAH) forming residues; other site 640511005882 trimer interface [polypeptide binding]; other site 640511005883 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 640511005884 non-specific DNA binding site [nucleotide binding]; other site 640511005885 salt bridge; other site 640511005886 sequence-specific DNA binding site [nucleotide binding]; other site 640511005887 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 640511005888 Shikimate kinase; Region: SKI; pfam01202 640511005889 ADP binding site [chemical binding]; other site 640511005890 magnesium binding site [ion binding]; other site 640511005891 putative shikimate binding site; other site 640511005892 benzoate-CoA ligase family; Region: benz_CoA_lig; TIGR02262 640511005893 AMP-binding enzyme; Region: AMP-binding; cl15778 640511005894 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 640511005895 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640511005896 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 640511005897 Phosphoesterase family; Region: Phosphoesterase; cl15450 640511005898 Domain of unknown function (DUF756); Region: DUF756; pfam05506 640511005899 Domain of unknown function (DUF756); Region: DUF756; pfam05506 640511005900 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 640511005901 AMP-binding enzyme; Region: AMP-binding; cl15778 640511005902 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 640511005903 Alpha 1,4-glycosyltransferase conserved region; Region: Gb3_synth; pfam04572 640511005904 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511005905 Helix-turn-helix domains; Region: HTH; cl00088 640511005906 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 640511005907 putative effector binding pocket; other site 640511005908 dimerization interface [polypeptide binding]; other site 640511005909 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 640511005910 substrate binding site [chemical binding]; other site 640511005911 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 640511005912 oxyanion hole (OAH) forming residues; other site 640511005913 trimer interface [polypeptide binding]; other site 640511005914 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511005915 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 640511005916 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 640511005917 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640511005918 active site 640511005919 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 640511005920 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 640511005921 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 640511005922 active site 640511005923 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 640511005924 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 640511005925 DNA binding residues [nucleotide binding] 640511005926 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 640511005927 IHF dimer interface [polypeptide binding]; other site 640511005928 IHF - DNA interface [nucleotide binding]; other site 640511005929 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 640511005930 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 640511005931 putative tRNA-binding site [nucleotide binding]; other site 640511005932 B3/4 domain; Region: B3_4; cl11458 640511005933 tRNA synthetase B5 domain; Region: B5; cl08394 640511005934 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 640511005935 dimer interface [polypeptide binding]; other site 640511005936 motif 1; other site 640511005937 motif 3; other site 640511005938 motif 2; other site 640511005939 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 640511005940 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 640511005941 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 640511005942 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 640511005943 dimer interface [polypeptide binding]; other site 640511005944 motif 1; other site 640511005945 active site 640511005946 motif 2; other site 640511005947 motif 3; other site 640511005948 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 640511005949 23S rRNA binding site [nucleotide binding]; other site 640511005950 L21 binding site [polypeptide binding]; other site 640511005951 L13 binding site [polypeptide binding]; other site 640511005952 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 640511005953 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 640511005954 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 640511005955 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 640511005956 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 640511005957 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 640511005958 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 640511005959 active site 640511005960 dimer interface [polypeptide binding]; other site 640511005961 motif 1; other site 640511005962 motif 2; other site 640511005963 motif 3; other site 640511005964 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 640511005965 anticodon binding site; other site 640511005966 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 640511005967 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 640511005968 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 640511005969 synthetase active site [active] 640511005970 NTP binding site [chemical binding]; other site 640511005971 metal binding site [ion binding]; metal-binding site 640511005972 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 640511005973 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 640511005974 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 640511005975 homotrimer interaction site [polypeptide binding]; other site 640511005976 putative active site [active] 640511005977 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 640511005978 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640511005979 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 640511005980 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 640511005981 PAS domain; Region: PAS_9; pfam13426 640511005982 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 640511005983 putative active site [active] 640511005984 heme pocket [chemical binding]; other site 640511005985 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 640511005986 DNA binding residues [nucleotide binding] 640511005987 dimerization interface [polypeptide binding]; other site 640511005988 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 640511005989 active site 640511005990 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 640511005991 classical (c) SDRs; Region: SDR_c; cd05233 640511005992 NAD(P) binding site [chemical binding]; other site 640511005993 active site 640511005994 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511005995 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 640511005996 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 640511005997 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 640511005998 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 640511005999 Tetramer interface [polypeptide binding]; other site 640511006000 active site 640511006001 FMN-binding site [chemical binding]; other site 640511006002 lysophospholipid transporter LplT; Provisional; Region: PRK11195 640511006003 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511006004 putative substrate translocation pore; other site 640511006005 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 640511006006 putative acyl-acceptor binding pocket; other site 640511006007 FOG: CBS domain [General function prediction only]; Region: COG0517 640511006008 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 640511006009 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK08134 640511006010 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 640511006011 homodimer interface [polypeptide binding]; other site 640511006012 substrate-cofactor binding pocket; other site 640511006013 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511006014 catalytic residue [active] 640511006015 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 640511006016 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640511006017 Protein of unknown function (DUF962); Region: DUF962; cl01879 640511006018 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 640511006019 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 640511006020 Predicted membrane protein (DUF2069); Region: DUF2069; cl01299 640511006021 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 640511006022 FAD binding domain; Region: FAD_binding_4; pfam01565 640511006023 Microscilla MS158 and related proteins, metallophosphatase domain; Region: MPP_MS158; cd07404 640511006024 putative active site [active] 640511006025 putative metal binding site [ion binding]; other site 640511006026 transcriptional regulator; Provisional; Region: PRK10632 640511006027 Helix-turn-helix domains; Region: HTH; cl00088 640511006028 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 640511006029 putative effector binding pocket; other site 640511006030 dimerization interface [polypeptide binding]; other site 640511006031 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640511006032 Fusaric acid resistance protein family; Region: FUSC; pfam04632 640511006033 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 640511006034 Protein of unknown function (DUF1656); Region: DUF1656; cl11658 640511006035 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 640511006036 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 640511006037 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 640511006038 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 640511006039 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 640511006040 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation', the process of becoming...; Region: Lipase; cl14883 640511006041 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 640511006042 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 640511006043 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 640511006044 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640511006045 dimer interface [polypeptide binding]; other site 640511006046 putative CheW interface [polypeptide binding]; other site 640511006047 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511006048 putative substrate translocation pore; other site 640511006049 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 640511006050 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 640511006051 AMP-binding enzyme; Region: AMP-binding; cl15778 640511006052 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 640511006053 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 640511006054 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 640511006055 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511006056 Family description; Region: UvrD_C_2; cl15862 640511006057 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 640511006058 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 640511006059 HIGH motif; other site 640511006060 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 640511006061 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 640511006062 active site 640511006063 KMSKS motif; other site 640511006064 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 640511006065 tRNA binding surface [nucleotide binding]; other site 640511006066 anticodon binding site; other site 640511006067 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 640511006068 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 640511006069 active site 640511006070 tetramer interface; other site 640511006071 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 640511006072 CPxP motif; other site 640511006073 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 640511006074 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511006075 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 640511006076 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 640511006077 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511006078 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 640511006079 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 640511006080 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 640511006081 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 640511006082 putative active site [active] 640511006083 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_4; cd06312 640511006084 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640511006085 putative ligand binding site [chemical binding]; other site 640511006086 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 640511006087 TM-ABC transporter signature motif; other site 640511006088 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 640511006089 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511006090 Walker A/P-loop; other site 640511006091 ATP binding site [chemical binding]; other site 640511006092 Q-loop/lid; other site 640511006093 ABC transporter signature motif; other site 640511006094 Walker B; other site 640511006095 D-loop; other site 640511006096 H-loop/switch region; other site 640511006097 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 640511006098 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 640511006099 substrate binding site [chemical binding]; other site 640511006100 ATP binding site [chemical binding]; other site 640511006101 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 640511006102 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 640511006103 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 640511006104 PYR/PP interface [polypeptide binding]; other site 640511006105 dimer interface [polypeptide binding]; other site 640511006106 TPP binding site [chemical binding]; other site 640511006107 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 640511006108 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 640511006109 TPP-binding site; other site 640511006110 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 640511006111 KduI/IolB family; Region: KduI; cl01508 640511006112 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 640511006113 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 640511006114 Walker A/P-loop; other site 640511006115 ATP binding site [chemical binding]; other site 640511006116 Q-loop/lid; other site 640511006117 ABC transporter signature motif; other site 640511006118 Walker B; other site 640511006119 D-loop; other site 640511006120 H-loop/switch region; other site 640511006121 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 640511006122 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 640511006123 Walker A/P-loop; other site 640511006124 ATP binding site [chemical binding]; other site 640511006125 Q-loop/lid; other site 640511006126 ABC transporter signature motif; other site 640511006127 Walker B; other site 640511006128 D-loop; other site 640511006129 H-loop/switch region; other site 640511006130 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 640511006131 TM-ABC transporter signature motif; other site 640511006132 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 640511006133 TM-ABC transporter signature motif; other site 640511006134 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 640511006135 active site 640511006136 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 640511006137 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 640511006138 putative active site [active] 640511006139 metal binding site [ion binding]; metal-binding site 640511006140 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 640511006141 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 640511006142 nudix motif; other site 640511006143 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 640511006144 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 640511006145 tetramer interface [polypeptide binding]; other site 640511006146 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511006147 catalytic residue [active] 640511006148 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 640511006149 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511006150 Helix-turn-helix domains; Region: HTH; cl00088 640511006151 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 640511006152 dimerization interface [polypeptide binding]; other site 640511006153 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 640511006154 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: AlaRS_core; cd00673 640511006155 motif 1; other site 640511006156 active site 640511006157 motif 2; other site 640511006158 motif 3; other site 640511006159 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 640511006160 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 640511006161 DHHA1 domain; Region: DHHA1; pfam02272 640511006162 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 640511006163 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640511006164 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 640511006165 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 640511006166 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 640511006167 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 640511006168 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 640511006169 active site 640511006170 HIGH motif; other site 640511006171 nucleotide binding site [chemical binding]; other site 640511006172 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 640511006173 KMSKS motif; other site 640511006174 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 640511006175 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 640511006176 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 640511006177 substrate binding pocket [chemical binding]; other site 640511006178 membrane-bound complex binding site; other site 640511006179 hinge residues; other site 640511006180 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 640511006181 nudix motif; other site 640511006182 Cache domain; Region: Cache_2; cl07034 640511006183 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640511006184 dimer interface [polypeptide binding]; other site 640511006185 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 640511006186 putative CheW interface [polypeptide binding]; other site 640511006187 Bacitracin resistance protein BacA; Region: BacA; cl00858 640511006188 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 640511006189 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 640511006190 active site 640511006191 catalytic residues [active] 640511006192 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 640511006193 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 640511006194 Protein of unknown function (DUF2288); Region: DUF2288; cl02399 640511006195 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 640511006196 MatE; Region: MatE; cl10513 640511006197 Protein of unknown function (DUF3309); Region: DUF3309; pfam11752 640511006198 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 640511006199 catalytic core [active] 640511006200 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 640511006201 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 640511006202 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 640511006203 polyphosphate kinase; Provisional; Region: PRK05443 640511006204 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 640511006205 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 640511006206 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 640511006207 putative active site [active] 640511006208 catalytic site [active] 640511006209 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 640511006210 putative domain interface [polypeptide binding]; other site 640511006211 putative active site [active] 640511006212 catalytic site [active] 640511006213 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 640511006214 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 640511006215 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 640511006216 dimer interface [polypeptide binding]; other site 640511006217 phosphorylation site [posttranslational modification] 640511006218 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511006219 ATP binding site [chemical binding]; other site 640511006220 Mg2+ binding site [ion binding]; other site 640511006221 G-X-G motif; other site 640511006222 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 640511006223 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511006224 active site 640511006225 phosphorylation site [posttranslational modification] 640511006226 intermolecular recognition site; other site 640511006227 dimerization interface [polypeptide binding]; other site 640511006228 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 640511006229 DNA binding site [nucleotide binding] 640511006230 transcriptional regulator PhoU; Provisional; Region: PRK11115 640511006231 PhoU domain; Region: PhoU; pfam01895 640511006232 PhoU domain; Region: PhoU; pfam01895 640511006233 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 640511006234 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 640511006235 Walker A/P-loop; other site 640511006236 ATP binding site [chemical binding]; other site 640511006237 Q-loop/lid; other site 640511006238 ABC transporter signature motif; other site 640511006239 Walker B; other site 640511006240 D-loop; other site 640511006241 H-loop/switch region; other site 640511006242 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 640511006243 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511006244 dimer interface [polypeptide binding]; other site 640511006245 conserved gate region; other site 640511006246 putative PBP binding loops; other site 640511006247 ABC-ATPase subunit interface; other site 640511006248 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511006249 dimer interface [polypeptide binding]; other site 640511006250 conserved gate region; other site 640511006251 putative PBP binding loops; other site 640511006252 ABC-ATPase subunit interface; other site 640511006253 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 640511006254 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 640511006255 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 640511006256 active site 640511006257 substrate binding site [chemical binding]; other site 640511006258 metal binding site [ion binding]; metal-binding site 640511006259 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 640511006260 dihydropteroate synthase; Region: DHPS; TIGR01496 640511006261 substrate binding pocket [chemical binding]; other site 640511006262 dimer interface [polypeptide binding]; other site 640511006263 inhibitor binding site; inhibition site 640511006264 FtsH Extracellular; Region: FtsH_ext; pfam06480 640511006265 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 640511006266 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 640511006267 Walker A motif; other site 640511006268 ATP binding site [chemical binding]; other site 640511006269 Walker B motif; other site 640511006270 arginine finger; other site 640511006271 Peptidase family M41; Region: Peptidase_M41; pfam01434 640511006272 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 640511006273 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 640511006274 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 640511006275 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 640511006276 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 640511006277 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 640511006278 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 640511006279 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 640511006280 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 640511006281 ATP-grasp domain; Region: ATP-grasp_4; cl03087 640511006282 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 640511006283 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 640511006284 ATP-grasp domain; Region: ATP-grasp_4; cl03087 640511006285 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 640511006286 IMP binding site; other site 640511006287 dimer interface [polypeptide binding]; other site 640511006288 interdomain contacts; other site 640511006289 partial ornithine binding site; other site 640511006290 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 640511006291 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 640511006292 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 640511006293 catalytic site [active] 640511006294 subunit interface [polypeptide binding]; other site 640511006295 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511006296 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640511006297 putative substrate translocation pore; other site 640511006298 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 640511006299 N-acetyl-D-glucosamine binding site [chemical binding]; other site 640511006300 catalytic residue [active] 640511006301 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 640511006302 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 640511006303 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 640511006304 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 640511006305 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 640511006306 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 640511006307 RNA/DNA hybrid binding site [nucleotide binding]; other site 640511006308 active site 640511006309 exonuclease, DNA polymerase III, epsilon subunit family; Region: dnaq; TIGR00573 640511006310 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 640511006311 active site 640511006312 catalytic site [active] 640511006313 substrate binding site [chemical binding]; other site 640511006314 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 640511006315 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 640511006316 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 640511006317 Walker A/P-loop; other site 640511006318 ATP binding site [chemical binding]; other site 640511006319 Q-loop/lid; other site 640511006320 ABC transporter signature motif; other site 640511006321 Walker B; other site 640511006322 D-loop; other site 640511006323 H-loop/switch region; other site 640511006324 Predicted membrane protein (DUF2214); Region: DUF2214; cl01427 640511006325 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 640511006326 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640511006327 putative ADP-binding pocket [chemical binding]; other site 640511006328 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 640511006329 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 640511006330 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511006331 Walker A/P-loop; other site 640511006332 ATP binding site [chemical binding]; other site 640511006333 Q-loop/lid; other site 640511006334 ABC transporter signature motif; other site 640511006335 Walker B; other site 640511006336 D-loop; other site 640511006337 H-loop/switch region; other site 640511006338 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 640511006339 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 640511006340 active site 640511006341 homotetramer interface [polypeptide binding]; other site 640511006342 Trehalose-6-phosphatase [Carbohydrate transport and metabolism]; Region: OtsB; COG1877 640511006343 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 640511006344 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 640511006345 Cu(I) binding site [ion binding]; other site 640511006346 Protein of unknown function (DUF461); Region: DUF461; cl01071 640511006347 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; cl09173 640511006348 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 640511006349 GAF domain; Region: GAF; cl15785 640511006350 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640511006351 metal binding site [ion binding]; metal-binding site 640511006352 active site 640511006353 I-site; other site 640511006354 TraB family; Region: TraB; cl12050 640511006355 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 640511006356 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 640511006357 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 640511006358 GIY-YIG motif/motif A; other site 640511006359 active site 640511006360 catalytic site [active] 640511006361 putative DNA binding site [nucleotide binding]; other site 640511006362 metal binding site [ion binding]; metal-binding site 640511006363 UvrB/uvrC motif; Region: UVR; pfam02151 640511006364 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 640511006365 ERCC4-type nuclease [DNA replication, recombination, and repair]; Region: MUS81; COG1948 640511006366 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; cl01823 640511006367 elongation factor P; Validated; Region: PRK00529 640511006368 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 640511006369 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 640511006370 RNA binding site [nucleotide binding]; other site 640511006371 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 640511006372 RNA binding site [nucleotide binding]; other site 640511006373 CsbD-like; Region: CsbD; cl15799 640511006374 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 640511006375 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511006376 active site 640511006377 phosphorylation site [posttranslational modification] 640511006378 intermolecular recognition site; other site 640511006379 dimerization interface [polypeptide binding]; other site 640511006380 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 640511006381 Walker A motif; other site 640511006382 ATP binding site [chemical binding]; other site 640511006383 Walker B motif; other site 640511006384 Helix-turn-helix domains; Region: HTH; cl00088 640511006385 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 640511006386 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 640511006387 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in the...; Region: PNPsynthase; cd00003 640511006388 active site 640511006389 hydrophilic channel; other site 640511006390 dimerization interface [polypeptide binding]; other site 640511006391 catalytic residues [active] 640511006392 active site lid [active] 640511006393 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 640511006394 Recombination protein O N terminal; Region: RecO_N; cl15812 640511006395 Recombination protein O C terminal; Region: RecO_C; pfam02565 640511006396 GTPase Era; Reviewed; Region: era; PRK00089 640511006397 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 640511006398 G1 box; other site 640511006399 GTP/Mg2+ binding site [chemical binding]; other site 640511006400 Switch I region; other site 640511006401 G2 box; other site 640511006402 Switch II region; other site 640511006403 G3 box; other site 640511006404 G4 box; other site 640511006405 G5 box; other site 640511006406 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 640511006407 ribonuclease III; Reviewed; Region: PRK12372 640511006408 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 640511006409 dimerization interface [polypeptide binding]; other site 640511006410 active site 640511006411 metal binding site [ion binding]; metal-binding site 640511006412 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 640511006413 signal peptidase I; Provisional; Region: PRK10861 640511006414 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 640511006415 Catalytic site [active] 640511006416 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 640511006417 GTP-binding protein LepA; Provisional; Region: PRK05433 640511006418 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 640511006419 G1 box; other site 640511006420 putative GEF interaction site [polypeptide binding]; other site 640511006421 GTP/Mg2+ binding site [chemical binding]; other site 640511006422 Switch I region; other site 640511006423 G2 box; other site 640511006424 G3 box; other site 640511006425 Switch II region; other site 640511006426 G4 box; other site 640511006427 G5 box; other site 640511006428 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 640511006429 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 640511006430 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 640511006431 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 640511006432 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 640511006433 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 640511006434 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 640511006435 protein binding site [polypeptide binding]; other site 640511006436 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 640511006437 protein binding site [polypeptide binding]; other site 640511006438 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 640511006439 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 640511006440 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 640511006441 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 640511006442 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640511006443 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 640511006444 DNA binding residues [nucleotide binding] 640511006445 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 640511006446 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 640511006447 dimer interface [polypeptide binding]; other site 640511006448 active site 640511006449 Phosphopantetheine attachment site; Region: PP-binding; cl09936 640511006450 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 640511006451 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 640511006452 NAD(P) binding site [chemical binding]; other site 640511006453 homotetramer interface [polypeptide binding]; other site 640511006454 homodimer interface [polypeptide binding]; other site 640511006455 active site 640511006456 Acyl transferase domain; Region: Acyl_transf_1; cl08282 640511006457 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 640511006458 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 640511006459 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 640511006460 dimer interface [polypeptide binding]; other site 640511006461 active site 640511006462 CoA binding pocket [chemical binding]; other site 640511006463 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 640511006464 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 640511006465 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 640511006466 Maf-like protein; Region: Maf; pfam02545 640511006467 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 640511006468 active site 640511006469 dimer interface [polypeptide binding]; other site 640511006470 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 640511006471 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 640511006472 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 640511006473 tandem repeat interface [polypeptide binding]; other site 640511006474 oligomer interface [polypeptide binding]; other site 640511006475 active site residues [active] 640511006476 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 640511006477 iron-sulfur cluster [ion binding]; other site 640511006478 [2Fe-2S] cluster binding site [ion binding]; other site 640511006479 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 640511006480 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 640511006481 motif II; other site 640511006482 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 640511006483 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 640511006484 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 640511006485 active site 640511006486 ribonuclease E; Reviewed; Region: rne; PRK10811 640511006487 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 640511006488 homodimer interface [polypeptide binding]; other site 640511006489 oligonucleotide binding site [chemical binding]; other site 640511006490 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 640511006491 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 640511006492 FeS/SAM binding site; other site 640511006493 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 640511006494 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 640511006495 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 640511006496 GTP binding site; other site 640511006497 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 640511006498 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 640511006499 dimer interface [polypeptide binding]; other site 640511006500 putative functional site; other site 640511006501 putative MPT binding site; other site 640511006502 RmuC family; Region: RmuC; pfam02646 640511006503 glyoxylate reductase; Reviewed; Region: PRK13243 640511006504 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511006505 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 640511006506 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 640511006507 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 640511006508 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 640511006509 active site 640511006510 Ferredoxin [Energy production and conversion]; Region: COG1146 640511006511 4Fe-4S binding domain; Region: Fer4; cl02805 640511006512 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 640511006513 CreA protein; Region: CreA; pfam05981 640511006514 Cupin domain; Region: Cupin_2; cl09118 640511006515 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640511006516 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511006517 AzlC protein; Region: AzlC; cl00570 640511006518 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 640511006519 Protein of unknown function (DUF4088); Region: DUF4088; pfam13317 640511006520 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 640511006521 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511006522 Family description; Region: UvrD_C_2; cl15862 640511006523 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 640511006524 multidrug efflux protein; Reviewed; Region: PRK01766 640511006525 MatE; Region: MatE; cl10513 640511006526 MatE; Region: MatE; cl10513 640511006527 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 640511006528 Membrane transport protein; Region: Mem_trans; cl09117 640511006529 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 640511006530 PLD-like domain; Region: PLDc_2; pfam13091 640511006531 putative active site [active] 640511006532 catalytic site [active] 640511006533 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 640511006534 PLD-like domain; Region: PLDc_2; pfam13091 640511006535 putative active site [active] 640511006536 catalytic site [active] 640511006537 fumarate hydratase; Reviewed; Region: fumC; PRK00485 640511006538 Class II fumarases; Region: Fumarase_classII; cd01362 640511006539 active site 640511006540 tetramer interface [polypeptide binding]; other site 640511006541 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 640511006542 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 640511006543 dimerization interface [polypeptide binding]; other site 640511006544 putative DNA binding site [nucleotide binding]; other site 640511006545 putative Zn2+ binding site [ion binding]; other site 640511006546 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 640511006547 dimerization interface [polypeptide binding]; other site 640511006548 active site 640511006549 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 640511006550 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 640511006551 Walker A motif; other site 640511006552 ATP binding site [chemical binding]; other site 640511006553 Walker B motif; other site 640511006554 arginine finger; other site 640511006555 Helix-turn-helix domains; Region: HTH; cl00088 640511006556 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins; Region: Peptidase_C39G; cd02423 640511006557 Peptidase_C39 like family; Region: Peptidase_C39_2; pfam13529 640511006558 putative active site [active] 640511006559 Transcription factor IIA, alpha/beta subunit; Region: TFIIA; pfam03153 640511006560 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 640511006561 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 640511006562 Walker A motif; other site 640511006563 ATP binding site [chemical binding]; other site 640511006564 Walker B motif; other site 640511006565 arginine finger; other site 640511006566 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 640511006567 folate binding site [chemical binding]; other site 640511006568 NADP+ binding site [chemical binding]; other site 640511006569 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 640511006570 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 640511006571 Protein of unknown function (DUF615); Region: DUF615; cl01147 640511006572 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 640511006573 MPT binding site; other site 640511006574 trimer interface [polypeptide binding]; other site 640511006575 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 640511006576 catalytic site [active] 640511006577 putative active site [active] 640511006578 putative substrate binding site [chemical binding]; other site 640511006579 dimer interface [polypeptide binding]; other site 640511006580 Peptidase family M48; Region: Peptidase_M48; cl12018 640511006581 GTPase RsgA; Reviewed; Region: PRK00098 640511006582 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 640511006583 RNA binding site [nucleotide binding]; other site 640511006584 homodimer interface [polypeptide binding]; other site 640511006585 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 640511006586 GTPase/Zn-binding domain interface [polypeptide binding]; other site 640511006587 GTP/Mg2+ binding site [chemical binding]; other site 640511006588 G4 box; other site 640511006589 G5 box; other site 640511006590 G1 box; other site 640511006591 Switch I region; other site 640511006592 G2 box; other site 640511006593 G3 box; other site 640511006594 Switch II region; other site 640511006595 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 640511006596 CobD/Cbib protein; Region: CobD_Cbib; cl00561 640511006597 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 640511006598 putative active site [active] 640511006599 putative CoA binding site [chemical binding]; other site 640511006600 nudix motif; other site 640511006601 metal binding site [ion binding]; metal-binding site 640511006602 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 640511006603 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 640511006604 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 640511006605 RimM N-terminal domain; Region: RimM; pfam01782 640511006606 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 640511006607 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 640511006608 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 640511006609 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 640511006610 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 640511006611 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 640511006612 FeS/SAM binding site; other site 640511006613 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 640511006614 Helix-turn-helix domains; Region: HTH; cl00088 640511006615 AsnC family; Region: AsnC_trans_reg; pfam01037 640511006616 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 640511006617 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 640511006618 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 640511006619 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640511006620 active site 640511006621 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 640511006622 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 640511006623 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 640511006624 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 640511006625 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 640511006626 Ligand binding site [chemical binding]; other site 640511006627 Electron transfer flavoprotein domain; Region: ETF; pfam01012 640511006628 NMT1-like family; Region: NMT1_2; cl15260 640511006629 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511006630 dimer interface [polypeptide binding]; other site 640511006631 conserved gate region; other site 640511006632 ABC-ATPase subunit interface; other site 640511006633 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 640511006634 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 640511006635 Walker A/P-loop; other site 640511006636 ATP binding site [chemical binding]; other site 640511006637 Q-loop/lid; other site 640511006638 ABC transporter signature motif; other site 640511006639 Walker B; other site 640511006640 D-loop; other site 640511006641 H-loop/switch region; other site 640511006642 NIL domain; Region: NIL; cl09633 640511006643 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 640511006644 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 640511006645 enoyl-CoA hydratase; Validated; Region: PRK08139 640511006646 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 640511006647 substrate binding site [chemical binding]; other site 640511006648 oxyanion hole (OAH) forming residues; other site 640511006649 trimer interface [polypeptide binding]; other site 640511006650 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 640511006651 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 640511006652 Transglycosylase SLT domain; Region: SLT_2; pfam13406 640511006653 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 640511006654 N-acetyl-D-glucosamine binding site [chemical binding]; other site 640511006655 cysteine synthase B; Region: cysM; TIGR01138 640511006656 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 640511006657 dimer interface [polypeptide binding]; other site 640511006658 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511006659 catalytic residue [active] 640511006660 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 640511006661 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 640511006662 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 640511006663 NADP binding site [chemical binding]; other site 640511006664 homopentamer interface [polypeptide binding]; other site 640511006665 substrate binding site [chemical binding]; other site 640511006666 active site 640511006667 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 640511006668 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 640511006669 putative ribose interaction site [chemical binding]; other site 640511006670 putative ADP binding site [chemical binding]; other site 640511006671 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 640511006672 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511006673 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 640511006674 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511006675 tetratricopeptide repeat protein; Provisional; Region: PRK11788 640511006676 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 640511006677 binding surface 640511006678 TPR motif; other site 640511006679 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 640511006680 binding surface 640511006681 TPR motif; other site 640511006682 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 640511006683 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 640511006684 IHF dimer interface [polypeptide binding]; other site 640511006685 IHF - DNA interface [nucleotide binding]; other site 640511006686 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 640511006687 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 640511006688 RNA binding site [nucleotide binding]; other site 640511006689 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 640511006690 RNA binding site [nucleotide binding]; other site 640511006691 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec3; cd05688 640511006692 RNA binding site [nucleotide binding]; other site 640511006693 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec4; cd05689 640511006694 RNA binding site [nucleotide binding]; other site 640511006695 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec5; cd05690 640511006696 RNA binding site [nucleotide binding]; other site 640511006697 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec6; cd05691 640511006698 RNA binding site [nucleotide binding]; other site 640511006699 cytidylate kinase; Provisional; Region: cmk; PRK00023 640511006700 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 640511006701 CMP-binding site; other site 640511006702 3-phosphoshikimate 1-carboxyvinyltransferase; Region: PLN02338 640511006703 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 640511006704 hinge; other site 640511006705 active site 640511006706 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 640511006707 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511006708 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 640511006709 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 640511006710 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511006711 homodimer interface [polypeptide binding]; other site 640511006712 catalytic residue [active] 640511006713 Chorismate mutase type II; Region: CM_2; cl00693 640511006714 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 640511006715 Prephenate dehydratase; Region: PDT; pfam00800 640511006716 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 640511006717 putative L-Phe binding site [chemical binding]; other site 640511006718 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 640511006719 homodimer interface [polypeptide binding]; other site 640511006720 substrate-cofactor binding pocket; other site 640511006721 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511006722 catalytic residue [active] 640511006723 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 640511006724 DNA gyrase subunit A; Validated; Region: PRK05560 640511006725 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 640511006726 CAP-like domain; other site 640511006727 active site 640511006728 primary dimer interface [polypeptide binding]; other site 640511006729 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 640511006730 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 640511006731 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 640511006732 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 640511006733 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 640511006734 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 640511006735 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640511006736 ligand binding site [chemical binding]; other site 640511006737 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 640511006738 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 640511006739 S-adenosylmethionine binding site [chemical binding]; other site 640511006740 phosphoglycolate phosphatase; Provisional; Region: PRK13222 640511006741 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 640511006742 motif II; other site 640511006743 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 640511006744 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 640511006745 Helix-turn-helix domains; Region: HTH; cl00088 640511006746 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 640511006747 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 640511006748 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 640511006749 putative dimer interface [polypeptide binding]; other site 640511006750 [2Fe-2S] cluster binding site [ion binding]; other site 640511006751 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 640511006752 putative dimer interface [polypeptide binding]; other site 640511006753 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 640511006754 SLBB domain; Region: SLBB; pfam10531 640511006755 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 640511006756 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 640511006757 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 640511006758 catalytic loop [active] 640511006759 iron binding site [ion binding]; other site 640511006760 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 640511006761 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 640511006762 [4Fe-4S] binding site [ion binding]; other site 640511006763 molybdopterin cofactor binding site; other site 640511006764 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 640511006765 molybdopterin cofactor binding site; other site 640511006766 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 640511006767 FAD binding domain; Region: FAD_binding_3; pfam01494 640511006768 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511006769 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 640511006770 binding surface 640511006771 TPR motif; other site 640511006772 TPR repeat; Region: TPR_11; pfam13414 640511006773 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 640511006774 binding surface 640511006775 TPR motif; other site 640511006776 TPR repeat; Region: TPR_11; pfam13414 640511006777 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 640511006778 binding surface 640511006779 TPR motif; other site 640511006780 TPR repeat; Region: TPR_11; pfam13414 640511006781 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 640511006782 binding surface 640511006783 TPR repeat; Region: TPR_11; pfam13414 640511006784 TPR motif; other site 640511006785 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 640511006786 ADP-heptose:LPS heptosyltransferase II; Provisional; Region: PRK10916; cl15782 640511006787 citrate-proton symporter; Provisional; Region: PRK15075 640511006788 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511006789 putative substrate translocation pore; other site 640511006790 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 640511006791 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640511006792 Coenzyme A binding pocket [chemical binding]; other site 640511006793 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 640511006794 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 640511006795 catalytic triad [active] 640511006796 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 640511006797 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 640511006798 amidase; Provisional; Region: PRK07056 640511006799 Amidase; Region: Amidase; cl11426 640511006800 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 640511006801 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 640511006802 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 640511006803 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 640511006804 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 640511006805 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 640511006806 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 640511006807 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640511006808 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 640511006809 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 640511006810 XdhC Rossmann domain; Region: XdhC_C; pfam13478 640511006811 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 640511006812 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 640511006813 active site 640511006814 purine riboside binding site [chemical binding]; other site 640511006815 guanine deaminase; Provisional; Region: PRK09228 640511006816 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 640511006817 active site 640511006818 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 640511006819 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511006820 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 640511006821 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 640511006822 dimer interface [polypeptide binding]; other site 640511006823 active site 640511006824 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 640511006825 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 640511006826 dimer interface [polypeptide binding]; other site 640511006827 active site 640511006828 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640511006829 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511006830 NAD(P) binding site [chemical binding]; other site 640511006831 active site 640511006832 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 640511006833 putative active site 1 [active] 640511006834 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 640511006835 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 640511006836 dimer interface [polypeptide binding]; other site 640511006837 active site 640511006838 Predicted exporter [General function prediction only]; Region: COG4258 640511006839 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 640511006840 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 640511006841 active site 640511006842 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 640511006843 active sites [active] 640511006844 tetramer interface [polypeptide binding]; other site 640511006845 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 640511006846 Ligand binding site; other site 640511006847 Putative Catalytic site; other site 640511006848 DXD motif; other site 640511006849 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 640511006850 putative acyl-acceptor binding pocket; other site 640511006851 AMP-binding enzyme; Region: AMP-binding; cl15778 640511006852 peptide synthase; Provisional; Region: PRK12467 640511006853 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 640511006854 active site 2 [active] 640511006855 dimer interface [polypeptide binding]; other site 640511006856 active site 1 [active] 640511006857 Predicted membrane protein [Function unknown]; Region: COG4648 640511006858 Phosphopantetheine attachment site; Region: PP-binding; cl09936 640511006859 Phosphopantetheine attachment site; Region: PP-binding; cl09936 640511006860 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 640511006861 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 640511006862 putative acyl-acceptor binding pocket; other site 640511006863 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 640511006864 Predicted membrane protein [Function unknown]; Region: COG2119 640511006865 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 640511006866 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 640511006867 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 640511006868 aminopeptidase N; Provisional; Region: pepN; PRK14015 640511006869 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 640511006870 active site 640511006871 Zn binding site [ion binding]; other site 640511006872 fructose-1,6-bisphosphatase family protein; Region: PLN02628 640511006873 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 640511006874 AMP binding site [chemical binding]; other site 640511006875 metal binding site [ion binding]; metal-binding site 640511006876 active site 640511006877 Chorismate mutase type II; Region: CM_2; cl00693 640511006878 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 640511006879 active site 640511006880 catalytic site [active] 640511006881 substrate binding site [chemical binding]; other site 640511006882 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 640511006883 GIY-YIG motif/motif A; other site 640511006884 active site 640511006885 catalytic site [active] 640511006886 putative DNA binding site [nucleotide binding]; other site 640511006887 metal binding site [ion binding]; metal-binding site 640511006888 nucleotide excision repair endonuclease; Provisional; Region: PRK10545 640511006889 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 640511006890 DNA-binding site [nucleotide binding]; DNA binding site 640511006891 RNA-binding motif; other site 640511006892 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 640511006893 trimer interface [polypeptide binding]; other site 640511006894 eyelet of channel; other site 640511006895 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 640511006896 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 640511006897 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 640511006898 Protein of unknown function (DUF2591); Region: DUF2591; cl11584 640511006899 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 640511006900 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 640511006901 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 640511006902 synthetase active site [active] 640511006903 NTP binding site [chemical binding]; other site 640511006904 metal binding site [ion binding]; metal-binding site 640511006905 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 640511006906 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 640511006907 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 640511006908 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 640511006909 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 640511006910 catalytic site [active] 640511006911 G-X2-G-X-G-K; other site 640511006912 hypothetical protein; Provisional; Region: PRK11820 640511006913 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 640511006914 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 640511006915 ribonuclease PH; Reviewed; Region: rph; PRK00173 640511006916 Ribonuclease PH; Region: RNase_PH_bact; cd11362 640511006917 hexamer interface [polypeptide binding]; other site 640511006918 active site 640511006919 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 640511006920 active site 640511006921 dimerization interface [polypeptide binding]; other site 640511006922 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 640511006923 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 640511006924 FeS/SAM binding site; other site 640511006925 HemN C-terminal domain; Region: HemN_C; pfam06969 640511006926 Domain of unknown function (DUF4279); Region: DUF4279; pfam14106 640511006927 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 640511006928 homotrimer interaction site [polypeptide binding]; other site 640511006929 putative active site [active] 640511006930 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511006931 putative substrate translocation pore; other site 640511006932 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 640511006933 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 640511006934 inhibitor-cofactor binding pocket; inhibition site 640511006935 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511006936 catalytic residue [active] 640511006937 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 640511006938 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 640511006939 catalytic motif [active] 640511006940 Zn binding site [ion binding]; other site 640511006941 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 640511006942 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 640511006943 Lumazine binding domain; Region: Lum_binding; pfam00677 640511006944 Lumazine binding domain; Region: Lum_binding; pfam00677 640511006945 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511006946 G1 box; other site 640511006947 GTP/Mg2+ binding site [chemical binding]; other site 640511006948 G2 box; other site 640511006949 Switch I region; other site 640511006950 G3 box; other site 640511006951 Switch II region; other site 640511006952 G4 box; other site 640511006953 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 640511006954 G1 box; other site 640511006955 GTP/Mg2+ binding site [chemical binding]; other site 640511006956 G2 box; other site 640511006957 Switch I region; other site 640511006958 G3 box; other site 640511006959 Switch II region; other site 640511006960 G4 box; other site 640511006961 G5 box; other site 640511006962 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 640511006963 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 640511006964 dimer interface [polypeptide binding]; other site 640511006965 active site 640511006966 Muconolactone delta-isomerase; Region: MIase; cl01992 640511006967 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 640511006968 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 640511006969 octamer interface [polypeptide binding]; other site 640511006970 active site 640511006971 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 640511006972 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 640511006973 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511006974 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 640511006975 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 640511006976 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 640511006977 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 640511006978 putative active site pocket [active] 640511006979 putative metal binding site [ion binding]; other site 640511006980 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 640511006981 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 640511006982 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cl00522 640511006983 dimerization interface [polypeptide binding]; other site 640511006984 active site 640511006985 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 640511006986 homopentamer interface [polypeptide binding]; other site 640511006987 active site 640511006988 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 640511006989 putative RNA binding site [nucleotide binding]; other site 640511006990 aminotransferase; Validated; Region: PRK07337 640511006991 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 640511006992 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511006993 homodimer interface [polypeptide binding]; other site 640511006994 catalytic residue [active] 640511006995 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 640511006996 N-acetyl-D-glucosamine binding site [chemical binding]; other site 640511006997 catalytic residue [active] 640511006998 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 640511006999 LysE type translocator; Region: LysE; cl00565 640511007000 serine racemase; Region: PLN02970 640511007001 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 640511007002 tetramer interface [polypeptide binding]; other site 640511007003 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511007004 catalytic residue [active] 640511007005 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 640511007006 Stress responsive A/B Barrel Domain; Region: Dabb; cl15807 640511007007 YGGT family; Region: YGGT; cl00508 640511007008 YGGT family; Region: YGGT; cl00508 640511007009 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 640511007010 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 640511007011 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640511007012 dimer interface [polypeptide binding]; other site 640511007013 putative CheW interface [polypeptide binding]; other site 640511007014 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 640511007015 S-adenosylmethionine binding site [chemical binding]; other site 640511007016 Bacitracin resistance protein BacA; Region: BacA; cl00858 640511007017 Protein of unknown function (DUF1439); Region: DUF1439; cl06345 640511007018 Flagellin N-methylase; Region: FliB; cl00497 640511007019 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 640511007020 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 640511007021 FeS/SAM binding site; other site 640511007022 HemN C-terminal domain; Region: HemN_C; pfam06969 640511007023 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 640511007024 DNA-binding site [nucleotide binding]; DNA binding site 640511007025 RNA-binding motif; other site 640511007026 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 640511007027 Transcriptional activator HlyU; Region: HlyU; cl02273 640511007028 TMAO reductase sytem sensor TorS; Region: TMAO_torS; TIGR02956 640511007029 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 640511007030 dimer interface [polypeptide binding]; other site 640511007031 phosphorylation site [posttranslational modification] 640511007032 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511007033 ATP binding site [chemical binding]; other site 640511007034 G-X-G motif; other site 640511007035 Response regulator receiver domain; Region: Response_reg; pfam00072 640511007036 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511007037 active site 640511007038 phosphorylation site [posttranslational modification] 640511007039 intermolecular recognition site; other site 640511007040 dimerization interface [polypeptide binding]; other site 640511007041 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640511007042 Helix-turn-helix domains; Region: HTH; cl00088 640511007043 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 640511007044 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 640511007045 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511007046 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 640511007047 Protein of unknown function (DUF2029); Region: DUF2029; cl09812 640511007048 aromatic amino acid transporter; Provisional; Region: PRK10238 640511007049 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640511007050 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 640511007051 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_1; cd08663 640511007052 SxDxEG motif; other site 640511007053 active site 640511007054 metal binding site [ion binding]; metal-binding site 640511007055 homopentamer interface [polypeptide binding]; other site 640511007056 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 640511007057 homodimer interface [polypeptide binding]; other site 640511007058 homotetramer interface [polypeptide binding]; other site 640511007059 active site pocket [active] 640511007060 cleavage site 640511007061 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 640511007062 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511007063 dimer interface [polypeptide binding]; other site 640511007064 conserved gate region; other site 640511007065 putative PBP binding loops; other site 640511007066 ABC-ATPase subunit interface; other site 640511007067 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 640511007068 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511007069 dimer interface [polypeptide binding]; other site 640511007070 conserved gate region; other site 640511007071 putative PBP binding loops; other site 640511007072 ABC-ATPase subunit interface; other site 640511007073 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 640511007074 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 640511007075 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 640511007076 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 640511007077 Walker A/P-loop; other site 640511007078 ATP binding site [chemical binding]; other site 640511007079 Q-loop/lid; other site 640511007080 ABC transporter signature motif; other site 640511007081 Walker B; other site 640511007082 D-loop; other site 640511007083 H-loop/switch region; other site 640511007084 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640511007085 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 640511007086 Walker A/P-loop; other site 640511007087 ATP binding site [chemical binding]; other site 640511007088 Q-loop/lid; other site 640511007089 ABC transporter signature motif; other site 640511007090 Walker B; other site 640511007091 D-loop; other site 640511007092 H-loop/switch region; other site 640511007093 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640511007094 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 640511007095 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 640511007096 catalytic nucleophile [active] 640511007097 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 640511007098 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 640511007099 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 640511007100 putative active site [active] 640511007101 H+ Antiporter protein; Region: 2A0121; TIGR00900 640511007102 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 640511007103 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 640511007104 RNA binding surface [nucleotide binding]; other site 640511007105 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 640511007106 active site 640511007107 uracil binding [chemical binding]; other site 640511007108 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 640511007109 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511007110 NAD(P) binding site [chemical binding]; other site 640511007111 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511007112 active site 640511007113 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 640511007114 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 640511007115 catalytic loop [active] 640511007116 iron binding site [ion binding]; other site 640511007117 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 640511007118 FAD binding pocket [chemical binding]; other site 640511007119 FAD binding motif [chemical binding]; other site 640511007120 phosphate binding motif [ion binding]; other site 640511007121 beta-alpha-beta structure motif; other site 640511007122 NAD binding pocket [chemical binding]; other site 640511007123 acetylornithine transaminase protein; Provisional; Region: argD; PRK03715 640511007124 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 640511007125 inhibitor-cofactor binding pocket; inhibition site 640511007126 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511007127 catalytic residue [active] 640511007128 putative acetyltransferase; Provisional; Region: PRK03624 640511007129 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640511007130 Coenzyme A binding pocket [chemical binding]; other site 640511007131 GYD domain; Region: GYD; cl01743 640511007132 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 640511007133 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 640511007134 Walker A/P-loop; other site 640511007135 ATP binding site [chemical binding]; other site 640511007136 Q-loop/lid; other site 640511007137 ABC transporter signature motif; other site 640511007138 Walker B; other site 640511007139 D-loop; other site 640511007140 H-loop/switch region; other site 640511007141 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 640511007142 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 640511007143 Walker A/P-loop; other site 640511007144 ATP binding site [chemical binding]; other site 640511007145 Q-loop/lid; other site 640511007146 ABC transporter signature motif; other site 640511007147 Walker B; other site 640511007148 D-loop; other site 640511007149 H-loop/switch region; other site 640511007150 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 640511007151 TM-ABC transporter signature motif; other site 640511007152 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 640511007153 TM-ABC transporter signature motif; other site 640511007154 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 640511007155 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 640511007156 dimerization interface [polypeptide binding]; other site 640511007157 ligand binding site [chemical binding]; other site 640511007158 LytB protein; Region: LYTB; cl00507 640511007159 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 640511007160 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 640511007161 hypothetical protein; Reviewed; Region: PRK00024 640511007162 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 640511007163 MPN+ (JAMM) motif; other site 640511007164 Zinc-binding site [ion binding]; other site 640511007165 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 640511007166 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 640511007167 L-aspartate oxidase; Provisional; Region: PRK09077 640511007168 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511007169 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 640511007170 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06978 640511007171 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 640511007172 dimerization interface [polypeptide binding]; other site 640511007173 active site 640511007174 Quinolinate synthetase A protein; Region: NadA; cl00420 640511007175 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 640511007176 Di-iron ligands [ion binding]; other site 640511007177 Transposase; Region: DDE_Tnp_ISL3; pfam01610 640511007178 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 640511007179 Mechanosensitive ion channel; Region: MS_channel; pfam00924 640511007180 16S rRNA methyltransferase B; Provisional; Region: PRK14901 640511007181 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 640511007182 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 640511007183 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 640511007184 active site 640511007185 substrate binding site [chemical binding]; other site 640511007186 cosubstrate binding site; other site 640511007187 catalytic site [active] 640511007188 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 640511007189 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 640511007190 active site 640511007191 Riboflavin kinase; Region: Flavokinase; cl03312 640511007192 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 640511007193 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 640511007194 active site 640511007195 HIGH motif; other site 640511007196 nucleotide binding site [chemical binding]; other site 640511007197 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 640511007198 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 640511007199 active site 640511007200 KMSKS motif; other site 640511007201 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 640511007202 tRNA binding surface [nucleotide binding]; other site 640511007203 anticodon binding site; other site 640511007204 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 640511007205 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 640511007206 lipoprotein signal peptidase; Provisional; Region: PRK14787 640511007207 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 640511007208 Flavoprotein; Region: Flavoprotein; cl08021 640511007209 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 640511007210 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 640511007211 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 640511007212 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 640511007213 trimer interface [polypeptide binding]; other site 640511007214 active site 640511007215 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 640511007216 Clp amino terminal domain; Region: Clp_N; pfam02861 640511007217 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 640511007218 Walker A motif; other site 640511007219 ATP binding site [chemical binding]; other site 640511007220 Walker B motif; other site 640511007221 arginine finger; other site 640511007222 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 640511007223 Walker A motif; other site 640511007224 ATP binding site [chemical binding]; other site 640511007225 Walker B motif; other site 640511007226 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 640511007227 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 640511007228 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 640511007229 DNA-binding site [nucleotide binding]; DNA binding site 640511007230 RNA-binding motif; other site 640511007231 isocitrate dehydrogenase; Validated; Region: PRK07362 640511007232 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 640511007233 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 640511007234 pseudouridine synthase; Region: TIGR00093 640511007235 active site 640511007236 Uncharacterized ACR, COG1430; Region: DUF192; cl00627 640511007237 elongation factor G; Reviewed; Region: PRK00007 640511007238 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 640511007239 G1 box; other site 640511007240 putative GEF interaction site [polypeptide binding]; other site 640511007241 GTP/Mg2+ binding site [chemical binding]; other site 640511007242 Switch I region; other site 640511007243 G2 box; other site 640511007244 G3 box; other site 640511007245 Switch II region; other site 640511007246 G4 box; other site 640511007247 G5 box; other site 640511007248 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 640511007249 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 640511007250 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 640511007251 Cupin domain; Region: Cupin_2; cl09118 640511007252 High-affinity nickel-transport protein; Region: NicO; cl00964 640511007253 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 640511007254 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 640511007255 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 640511007256 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage...; Region: Peptidase_C39_like; cl00296 640511007257 putative active site [active] 640511007258 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 640511007259 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 640511007260 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511007261 Walker A/P-loop; other site 640511007262 ATP binding site [chemical binding]; other site 640511007263 Q-loop/lid; other site 640511007264 ABC transporter signature motif; other site 640511007265 Walker B; other site 640511007266 D-loop; other site 640511007267 H-loop/switch region; other site 640511007268 transcriptional regulator RcsB; Provisional; Region: PRK10840 640511007269 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511007270 active site 640511007271 phosphorylation site [posttranslational modification] 640511007272 intermolecular recognition site; other site 640511007273 dimerization interface [polypeptide binding]; other site 640511007274 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 640511007275 dimerization interface [polypeptide binding]; other site 640511007276 DNA binding residues [nucleotide binding] 640511007277 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 640511007278 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 640511007279 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 640511007280 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511007281 homodimer interface [polypeptide binding]; other site 640511007282 catalytic residue [active] 640511007283 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 640511007284 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 640511007285 ATP-grasp domain; Region: ATP-grasp_4; cl03087 640511007286 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640511007287 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 640511007288 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 640511007289 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 640511007290 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640511007291 ligand binding site [chemical binding]; other site 640511007292 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 640511007293 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 640511007294 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 640511007295 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 640511007296 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 640511007297 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 640511007298 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 640511007299 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 640511007300 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 640511007301 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 640511007302 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 640511007303 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511007304 dimer interface [polypeptide binding]; other site 640511007305 conserved gate region; other site 640511007306 putative PBP binding loops; other site 640511007307 ABC-ATPase subunit interface; other site 640511007308 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 640511007309 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511007310 putative PBP binding loops; other site 640511007311 dimer interface [polypeptide binding]; other site 640511007312 ABC-ATPase subunit interface; other site 640511007313 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 640511007314 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 640511007315 Walker A/P-loop; other site 640511007316 ATP binding site [chemical binding]; other site 640511007317 Q-loop/lid; other site 640511007318 ABC transporter signature motif; other site 640511007319 Walker B; other site 640511007320 D-loop; other site 640511007321 H-loop/switch region; other site 640511007322 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640511007323 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 640511007324 Walker A/P-loop; other site 640511007325 ATP binding site [chemical binding]; other site 640511007326 Q-loop/lid; other site 640511007327 ABC transporter signature motif; other site 640511007328 Walker B; other site 640511007329 D-loop; other site 640511007330 H-loop/switch region; other site 640511007331 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640511007332 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 640511007333 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 640511007334 active site 640511007335 catalytic tetrad [active] 640511007336 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 640511007337 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511007338 DNA-binding site [nucleotide binding]; DNA binding site 640511007339 UTRA domain; Region: UTRA; cl01230 640511007340 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640511007341 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 640511007342 DNA binding residues [nucleotide binding] 640511007343 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 640511007344 active site 640511007345 coenzyme A binding site [chemical binding]; other site 640511007346 citrylCoA binding site [chemical binding]; other site 640511007347 dimer interface [polypeptide binding]; other site 640511007348 Citrate synthase; Region: Citrate_synt; pfam00285 640511007349 oxalacetate/citrate binding site [chemical binding]; other site 640511007350 catalytic triad [active] 640511007351 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 640511007352 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 640511007353 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511007354 DNA-binding site [nucleotide binding]; DNA binding site 640511007355 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 640511007356 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511007357 homodimer interface [polypeptide binding]; other site 640511007358 catalytic residue [active] 640511007359 putative transporter; Provisional; Region: PRK10504 640511007360 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511007361 putative substrate translocation pore; other site 640511007362 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511007363 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 640511007364 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640511007365 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 640511007366 Clp protease; Region: CLP_protease; pfam00574 640511007367 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 640511007368 oligomer interface [polypeptide binding]; other site 640511007369 active site residues [active] 640511007370 LabA_like proteins; Region: LabA_like; cd06167 640511007371 putative metal binding site [ion binding]; other site 640511007372 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 640511007373 Glycine-zipper containing OmpA-like membrane domain; Region: Gly-zipper_OmpA; pfam13436 640511007374 superoxide dismutase; Provisional; Region: PRK10543 640511007375 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 640511007376 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 640511007377 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 640511007378 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 640511007379 generic binding surface II; other site 640511007380 generic binding surface I; other site 640511007381 tetraacyldisaccharide 4'-kinase; Provisional; Region: PRK01906 640511007382 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 640511007383 Trm112p-like protein; Region: Trm112p; cl01066 640511007384 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 640511007385 Ligand binding site; other site 640511007386 oligomer interface; other site 640511007387 adenylate kinase; Reviewed; Region: adk; PRK00279 640511007388 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 640511007389 AMP-binding site [chemical binding]; other site 640511007390 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 640511007391 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 640511007392 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 640511007393 NAD binding site [chemical binding]; other site 640511007394 homodimer interface [polypeptide binding]; other site 640511007395 homotetramer interface [polypeptide binding]; other site 640511007396 active site 640511007397 Uncharacterized conserved protein [Function unknown]; Region: COG2912 640511007398 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 640511007399 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 640511007400 TPR motif; other site 640511007401 binding surface 640511007402 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 640511007403 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 640511007404 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 640511007405 ornithine carbamoyltransferase; Provisional; Region: PRK00779 640511007406 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 640511007407 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511007408 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 640511007409 FAD binding domain; Region: FAD_binding_4; pfam01565 640511007410 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 640511007411 Protein of unknown function (DUF520); Region: DUF520; cl00723 640511007412 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 640511007413 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 640511007414 putative deacylase active site [active] 640511007415 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 640511007416 AMP-binding enzyme; Region: AMP-binding; cl15778 640511007417 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 640511007418 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 640511007419 active site 640511007420 Int/Topo IB signature motif; other site 640511007421 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 640511007422 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 640511007423 DNA binding site [nucleotide binding] 640511007424 active site 640511007425 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 640511007426 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 640511007427 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 640511007428 AMIN domain; Region: AMIN; pfam11741 640511007429 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 640511007430 active site 640511007431 metal binding site [ion binding]; metal-binding site 640511007432 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 640511007433 EamA-like transporter family; Region: EamA; cl01037 640511007434 Pirin-related protein [General function prediction only]; Region: COG1741 640511007435 Cupin domain; Region: Cupin_2; cl09118 640511007436 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 640511007437 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 640511007438 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 640511007439 catalytic residues [active] 640511007440 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 640511007441 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 640511007442 putative ATP binding site [chemical binding]; other site 640511007443 putative substrate interface [chemical binding]; other site 640511007444 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 640511007445 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 640511007446 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 640511007447 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 640511007448 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 640511007449 S-adenosylmethionine binding site [chemical binding]; other site 640511007450 Protein of unknown function DUF72; Region: DUF72; cl00777 640511007451 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 640511007452 Flavin Reductases; Region: FlaRed; cl00801 640511007453 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 640511007454 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 640511007455 putative DNA binding site [nucleotide binding]; other site 640511007456 putative Zn2+ binding site [ion binding]; other site 640511007457 AsnC family; Region: AsnC_trans_reg; pfam01037 640511007458 Putative cyclase; Region: Cyclase; cl00814 640511007459 kynureninase; Region: kynureninase; TIGR01814 640511007460 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 640511007461 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640511007462 catalytic residue [active] 640511007463 Tryptophan 2,3-dioxygenase; Region: Trp_dioxygenase; cl03994 640511007464 putative FAD-binding dehydrogenase; Reviewed; Region: PRK06134 640511007465 short chain dehydrogenase; Provisional; Region: PRK07060 640511007466 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511007467 NAD(P) binding site [chemical binding]; other site 640511007468 active site 640511007469 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 640511007470 uncharacterized xylulose kinase-like proteins, subgroup 1; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_XK_like_1; cd07804 640511007471 N- and C-terminal domain interface [polypeptide binding]; other site 640511007472 putative active site [active] 640511007473 catalytic site [active] 640511007474 metal binding site [ion binding]; metal-binding site 640511007475 putative xylulose binding site [chemical binding]; other site 640511007476 putative ATP binding site [chemical binding]; other site 640511007477 putative homodimer interface [polypeptide binding]; other site 640511007478 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 640511007479 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH2; cd08256 640511007480 putative NAD(P) binding site [chemical binding]; other site 640511007481 catalytic Zn binding site [ion binding]; other site 640511007482 structural Zn binding site [ion binding]; other site 640511007483 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 640511007484 TM-ABC transporter signature motif; other site 640511007485 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 640511007486 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 640511007487 Walker A/P-loop; other site 640511007488 ATP binding site [chemical binding]; other site 640511007489 Q-loop/lid; other site 640511007490 ABC transporter signature motif; other site 640511007491 Walker B; other site 640511007492 D-loop; other site 640511007493 H-loop/switch region; other site 640511007494 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 640511007495 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 640511007496 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_11; cd06321 640511007497 putative ligand binding site [chemical binding]; other site 640511007498 Cupin domain; Region: Cupin_2; cl09118 640511007499 Helix-turn-helix domain; Region: HTH_18; pfam12833 640511007500 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 640511007501 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 640511007502 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 640511007503 D-xylulose kinases, Escherichia coli xylulokinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 640511007504 N- and C-terminal domain interface [polypeptide binding]; other site 640511007505 D-xylulose kinase; Region: XylB; TIGR01312 640511007506 active site 640511007507 catalytic site [active] 640511007508 metal binding site [ion binding]; metal-binding site 640511007509 xylulose binding site [chemical binding]; other site 640511007510 putative ATP binding site [chemical binding]; other site 640511007511 homodimer interface [polypeptide binding]; other site 640511007512 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 640511007513 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 640511007514 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 640511007515 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 640511007516 Walker A/P-loop; other site 640511007517 ATP binding site [chemical binding]; other site 640511007518 Q-loop/lid; other site 640511007519 ABC transporter signature motif; other site 640511007520 Walker B; other site 640511007521 D-loop; other site 640511007522 H-loop/switch region; other site 640511007523 TOBE domain; Region: TOBE_2; cl01440 640511007524 TOBE domain; Region: TOBE_2; cl01440 640511007525 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 640511007526 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 640511007527 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 640511007528 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511007529 dimer interface [polypeptide binding]; other site 640511007530 conserved gate region; other site 640511007531 putative PBP binding loops; other site 640511007532 ABC-ATPase subunit interface; other site 640511007533 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 640511007534 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 640511007535 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511007536 putative PBP binding loops; other site 640511007537 dimer interface [polypeptide binding]; other site 640511007538 ABC-ATPase subunit interface; other site 640511007539 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 640511007540 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 640511007541 sorbitol dehydrogenase; Provisional; Region: PRK07067 640511007542 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511007543 NAD(P) binding site [chemical binding]; other site 640511007544 active site 640511007545 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 640511007546 metal binding site 2 [ion binding]; metal-binding site 640511007547 putative DNA binding helix; other site 640511007548 metal binding site 1 [ion binding]; metal-binding site 640511007549 dimer interface [polypeptide binding]; other site 640511007550 structural Zn2+ binding site [ion binding]; other site 640511007551 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 640511007552 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 640511007553 metal binding site [ion binding]; metal-binding site 640511007554 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 640511007555 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 640511007556 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 640511007557 Predicted esterase [General function prediction only]; Region: COG0627 640511007558 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 640511007559 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 640511007560 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 640511007561 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 640511007562 N- and C-terminal domain interface [polypeptide binding]; other site 640511007563 D-xylulose kinase; Region: XylB; TIGR01312 640511007564 active site 640511007565 MgATP binding site [chemical binding]; other site 640511007566 catalytic site [active] 640511007567 metal binding site [ion binding]; metal-binding site 640511007568 carbohydrate binding site [chemical binding]; other site 640511007569 xanthine permease; Region: pbuX; TIGR03173 640511007570 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640511007571 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 640511007572 Protein export membrane protein; Region: SecD_SecF; cl14618 640511007573 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 640511007574 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 640511007575 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 640511007576 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 640511007577 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 640511007578 Helix-turn-helix domains; Region: HTH; cl00088 640511007579 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 640511007580 Isochorismatase family; Region: Isochorismatase; pfam00857 640511007581 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 640511007582 catalytic triad [active] 640511007583 conserved cis-peptide bond; other site 640511007584 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 640511007585 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 640511007586 conserved cys residue [active] 640511007587 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 640511007588 putative hydrophobic ligand binding site [chemical binding]; other site 640511007589 Domain of unknown function (DUF427); Region: DUF427; cl00998 640511007590 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 640511007591 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 640511007592 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 640511007593 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 640511007594 protein binding site [polypeptide binding]; other site 640511007595 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 640511007596 protein binding site [polypeptide binding]; other site 640511007597 sensor protein QseC; Provisional; Region: PRK10337 640511007598 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511007599 ATP binding site [chemical binding]; other site 640511007600 Mg2+ binding site [ion binding]; other site 640511007601 G-X-G motif; other site 640511007602 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 640511007603 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511007604 active site 640511007605 phosphorylation site [posttranslational modification] 640511007606 intermolecular recognition site; other site 640511007607 dimerization interface [polypeptide binding]; other site 640511007608 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 640511007609 DNA binding site [nucleotide binding] 640511007610 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 640511007611 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 640511007612 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 640511007613 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 640511007614 active site 640511007615 catalytic triad [active] 640511007616 oxyanion hole [active] 640511007617 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 640511007618 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 640511007619 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 640511007620 ATP-grasp domain; Region: ATP-grasp_4; cl03087 640511007621 AIR carboxylase; Region: AIRC; cl00310 640511007622 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 640511007623 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 640511007624 ATP binding site [chemical binding]; other site 640511007625 active site 640511007626 substrate binding site [chemical binding]; other site 640511007627 hypothetical protein; Provisional; Region: PRK08185 640511007628 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 640511007629 intersubunit interface [polypeptide binding]; other site 640511007630 active site 640511007631 zinc binding site [ion binding]; other site 640511007632 Na+ binding site [ion binding]; other site 640511007633 pyruvate kinase; Provisional; Region: PRK05826 640511007634 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 640511007635 domain interfaces; other site 640511007636 active site 640511007637 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cl00198 640511007638 Phosphoglycerate kinase; Region: PGK; pfam00162 640511007639 substrate binding site [chemical binding]; other site 640511007640 hinge regions; other site 640511007641 ADP binding site [chemical binding]; other site 640511007642 catalytic site [active] 640511007643 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 640511007644 AzlC protein; Region: AzlC; cl00570 640511007645 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 640511007646 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 640511007647 homodimer interface [polypeptide binding]; other site 640511007648 substrate-cofactor binding pocket; other site 640511007649 catalytic residue [active] 640511007650 Zinc-finger domain; Region: zf-CHCC; cl01821 640511007651 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 640511007652 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 640511007653 putative active site [active] 640511007654 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 640511007655 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 640511007656 Protein of unknown function (DUF2946); Region: DUF2944; pfam11161 640511007657 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 640511007658 Peptidase family M48; Region: Peptidase_M48; cl12018 640511007659 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 640511007660 trimer interface [polypeptide binding]; other site 640511007661 dimer interface [polypeptide binding]; other site 640511007662 putative active site [active] 640511007663 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 640511007664 homodimer interface [polypeptide binding]; other site 640511007665 chemical substrate binding site [chemical binding]; other site 640511007666 oligomer interface [polypeptide binding]; other site 640511007667 metal binding site [ion binding]; metal-binding site 640511007668 O-Antigen ligase; Region: Wzy_C; cl04850 640511007669 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 640511007670 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 640511007671 Integral membrane protein TerC family; Region: TerC; cl10468 640511007672 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 640511007673 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511007674 CoA-ligase; Region: Ligase_CoA; cl02894 640511007675 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 640511007676 ATP-grasp domain; Region: ATP-grasp_4; cl03087 640511007677 CoA-ligase; Region: Ligase_CoA; cl02894 640511007678 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 640511007679 RecX family; Region: RecX; cl00936 640511007680 recombinase A; Provisional; Region: recA; PRK09354 640511007681 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 640511007682 hexamer interface [polypeptide binding]; other site 640511007683 Walker A motif; other site 640511007684 ATP binding site [chemical binding]; other site 640511007685 Walker B motif; other site 640511007686 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 640511007687 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511007688 active site 640511007689 phosphorylation site [posttranslational modification] 640511007690 intermolecular recognition site; other site 640511007691 dimerization interface [polypeptide binding]; other site 640511007692 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 640511007693 DNA binding site [nucleotide binding] 640511007694 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 640511007695 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640511007696 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 640511007697 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 640511007698 dimer interface [polypeptide binding]; other site 640511007699 phosphorylation site [posttranslational modification] 640511007700 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511007701 ATP binding site [chemical binding]; other site 640511007702 Mg2+ binding site [ion binding]; other site 640511007703 G-X-G motif; other site 640511007704 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511007705 putative substrate translocation pore; other site 640511007706 metabolite-proton symporter; Region: 2A0106; TIGR00883 640511007707 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511007708 putative substrate translocation pore; other site 640511007709 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 640511007710 NMT1-like family; Region: NMT1_2; cl15260 640511007711 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 640511007712 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 640511007713 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 640511007714 Walker A/P-loop; other site 640511007715 ATP binding site [chemical binding]; other site 640511007716 Q-loop/lid; other site 640511007717 ABC transporter signature motif; other site 640511007718 Walker B; other site 640511007719 D-loop; other site 640511007720 H-loop/switch region; other site 640511007721 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 640511007722 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 640511007723 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 640511007724 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 640511007725 urea carboxylase; Region: urea_carbox; TIGR02712 640511007726 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 640511007727 ATP-grasp domain; Region: ATP-grasp_4; cl03087 640511007728 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 640511007729 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 640511007730 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 640511007731 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 640511007732 carboxyltransferase (CT) interaction site; other site 640511007733 biotinylation site [posttranslational modification]; other site 640511007734 allophanate hydrolase; Provisional; Region: PRK08186 640511007735 Amidase; Region: Amidase; cl11426 640511007736 Helix-turn-helix domains; Region: HTH; cl00088 640511007737 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640511007738 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511007739 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640511007740 putative substrate translocation pore; other site 640511007741 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511007742 Transcriptional regulators [Transcription]; Region: FadR; COG2186 640511007743 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511007744 DNA-binding site [nucleotide binding]; DNA binding site 640511007745 galactonate dehydratase; Provisional; Region: PRK14017 640511007746 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 640511007747 putative active site pocket [active] 640511007748 putative metal binding site [ion binding]; other site 640511007749 Copper resistance protein D; Region: CopD; cl00563 640511007750 Bacterial Ig-like domain; Region: Big_5; cl01012 640511007751 Cytochrome c; Region: Cytochrom_C; cl11414 640511007752 Cytochrome c; Region: Cytochrom_C; cl11414 640511007753 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640511007754 Cytochrome c [Energy production and conversion]; Region: COG3258 640511007755 Cytochrome c; Region: Cytochrom_C; cl11414 640511007756 Haemolysin-III related; Region: HlyIII; cl03831 640511007757 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 640511007758 ATP binding site [chemical binding]; other site 640511007759 Mg++ binding site [ion binding]; other site 640511007760 motif III; other site 640511007761 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 640511007762 nucleotide binding region [chemical binding]; other site 640511007763 ATP-binding site [chemical binding]; other site 640511007764 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 640511007765 dinuclear metal binding motif [ion binding]; other site 640511007766 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511007767 metabolite-proton symporter; Region: 2A0106; TIGR00883 640511007768 putative substrate translocation pore; other site 640511007769 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 640511007770 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 640511007771 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 640511007772 Helix-turn-helix domains; Region: HTH; cl00088 640511007773 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 640511007774 Helix-turn-helix domains; Region: HTH; cl00088 640511007775 WHG domain; Region: WHG; pfam13305 640511007776 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 640511007777 glycerol kinase; Provisional; Region: glpK; PRK00047 640511007778 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 640511007779 N- and C-terminal domain interface [polypeptide binding]; other site 640511007780 active site 640511007781 MgATP binding site [chemical binding]; other site 640511007782 catalytic site [active] 640511007783 metal binding site [ion binding]; metal-binding site 640511007784 glycerol binding site [chemical binding]; other site 640511007785 homotetramer interface [polypeptide binding]; other site 640511007786 homodimer interface [polypeptide binding]; other site 640511007787 FBP binding site [chemical binding]; other site 640511007788 protein IIAGlc interface [polypeptide binding]; other site 640511007789 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 640511007790 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 640511007791 active site 640511007792 motif I; other site 640511007793 motif II; other site 640511007794 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 640511007795 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 640511007796 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 640511007797 non-specific DNA binding site [nucleotide binding]; other site 640511007798 salt bridge; other site 640511007799 sequence-specific DNA binding site [nucleotide binding]; other site 640511007800 Cupin domain; Region: Cupin_2; cl09118 640511007801 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 640511007802 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511007803 putative substrate translocation pore; other site 640511007804 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 640511007805 dimer interface [polypeptide binding]; other site 640511007806 putative metal binding site [ion binding]; other site 640511007807 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511007808 Helix-turn-helix domains; Region: HTH; cl00088 640511007809 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 640511007810 putative effector binding pocket; other site 640511007811 dimerization interface [polypeptide binding]; other site 640511007812 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 640511007813 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 640511007814 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 640511007815 FeS/SAM binding site; other site 640511007816 TRAM domain; Region: TRAM; cl01282 640511007817 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 640511007818 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511007819 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 640511007820 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 640511007821 putative active site pocket [active] 640511007822 dimerization interface [polypeptide binding]; other site 640511007823 putative catalytic residue [active] 640511007824 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 640511007825 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 640511007826 Transporter associated domain; Region: CorC_HlyC; cl08393 640511007827 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 640511007828 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 640511007829 putative active site [active] 640511007830 catalytic triad [active] 640511007831 putative dimer interface [polypeptide binding]; other site 640511007832 putative glutathione S-transferase; Provisional; Region: PRK10357 640511007833 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 640511007834 putative C-terminal domain interface [polypeptide binding]; other site 640511007835 putative GSH binding site (G-site) [chemical binding]; other site 640511007836 putative dimer interface [polypeptide binding]; other site 640511007837 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 640511007838 dimer interface [polypeptide binding]; other site 640511007839 N-terminal domain interface [polypeptide binding]; other site 640511007840 putative substrate binding pocket (H-site) [chemical binding]; other site 640511007841 Aminopeptidase P, N-terminal domain; Region: AMP_N; cl08433 640511007842 proline aminopeptidase P II; Provisional; Region: PRK10879 640511007843 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 640511007844 active site 640511007845 hypothetical protein; Provisional; Region: PRK06996 640511007846 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511007847 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 640511007848 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 640511007849 FMN binding site [chemical binding]; other site 640511007850 active site 640511007851 catalytic residues [active] 640511007852 substrate binding site [chemical binding]; other site 640511007853 Helix-turn-helix domains; Region: HTH; cl00088 640511007854 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 640511007855 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 640511007856 purine monophosphate binding site [chemical binding]; other site 640511007857 dimer interface [polypeptide binding]; other site 640511007858 putative catalytic residues [active] 640511007859 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 640511007860 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 640511007861 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cd00529 640511007862 active site 640511007863 putative DNA-binding cleft [nucleotide binding]; other site 640511007864 dimer interface [polypeptide binding]; other site 640511007865 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 640511007866 RuvA N terminal domain; Region: RuvA_N; pfam01330 640511007867 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 640511007868 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 640511007869 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 640511007870 Walker A motif; other site 640511007871 ATP binding site [chemical binding]; other site 640511007872 Walker B motif; other site 640511007873 arginine finger; other site 640511007874 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 640511007875 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 640511007876 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 640511007877 catalytic core [active] 640511007878 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 640511007879 putative active site [active] 640511007880 dimerization interface [polypeptide binding]; other site 640511007881 putative tRNAtyr binding site [nucleotide binding]; other site 640511007882 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 640511007883 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 640511007884 active site 640511007885 HIGH motif; other site 640511007886 dimer interface [polypeptide binding]; other site 640511007887 KMSKS motif; other site 640511007888 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 640511007889 RNA binding surface [nucleotide binding]; other site 640511007890 Uncharacterized protein family (UPF0075); Region: UPF0075; cl04217 640511007891 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 640511007892 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 640511007893 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 640511007894 23S rRNA interface [nucleotide binding]; other site 640511007895 L3 interface [polypeptide binding]; other site 640511007896 OsmC-like protein; Region: OsmC; cl00767 640511007897 Protein of unknown function (DUF3025); Region: DUF3025; pfam11227 640511007898 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 640511007899 active site 640511007900 substrate binding pocket [chemical binding]; other site 640511007901 dimer interface [polypeptide binding]; other site 640511007902 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 640511007903 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 640511007904 putative active site [active] 640511007905 putative dimer interface [polypeptide binding]; other site 640511007906 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 640511007907 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 640511007908 Walker A/P-loop; other site 640511007909 ATP binding site [chemical binding]; other site 640511007910 Q-loop/lid; other site 640511007911 ABC transporter signature motif; other site 640511007912 Walker B; other site 640511007913 D-loop; other site 640511007914 H-loop/switch region; other site 640511007915 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640511007916 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511007917 dimer interface [polypeptide binding]; other site 640511007918 conserved gate region; other site 640511007919 putative PBP binding loops; other site 640511007920 ABC-ATPase subunit interface; other site 640511007921 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640511007922 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511007923 dimer interface [polypeptide binding]; other site 640511007924 conserved gate region; other site 640511007925 putative PBP binding loops; other site 640511007926 ABC-ATPase subunit interface; other site 640511007927 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 640511007928 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 640511007929 substrate binding pocket [chemical binding]; other site 640511007930 membrane-bound complex binding site; other site 640511007931 hinge residues; other site 640511007932 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 640511007933 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 640511007934 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 640511007935 NAD(P) binding site [chemical binding]; other site 640511007936 cell density-dependent motility repressor; Provisional; Region: PRK10082 640511007937 Helix-turn-helix domains; Region: HTH; cl00088 640511007938 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 640511007939 dimerization interface [polypeptide binding]; other site 640511007940 adenylosuccinate lyase; Provisional; Region: PRK09285 640511007941 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 640511007942 tetramer interface [polypeptide binding]; other site 640511007943 active site 640511007944 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 640511007945 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 640511007946 ATP-binding site [chemical binding]; other site 640511007947 Gluconate-6-phosphate binding site [chemical binding]; other site 640511007948 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 640511007949 GntP family permease; Region: GntP_permease; pfam02447 640511007950 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 640511007951 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 640511007952 active site 640511007953 intersubunit interface [polypeptide binding]; other site 640511007954 catalytic residue [active] 640511007955 Dehydratase family; Region: ILVD_EDD; cl00340 640511007956 6-phosphogluconate dehydratase; Region: edd; TIGR01196 640511007957 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 640511007958 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 640511007959 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 640511007960 putative active site [active] 640511007961 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 640511007962 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 640511007963 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 640511007964 putative catalytic cysteine [active] 640511007965 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 640511007966 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 640511007967 Lipopolysaccharide-assembly; Region: LptE; cl01125 640511007968 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 640511007969 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 640511007970 HIGH motif; other site 640511007971 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 640511007972 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 640511007973 active site 640511007974 KMSKS motif; other site 640511007975 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 640511007976 tRNA binding surface [nucleotide binding]; other site 640511007977 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 640511007978 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 640511007979 dihydrodipicolinate reductase; Provisional; Region: PRK00048 640511007980 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511007981 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 640511007982 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 640511007983 ferric uptake regulator; Provisional; Region: fur; PRK09462 640511007984 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 640511007985 metal binding site 2 [ion binding]; metal-binding site 640511007986 putative DNA binding helix; other site 640511007987 metal binding site 1 [ion binding]; metal-binding site 640511007988 dimer interface [polypeptide binding]; other site 640511007989 structural Zn2+ binding site [ion binding]; other site 640511007990 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; cl01250 640511007991 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 640511007992 allantoicase; Provisional; Region: PRK13257 640511007993 Allantoicase repeat; Region: Allantoicase; pfam03561 640511007994 Allantoicase repeat; Region: Allantoicase; pfam03561 640511007995 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 640511007996 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 640511007997 Transcriptional regulators [Transcription]; Region: FadR; COG2186 640511007998 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511007999 DNA-binding site [nucleotide binding]; DNA binding site 640511008000 FCD domain; Region: FCD; cl11656 640511008001 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511008002 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 640511008003 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 640511008004 transketolase; Reviewed; Region: PRK12753 640511008005 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 640511008006 TPP-binding site [chemical binding]; other site 640511008007 dimer interface [polypeptide binding]; other site 640511008008 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 640511008009 PYR/PP interface [polypeptide binding]; other site 640511008010 dimer interface [polypeptide binding]; other site 640511008011 TPP binding site [chemical binding]; other site 640511008012 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 640511008013 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 640511008014 putative dimer interface [polypeptide binding]; other site 640511008015 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 640511008016 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 640511008017 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 640511008018 putative RNAase interaction site [polypeptide binding]; other site 640511008019 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 640511008020 active site 640511008021 barstar interaction site; other site 640511008022 malic enzyme; Reviewed; Region: PRK12862 640511008023 Malic enzyme, N-terminal domain; Region: malic; pfam00390 640511008024 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 640511008025 putative NAD(P) binding site [chemical binding]; other site 640511008026 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 640511008027 thiamine monophosphate kinase; Provisional; Region: PRK05731 640511008028 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 640511008029 ATP binding site [chemical binding]; other site 640511008030 dimerization interface [polypeptide binding]; other site 640511008031 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 640511008032 tetramer interfaces [polypeptide binding]; other site 640511008033 binuclear metal-binding site [ion binding]; other site 640511008034 Competence-damaged protein; Region: CinA; cl00666 640511008035 Cupin superfamily (DUF985); Region: Cupin_5; cl01418 640511008036 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase contains two...; Region: OMP_decarboxylase_like; cd04725 640511008037 active site 640511008038 dimer interface [polypeptide binding]; other site 640511008039 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 640511008040 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 640511008041 active site 640511008042 catalytic residues [active] 640511008043 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 640511008044 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 640511008045 classical (c) SDRs; Region: SDR_c; cd05233 640511008046 NAD(P) binding site [chemical binding]; other site 640511008047 active site 640511008048 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 640511008049 TM-ABC transporter signature motif; other site 640511008050 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 640511008051 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 640511008052 Walker A/P-loop; other site 640511008053 ATP binding site [chemical binding]; other site 640511008054 Q-loop/lid; other site 640511008055 ABC transporter signature motif; other site 640511008056 Walker B; other site 640511008057 D-loop; other site 640511008058 H-loop/switch region; other site 640511008059 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 640511008060 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 640511008061 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 640511008062 ligand binding site [chemical binding]; other site 640511008063 short chain dehydrogenase; Provisional; Region: PRK07063 640511008064 classical (c) SDRs; Region: SDR_c; cd05233 640511008065 NAD(P) binding site [chemical binding]; other site 640511008066 active site 640511008067 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 640511008068 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 640511008069 active site 640511008070 intersubunit interface [polypeptide binding]; other site 640511008071 catalytic residue [active] 640511008072 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 640511008073 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 640511008074 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640511008075 Helix-turn-helix domains; Region: HTH; cl00088 640511008076 Bacterial transcriptional regulator; Region: IclR; pfam01614 640511008077 Transglycosylase; Region: Transgly; cl07896 640511008078 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 640511008079 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 640511008080 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 640511008081 shikimate binding site; other site 640511008082 NAD(P) binding site [chemical binding]; other site 640511008083 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 640511008084 RNB domain; Region: RNB; pfam00773 640511008085 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 640511008086 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640511008087 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 640511008088 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 640511008089 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 640511008090 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 640511008091 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 640511008092 catalytic residues [active] 640511008093 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 640511008094 active site 640511008095 trimer interface [polypeptide binding]; other site 640511008096 dimer interface [polypeptide binding]; other site 640511008097 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 640511008098 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 640511008099 carboxyltransferase (CT) interaction site; other site 640511008100 biotinylation site [posttranslational modification]; other site 640511008101 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 640511008102 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 640511008103 ATP-grasp domain; Region: ATP-grasp_4; cl03087 640511008104 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 640511008105 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 640511008106 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 640511008107 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 640511008108 S-adenosylmethionine binding site [chemical binding]; other site 640511008109 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 640511008110 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 640511008111 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 640511008112 dimer interface [polypeptide binding]; other site 640511008113 catalytic triad [active] 640511008114 peroxidatic and resolving cysteines [active] 640511008115 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 640511008116 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 640511008117 substrate binding site [chemical binding]; other site 640511008118 ATP binding site [chemical binding]; other site 640511008119 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 640511008120 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 640511008121 dimer interface [polypeptide binding]; other site 640511008122 putative radical transfer pathway; other site 640511008123 diiron center [ion binding]; other site 640511008124 tyrosyl radical; other site 640511008125 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 640511008126 ATP cone domain; Region: ATP-cone; pfam03477 640511008127 Class I ribonucleotide reductase; Region: RNR_I; cd01679 640511008128 active site 640511008129 dimer interface [polypeptide binding]; other site 640511008130 catalytic residues [active] 640511008131 effector binding site; other site 640511008132 R2 peptide binding site; other site 640511008133 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 640511008134 amidase catalytic site [active] 640511008135 Zn binding residues [ion binding]; other site 640511008136 substrate binding site [chemical binding]; other site 640511008137 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 640511008138 signal recognition particle protein; Provisional; Region: PRK10867 640511008139 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 640511008140 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 640511008141 P loop; other site 640511008142 GTP binding site [chemical binding]; other site 640511008143 Signal peptide binding domain; Region: SRP_SPB; pfam02978 640511008144 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 640511008145 active site 640511008146 MarC family integral membrane protein; Region: MarC; cl00919 640511008147 prolyl-tRNA synthetase; Provisional; Region: PRK09194 640511008148 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: ProRS_core_prok; cd00779 640511008149 dimer interface [polypeptide binding]; other site 640511008150 motif 1; other site 640511008151 active site 640511008152 motif 2; other site 640511008153 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 640511008154 putative deacylase active site [active] 640511008155 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 640511008156 active site 640511008157 motif 3; other site 640511008158 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 640511008159 anticodon binding site; other site 640511008160 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 640511008161 putative active site [active] 640511008162 Ap4A binding site [chemical binding]; other site 640511008163 nudix motif; other site 640511008164 putative metal binding site [ion binding]; other site 640511008165 CNP1-like family; Region: CNP1; pfam08750 640511008166 gamma-glutamyl kinase; Provisional; Region: PRK05429 640511008167 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 640511008168 nucleotide binding site [chemical binding]; other site 640511008169 homotetrameric interface [polypeptide binding]; other site 640511008170 putative phosphate binding site [ion binding]; other site 640511008171 putative allosteric binding site; other site 640511008172 PUA domain; Region: PUA; cl00607 640511008173 GTPase CgtA; Reviewed; Region: obgE; PRK12298 640511008174 GTP1/OBG; Region: GTP1_OBG; pfam01018 640511008175 Obg GTPase; Region: Obg; cd01898 640511008176 G1 box; other site 640511008177 GTP/Mg2+ binding site [chemical binding]; other site 640511008178 Switch I region; other site 640511008179 G2 box; other site 640511008180 G3 box; other site 640511008181 Switch II region; other site 640511008182 G4 box; other site 640511008183 G5 box; other site 640511008184 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 640511008185 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 640511008186 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 640511008187 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 640511008188 substrate binding pocket [chemical binding]; other site 640511008189 chain length determination region; other site 640511008190 substrate-Mg2+ binding site; other site 640511008191 catalytic residues [active] 640511008192 aspartate-rich region 1; other site 640511008193 active site lid residues [active] 640511008194 aspartate-rich region 2; other site 640511008195 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 640511008196 Domain of unknown function DUF21; Region: DUF21; pfam01595 640511008197 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 640511008198 Transporter associated domain; Region: CorC_HlyC; cl08393 640511008199 Type II/IV secretion system protein; Region: T2SE; pfam00437 640511008200 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 640511008201 Walker A motif; other site 640511008202 ATP binding site [chemical binding]; other site 640511008203 Walker B motif; other site 640511008204 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 640511008205 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 640511008206 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 640511008207 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 640511008208 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 640511008209 dephospho-CoA kinase; Provisional; Region: coaE; PRK14731 640511008210 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 640511008211 CoA-binding site [chemical binding]; other site 640511008212 ATP-binding [chemical binding]; other site 640511008213 Protein of unknown function (DUF1342); Region: DUF1342; cl01892 640511008214 Domain of unknown function (DUF329); Region: DUF329; cl01144 640511008215 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 640511008216 active site 640511008217 8-oxo-dGMP binding site [chemical binding]; other site 640511008218 nudix motif; other site 640511008219 metal binding site [ion binding]; metal-binding site 640511008220 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 640511008221 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 640511008222 Walker A motif; other site 640511008223 ATP binding site [chemical binding]; other site 640511008224 Walker B motif; other site 640511008225 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 640511008226 heterotetramer interface [polypeptide binding]; other site 640511008227 active site pocket [active] 640511008228 cleavage site 640511008229 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 640511008230 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 640511008231 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511008232 nucleotide binding region [chemical binding]; other site 640511008233 ATP-binding site [chemical binding]; other site 640511008234 SEC-C motif; Region: SEC-C; pfam02810 640511008235 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 640511008236 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 640511008237 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 640511008238 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 640511008239 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 640511008240 catalytic triad [active] 640511008241 dimer interface [polypeptide binding]; other site 640511008242 cell division protein FtsZ; Validated; Region: PRK09330 640511008243 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 640511008244 nucleotide binding site [chemical binding]; other site 640511008245 SulA interaction site; other site 640511008246 cell division protein FtsA; Region: ftsA; TIGR01174 640511008247 Cell division protein FtsA; Region: FtsA; cl11496 640511008248 Cell division protein FtsA; Region: FtsA; cl11496 640511008249 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 640511008250 Cell division protein FtsQ; Region: FtsQ; pfam03799 640511008251 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 640511008252 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 640511008253 ATP-grasp domain; Region: ATP-grasp_4; cl03087 640511008254 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 640511008255 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 640511008256 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 640511008257 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 640511008258 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 640511008259 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 640511008260 active site 640511008261 homodimer interface [polypeptide binding]; other site 640511008262 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 640511008263 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02006 640511008264 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 640511008265 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 640511008266 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 640511008267 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 640511008268 Mg++ binding site [ion binding]; other site 640511008269 putative catalytic motif [active] 640511008270 putative substrate binding site [chemical binding]; other site 640511008271 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 640511008272 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 640511008273 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 640511008274 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 640511008275 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 640511008276 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 640511008277 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 640511008278 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 640511008279 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 640511008280 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 640511008281 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 640511008282 Septum formation initiator; Region: DivIC; cl11433 640511008283 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 640511008284 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 640511008285 cell division protein MraZ; Reviewed; Region: PRK00326 640511008286 MraZ protein; Region: MraZ; pfam02381 640511008287 MraZ protein; Region: MraZ; pfam02381 640511008288 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 640511008289 diiron binding motif [ion binding]; other site 640511008290 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 640511008291 trimer interface [polypeptide binding]; other site 640511008292 eyelet of channel; other site 640511008293 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 640511008294 AMP-binding enzyme; Region: AMP-binding; cl15778 640511008295 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 640511008296 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 640511008297 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 640511008298 putative [4Fe-4S] binding site [ion binding]; other site 640511008299 putative molybdopterin cofactor binding site [chemical binding]; other site 640511008300 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 640511008301 putative molybdopterin cofactor binding site; other site 640511008302 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 640511008303 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 640511008304 metal binding site [ion binding]; metal-binding site 640511008305 putative dimer interface [polypeptide binding]; other site 640511008306 enoyl-CoA hydratase; Provisional; Region: PRK05862 640511008307 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 640511008308 substrate binding site [chemical binding]; other site 640511008309 oxyanion hole (OAH) forming residues; other site 640511008310 trimer interface [polypeptide binding]; other site 640511008311 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 640511008312 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640511008313 NAD(P) binding site [chemical binding]; other site 640511008314 catalytic residues [active] 640511008315 enoyl-CoA hydratase; Provisional; Region: PRK08140 640511008316 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 640511008317 substrate binding site [chemical binding]; other site 640511008318 oxyanion hole (OAH) forming residues; other site 640511008319 trimer interface [polypeptide binding]; other site 640511008320 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 640511008321 CoenzymeA binding site [chemical binding]; other site 640511008322 subunit interaction site [polypeptide binding]; other site 640511008323 PHB binding site; other site 640511008324 AMP-binding enzyme; Region: AMP-binding; cl15778 640511008325 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 640511008326 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 640511008327 MltA specific insert domain; Region: MltA; cl08398 640511008328 3D domain; Region: 3D; cl01439 640511008329 Protein of unknown function (DUF525); Region: DUF525; cl01119 640511008330 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 640511008331 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 640511008332 substrate binding site [chemical binding]; other site 640511008333 hexamer interface [polypeptide binding]; other site 640511008334 metal binding site [ion binding]; metal-binding site 640511008335 phosphoglycolate phosphatase; Provisional; Region: PRK13222 640511008336 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 640511008337 motif II; other site 640511008338 anthranilate synthase component I; Provisional; Region: PRK13565 640511008339 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 640511008340 chorismate binding enzyme; Region: Chorismate_bind; cl10555 640511008341 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 640511008342 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 640511008343 glutamine binding [chemical binding]; other site 640511008344 catalytic triad [active] 640511008345 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 640511008346 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 640511008347 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 640511008348 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 640511008349 active site 640511008350 ribulose/triose binding site [chemical binding]; other site 640511008351 phosphate binding site [ion binding]; other site 640511008352 substrate (anthranilate) binding pocket [chemical binding]; other site 640511008353 product (indole) binding pocket [chemical binding]; other site 640511008354 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 640511008355 putative active site [active] 640511008356 putative metal binding residues [ion binding]; other site 640511008357 signature motif; other site 640511008358 putative triphosphate binding site [ion binding]; other site 640511008359 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 640511008360 ligand binding site [chemical binding]; other site 640511008361 active site 640511008362 UGI interface [polypeptide binding]; other site 640511008363 catalytic site [active] 640511008364 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 640511008365 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 640511008366 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 640511008367 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 640511008368 protein binding site [polypeptide binding]; other site 640511008369 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 640511008370 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 640511008371 dimerization domain [polypeptide binding]; other site 640511008372 dimer interface [polypeptide binding]; other site 640511008373 catalytic residues [active] 640511008374 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511008375 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 640511008376 GTP-binding protein YchF; Reviewed; Region: PRK09601 640511008377 YchF GTPase; Region: YchF; cd01900 640511008378 G1 box; other site 640511008379 GTP/Mg2+ binding site [chemical binding]; other site 640511008380 Switch I region; other site 640511008381 G2 box; other site 640511008382 Switch II region; other site 640511008383 G3 box; other site 640511008384 G4 box; other site 640511008385 G5 box; other site 640511008386 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 640511008387 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 640511008388 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 640511008389 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 640511008390 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511008391 dimer interface [polypeptide binding]; other site 640511008392 conserved gate region; other site 640511008393 putative PBP binding loops; other site 640511008394 ABC-ATPase subunit interface; other site 640511008395 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 640511008396 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511008397 dimer interface [polypeptide binding]; other site 640511008398 conserved gate region; other site 640511008399 putative PBP binding loops; other site 640511008400 ABC-ATPase subunit interface; other site 640511008401 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 640511008402 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 640511008403 Walker A/P-loop; other site 640511008404 ATP binding site [chemical binding]; other site 640511008405 Q-loop/lid; other site 640511008406 ABC transporter signature motif; other site 640511008407 Walker B; other site 640511008408 D-loop; other site 640511008409 H-loop/switch region; other site 640511008410 TOBE domain; Region: TOBE_2; cl01440 640511008411 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 640511008412 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511008413 Walker A/P-loop; other site 640511008414 ATP binding site [chemical binding]; other site 640511008415 Q-loop/lid; other site 640511008416 ABC transporter signature motif; other site 640511008417 Walker B; other site 640511008418 D-loop; other site 640511008419 H-loop/switch region; other site 640511008420 ABC transporter; Region: ABC_tran_2; pfam12848 640511008421 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 640511008422 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 640511008423 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 640511008424 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 640511008425 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 640511008426 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 640511008427 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 640511008428 active site 640511008429 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 640511008430 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511008431 active site 640511008432 phosphorylation site [posttranslational modification] 640511008433 intermolecular recognition site; other site 640511008434 dimerization interface [polypeptide binding]; other site 640511008435 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 640511008436 DNA binding site [nucleotide binding] 640511008437 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 640511008438 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 640511008439 tRNA; other site 640511008440 putative tRNA binding site [nucleotide binding]; other site 640511008441 putative NADP binding site [chemical binding]; other site 640511008442 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 640511008443 peptide chain release factor 1; Validated; Region: prfA; PRK00591 640511008444 RF-1 domain; Region: RF-1; cl02875 640511008445 RF-1 domain; Region: RF-1; cl02875 640511008446 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 640511008447 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 640511008448 S-adenosylmethionine binding site [chemical binding]; other site 640511008449 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 640511008450 putative GSH binding site [chemical binding]; other site 640511008451 catalytic residues [active] 640511008452 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 640511008453 Flavoprotein; Region: Flavoprotein; cl08021 640511008454 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 640511008455 putative active site [active] 640511008456 metal binding site [ion binding]; metal-binding site 640511008457 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 640511008458 Spore germination protein; Region: Spore_permease; cl15802 640511008459 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 640511008460 DNA-binding site [nucleotide binding]; DNA binding site 640511008461 RNA-binding motif; other site 640511008462 putative chaperone; Provisional; Region: PRK11678 640511008463 benzoate transport; Region: 2A0115; TIGR00895 640511008464 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511008465 putative substrate translocation pore; other site 640511008466 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511008467 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 640511008468 putative FMN binding site [chemical binding]; other site 640511008469 D-galactonate transporter; Region: 2A0114; TIGR00893 640511008470 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511008471 putative substrate translocation pore; other site 640511008472 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640511008473 Helix-turn-helix domains; Region: HTH; cl00088 640511008474 Protein of unknown function (DUF1415); Region: DUF1415; cl01301 640511008475 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 640511008476 Protein of unknown function (DUF1059); Region: DUF1059; cl02284 640511008477 HI0933-like protein; Region: HI0933_like; pfam03486 640511008478 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640511008479 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511008480 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 640511008481 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 640511008482 S-adenosylmethionine binding site [chemical binding]; other site 640511008483 Protein of unknown function (DUF1470); Region: DUF1470; pfam07336 640511008484 CGNR zinc finger; Region: zf-CGNR; pfam11706 640511008485 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640511008486 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640511008487 Stringent starvation protein B; Region: SspB; cl01120 640511008488 stringent starvation protein A; Provisional; Region: sspA; PRK09481 640511008489 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 640511008490 C-terminal domain interface [polypeptide binding]; other site 640511008491 putative GSH binding site (G-site) [chemical binding]; other site 640511008492 dimer interface [polypeptide binding]; other site 640511008493 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 640511008494 dimer interface [polypeptide binding]; other site 640511008495 N-terminal domain interface [polypeptide binding]; other site 640511008496 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 640511008497 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 640511008498 Qi binding site; other site 640511008499 intrachain domain interface; other site 640511008500 interchain domain interface [polypeptide binding]; other site 640511008501 cytochrome b; Provisional; Region: CYTB; MTH00145 640511008502 heme bH binding site [chemical binding]; other site 640511008503 heme bL binding site [chemical binding]; other site 640511008504 Qo binding site; other site 640511008505 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cl00193 640511008506 interchain domain interface [polypeptide binding]; other site 640511008507 intrachain domain interface; other site 640511008508 Qi binding site; other site 640511008509 Qo binding site; other site 640511008510 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 640511008511 [2Fe-2S] cluster binding site [ion binding]; other site 640511008512 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 640511008513 Uncharacterized conserved protein [Function unknown]; Region: COG0327 640511008514 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 640511008515 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 640511008516 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 640511008517 protein binding site [polypeptide binding]; other site 640511008518 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 640511008519 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 640511008520 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 640511008521 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 640511008522 nucleotide binding site/active site [active] 640511008523 HIT family signature motif; other site 640511008524 catalytic residue [active] 640511008525 Predicted membrane protein [Function unknown]; Region: COG3671 640511008526 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 640511008527 metal binding site [ion binding]; metal-binding site 640511008528 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 640511008529 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 640511008530 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 640511008531 substrate binding site [chemical binding]; other site 640511008532 glutamase interaction surface [polypeptide binding]; other site 640511008533 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase [Amino acid transport and metabolism]; Region: HisA; COG0106 640511008534 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 640511008535 catalytic residues [active] 640511008536 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 640511008537 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 640511008538 putative active site [active] 640511008539 oxyanion strand; other site 640511008540 catalytic triad [active] 640511008541 imidazoleglycerol-phosphate dehydratase; Validated; Region: hisB; PRK00951 640511008542 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 640511008543 putative active site pocket [active] 640511008544 4-fold oligomerization interface [polypeptide binding]; other site 640511008545 metal binding residues [ion binding]; metal-binding site 640511008546 3-fold/trimer interface [polypeptide binding]; other site 640511008547 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 640511008548 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 640511008549 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511008550 homodimer interface [polypeptide binding]; other site 640511008551 catalytic residue [active] 640511008552 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 640511008553 histidinol dehydrogenase; Region: hisD; TIGR00069 640511008554 NAD binding site [chemical binding]; other site 640511008555 dimerization interface [polypeptide binding]; other site 640511008556 product binding site; other site 640511008557 substrate binding site [chemical binding]; other site 640511008558 zinc binding site [ion binding]; other site 640511008559 catalytic residues [active] 640511008560 ATP phosphoribosyltransferase; Region: HisG; cl15266 640511008561 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 640511008562 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 640511008563 hinge; other site 640511008564 active site 640511008565 BolA-like protein; Region: BolA; cl00386 640511008566 ABC-2 type transporter; Region: ABC2_membrane; cl11417 640511008567 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 640511008568 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 640511008569 Walker A/P-loop; other site 640511008570 ATP binding site [chemical binding]; other site 640511008571 Q-loop/lid; other site 640511008572 ABC transporter signature motif; other site 640511008573 Walker B; other site 640511008574 D-loop; other site 640511008575 H-loop/switch region; other site 640511008576 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 640511008577 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 640511008578 VacJ like lipoprotein; Region: VacJ; cl01073 640511008579 mce related protein; Region: MCE; pfam02470 640511008580 Permease; Region: Permease; cl00510 640511008581 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 640511008582 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 640511008583 Walker A/P-loop; other site 640511008584 ATP binding site [chemical binding]; other site 640511008585 Q-loop/lid; other site 640511008586 ABC transporter signature motif; other site 640511008587 Walker B; other site 640511008588 D-loop; other site 640511008589 H-loop/switch region; other site 640511008590 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 640511008591 thiamine phosphate binding site [chemical binding]; other site 640511008592 active site 640511008593 pyrophosphate binding site [ion binding]; other site 640511008594 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 640511008595 ThiS interaction site; other site 640511008596 putative active site [active] 640511008597 tetramer interface [polypeptide binding]; other site 640511008598 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 640511008599 thiS-thiF/thiG interaction site; other site 640511008600 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511008601 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 640511008602 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 640511008603 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 640511008604 Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome. The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed...; Region: ABCD_peroxisomal_ALDP; cd03223 640511008605 osmolarity response regulator; Provisional; Region: ompR; PRK09468 640511008606 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511008607 active site 640511008608 phosphorylation site [posttranslational modification] 640511008609 intermolecular recognition site; other site 640511008610 dimerization interface [polypeptide binding]; other site 640511008611 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 640511008612 DNA binding site [nucleotide binding] 640511008613 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 640511008614 Flagellar L-ring protein; Region: FlgH; cl00905 640511008615 osmolarity response regulator; Provisional; Region: ompR; PRK09468 640511008616 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511008617 active site 640511008618 phosphorylation site [posttranslational modification] 640511008619 intermolecular recognition site; other site 640511008620 dimerization interface [polypeptide binding]; other site 640511008621 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 640511008622 DNA binding site [nucleotide binding] 640511008623 sensor kinase CusS; Provisional; Region: PRK09835 640511008624 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 640511008625 dimerization interface [polypeptide binding]; other site 640511008626 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 640511008627 dimer interface [polypeptide binding]; other site 640511008628 phosphorylation site [posttranslational modification] 640511008629 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511008630 ATP binding site [chemical binding]; other site 640511008631 Mg2+ binding site [ion binding]; other site 640511008632 G-X-G motif; other site 640511008633 Protein tyrosine/serine phosphatase [Signal transduction mechanisms]; Region: COG2365 640511008634 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 640511008635 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 640511008636 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 640511008637 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511008638 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 640511008639 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 640511008640 active site 640511008641 dimer interface [polypeptide binding]; other site 640511008642 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 640511008643 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 640511008644 active site 640511008645 FMN binding site [chemical binding]; other site 640511008646 substrate binding site [chemical binding]; other site 640511008647 3Fe-4S cluster binding site [ion binding]; other site 640511008648 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 640511008649 domain interface; other site 640511008650 Transposase IS200 like; Region: Y1_Tnp; cl00848 640511008651 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 640511008652 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 640511008653 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 640511008654 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 640511008655 Zn2+ binding site [ion binding]; other site 640511008656 Mg2+ binding site [ion binding]; other site 640511008657 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 640511008658 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 640511008659 active site 640511008660 dimer interface [polypeptide binding]; other site 640511008661 metal binding site [ion binding]; metal-binding site 640511008662 shikimate kinase; Reviewed; Region: aroK; PRK00131 640511008663 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 640511008664 ADP binding site [chemical binding]; other site 640511008665 magnesium binding site [ion binding]; other site 640511008666 putative shikimate binding site; other site 640511008667 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 640511008668 Secretin and TonB N terminus short domain; Region: STN; cl06624 640511008669 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 640511008670 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 640511008671 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 640511008672 Cell division protein FtsA; Region: FtsA; cl11496 640511008673 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 640511008674 Transglycosylase; Region: Transgly; cl07896 640511008675 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 640511008676 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate in...; Region: Frataxin; cd00503 640511008677 putative iron binding site [ion binding]; other site 640511008678 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; cl02361 640511008679 diaminopimelate decarboxylase; Region: lysA; TIGR01048 640511008680 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 640511008681 active site 640511008682 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 640511008683 substrate binding site [chemical binding]; other site 640511008684 catalytic residues [active] 640511008685 dimer interface [polypeptide binding]; other site 640511008686 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 640511008687 TMAO/DMSO reductase; Reviewed; Region: PRK05363 640511008688 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 640511008689 Moco binding site; other site 640511008690 metal coordination site [ion binding]; other site 640511008691 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 640511008692 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 640511008693 Cytochrome c; Region: Cytochrom_C; cl11414 640511008694 Cytochrome c; Region: Cytochrom_C; cl11414 640511008695 Predicted GTPase [General function prediction only]; Region: COG0218 640511008696 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 640511008697 G1 box; other site 640511008698 GTP/Mg2+ binding site [chemical binding]; other site 640511008699 Switch I region; other site 640511008700 G2 box; other site 640511008701 G3 box; other site 640511008702 Switch II region; other site 640511008703 G4 box; other site 640511008704 G5 box; other site 640511008705 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 640511008706 dimer interface [polypeptide binding]; other site 640511008707 active site 640511008708 aspartate-rich active site metal binding site; other site 640511008709 allosteric magnesium binding site [ion binding]; other site 640511008710 Schiff base residues; other site 640511008711 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 640511008712 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 640511008713 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 640511008714 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 640511008715 DsbD alpha interface [polypeptide binding]; other site 640511008716 catalytic residues [active] 640511008717 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 640511008718 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 640511008719 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 640511008720 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 640511008721 alphaNTD homodimer interface [polypeptide binding]; other site 640511008722 alphaNTD - beta interaction site [polypeptide binding]; other site 640511008723 alphaNTD - beta' interaction site [polypeptide binding]; other site 640511008724 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 640511008725 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 640511008726 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 640511008727 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 640511008728 RNA binding surface [nucleotide binding]; other site 640511008729 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 640511008730 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 640511008731 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 640511008732 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 640511008733 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 640511008734 rRNA binding site [nucleotide binding]; other site 640511008735 predicted 30S ribosome binding site; other site 640511008736 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 640511008737 SecY translocase; Region: SecY; pfam00344 640511008738 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 640511008739 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 640511008740 23S rRNA binding site [nucleotide binding]; other site 640511008741 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 640511008742 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 640511008743 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 640511008744 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 640511008745 5S rRNA interface [nucleotide binding]; other site 640511008746 L27 interface [polypeptide binding]; other site 640511008747 23S rRNA interface [nucleotide binding]; other site 640511008748 L5 interface [polypeptide binding]; other site 640511008749 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 640511008750 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 640511008751 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 640511008752 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 640511008753 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 640511008754 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 640511008755 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 640511008756 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 640511008757 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 640511008758 KOW motif; Region: KOW; cl00354 640511008759 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 640511008760 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 640511008761 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 640511008762 23S rRNA interface [nucleotide binding]; other site 640511008763 putative translocon interaction site; other site 640511008764 signal recognition particle (SRP54) interaction site; other site 640511008765 L23 interface [polypeptide binding]; other site 640511008766 trigger factor interaction site; other site 640511008767 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 640511008768 23S rRNA interface [nucleotide binding]; other site 640511008769 5S rRNA interface [nucleotide binding]; other site 640511008770 putative antibiotic binding site [chemical binding]; other site 640511008771 L25 interface [polypeptide binding]; other site 640511008772 L27 interface [polypeptide binding]; other site 640511008773 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 640511008774 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 640511008775 G-X-X-G motif; other site 640511008776 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 640511008777 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 640511008778 putative translocon binding site; other site 640511008779 protein-rRNA interface [nucleotide binding]; other site 640511008780 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 640511008781 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 640511008782 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 640511008783 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 640511008784 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 640511008785 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 640511008786 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 640511008787 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 640511008788 elongation factor Tu; Reviewed; Region: PRK00049 640511008789 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 640511008790 G1 box; other site 640511008791 GEF interaction site [polypeptide binding]; other site 640511008792 GTP/Mg2+ binding site [chemical binding]; other site 640511008793 Switch I region; other site 640511008794 G2 box; other site 640511008795 G3 box; other site 640511008796 Switch II region; other site 640511008797 G4 box; other site 640511008798 G5 box; other site 640511008799 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 640511008800 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 640511008801 Antibiotic Binding Site [chemical binding]; other site 640511008802 elongation factor G; Reviewed; Region: PRK00007 640511008803 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 640511008804 G1 box; other site 640511008805 putative GEF interaction site [polypeptide binding]; other site 640511008806 GTP/Mg2+ binding site [chemical binding]; other site 640511008807 Switch I region; other site 640511008808 G2 box; other site 640511008809 G3 box; other site 640511008810 Switch II region; other site 640511008811 G4 box; other site 640511008812 G5 box; other site 640511008813 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 640511008814 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 640511008815 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 640511008816 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 640511008817 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 640511008818 S17 interaction site [polypeptide binding]; other site 640511008819 S8 interaction site; other site 640511008820 16S rRNA interaction site [nucleotide binding]; other site 640511008821 streptomycin interaction site [chemical binding]; other site 640511008822 23S rRNA interaction site [nucleotide binding]; other site 640511008823 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 640511008824 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 640511008825 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 640511008826 ATP binding site [chemical binding]; other site 640511008827 putative Mg++ binding site [ion binding]; other site 640511008828 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 640511008829 nucleotide binding region [chemical binding]; other site 640511008830 ATP-binding site [chemical binding]; other site 640511008831 RQC domain; Region: RQC; cl09632 640511008832 HRDC domain; Region: HRDC; cl02578 640511008833 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 640511008834 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 640511008835 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 640511008836 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 640511008837 DNA-directed RNA polymerase subunit beta'; Provisional; Region: rpoC2; PRK02597 640511008838 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 640511008839 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 640511008840 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 640511008841 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 640511008842 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 640511008843 DNA binding site [nucleotide binding] 640511008844 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 640511008845 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 640511008846 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 640511008847 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 640511008848 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 640511008849 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 640511008850 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 640511008851 RPB11 interaction site [polypeptide binding]; other site 640511008852 RPB12 interaction site [polypeptide binding]; other site 640511008853 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; cl05448 640511008854 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 640511008855 RPB3 interaction site [polypeptide binding]; other site 640511008856 RPB1 interaction site [polypeptide binding]; other site 640511008857 RPB11 interaction site [polypeptide binding]; other site 640511008858 RPB10 interaction site [polypeptide binding]; other site 640511008859 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 640511008860 peripheral dimer interface [polypeptide binding]; other site 640511008861 core dimer interface [polypeptide binding]; other site 640511008862 L10 interface [polypeptide binding]; other site 640511008863 L11 interface [polypeptide binding]; other site 640511008864 putative EF-Tu interaction site [polypeptide binding]; other site 640511008865 putative EF-G interaction site [polypeptide binding]; other site 640511008866 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 640511008867 23S rRNA interface [nucleotide binding]; other site 640511008868 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 640511008869 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 640511008870 mRNA/rRNA interface [nucleotide binding]; other site 640511008871 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 640511008872 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 640511008873 23S rRNA interface [nucleotide binding]; other site 640511008874 L7/L12 interface [polypeptide binding]; other site 640511008875 putative thiostrepton binding site; other site 640511008876 L25 interface [polypeptide binding]; other site 640511008877 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 640511008878 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 640511008879 putative homodimer interface [polypeptide binding]; other site 640511008880 KOW motif; Region: KOW; cl00354 640511008881 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 640511008882 elongation factor Tu; Reviewed; Region: PRK00049 640511008883 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 640511008884 G1 box; other site 640511008885 GEF interaction site [polypeptide binding]; other site 640511008886 GTP/Mg2+ binding site [chemical binding]; other site 640511008887 Switch I region; other site 640511008888 G2 box; other site 640511008889 G3 box; other site 640511008890 Switch II region; other site 640511008891 G4 box; other site 640511008892 G5 box; other site 640511008893 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 640511008894 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 640511008895 Antibiotic Binding Site [chemical binding]; other site 640511008896 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 640511008897 active site 640511008898 oxyanion hole [active] 640511008899 catalytic triad [active] 640511008900 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 640511008901 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511008902 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 640511008903 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 640511008904 Phenylacetic acid degradation B; Region: PaaB; cl01371 640511008905 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 640511008906 Domain of unknown function DUF59; Region: DUF59; cl00941 640511008907 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 640511008908 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 640511008909 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 640511008910 FAD binding pocket [chemical binding]; other site 640511008911 FAD binding motif [chemical binding]; other site 640511008912 phosphate binding motif [ion binding]; other site 640511008913 beta-alpha-beta structure motif; other site 640511008914 NAD(p) ribose binding residues [chemical binding]; other site 640511008915 NAD binding pocket [chemical binding]; other site 640511008916 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 640511008917 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 640511008918 catalytic loop [active] 640511008919 iron binding site [ion binding]; other site 640511008920 Domain of unknown function (DUF1835); Region: DUF1835; pfam08874 640511008921 Protein of unknown function; Region: DUF3658; pfam12395 640511008922 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640511008923 Helix-turn-helix domains; Region: HTH; cl00088 640511008924 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 640511008925 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 640511008926 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 640511008927 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 640511008928 putative DNA binding site [nucleotide binding]; other site 640511008929 putative Zn2+ binding site [ion binding]; other site 640511008930 AsnC family; Region: AsnC_trans_reg; pfam01037 640511008931 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 640511008932 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 640511008933 dimer interface [polypeptide binding]; other site 640511008934 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 640511008935 active site 640511008936 Fe binding site [ion binding]; other site 640511008937 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 640511008938 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 640511008939 dimer interface [polypeptide binding]; other site 640511008940 PYR/PP interface [polypeptide binding]; other site 640511008941 TPP binding site [chemical binding]; other site 640511008942 substrate binding site [chemical binding]; other site 640511008943 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 640511008944 TPP-binding site; other site 640511008945 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 640511008946 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 640511008947 Malic enzyme, N-terminal domain; Region: malic; pfam00390 640511008948 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 640511008949 putative NAD(P) binding site [chemical binding]; other site 640511008950 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 640511008951 benzoate transport; Region: 2A0115; TIGR00895 640511008952 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511008953 putative substrate translocation pore; other site 640511008954 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 640511008955 active site 640511008956 transcriptional regulator RcsB; Provisional; Region: PRK10840 640511008957 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511008958 active site 640511008959 phosphorylation site [posttranslational modification] 640511008960 intermolecular recognition site; other site 640511008961 dimerization interface [polypeptide binding]; other site 640511008962 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 640511008963 DNA binding residues [nucleotide binding] 640511008964 dimerization interface [polypeptide binding]; other site 640511008965 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 640511008966 substrate binding site [chemical binding]; other site 640511008967 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 640511008968 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 640511008969 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 640511008970 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511008971 LysE type translocator; Region: LysE; cl00565 640511008972 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 640511008973 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511008974 Ubiquitin-like proteins; Region: UBQ; cl00155 640511008975 Uncharacterized conserved protein [Function unknown]; Region: COG1656; cl09136 640511008976 Protein of unknown function DUF82; Region: DUF82; pfam01927 640511008977 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 640511008978 Bacterial transcriptional regulator; Region: IclR; pfam01614 640511008979 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 640511008980 EamA-like transporter family; Region: EamA; cl01037 640511008981 EamA-like transporter family; Region: EamA; cl01037 640511008982 Uncharacterized protein conserved in bacteria (DUF2242); Region: DUF2242; pfam10001 640511008983 internal virion protein D; Region: PHA00368 640511008984 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 640511008985 N-acetyl-D-glucosamine binding site [chemical binding]; other site 640511008986 catalytic residue [active] 640511008987 Rhomboid family; Region: Rhomboid; cl11446 640511008988 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 640511008989 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 640511008990 glutaminase active site [active] 640511008991 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 640511008992 dimer interface [polypeptide binding]; other site 640511008993 active site 640511008994 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 640511008995 dimer interface [polypeptide binding]; other site 640511008996 active site 640511008997 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: glmU; TIGR01173 640511008998 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 640511008999 Substrate binding site; other site 640511009000 Mg++ binding site; other site 640511009001 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 640511009002 active site 640511009003 substrate binding site [chemical binding]; other site 640511009004 CoA binding site [chemical binding]; other site 640511009005 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 640511009006 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 640511009007 Ligand Binding Site [chemical binding]; other site 640511009008 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 640511009009 active site 640511009010 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511009011 NAD(P) binding site [chemical binding]; other site 640511009012 active site 640511009013 Uncharacterized conserved protein [Function unknown]; Region: COG1565 640511009014 Putative S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_28; pfam02636 640511009015 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 640511009016 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 640511009017 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 640511009018 active site 640511009019 NTP binding site [chemical binding]; other site 640511009020 metal binding triad [ion binding]; metal-binding site 640511009021 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 640511009022 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 640511009023 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 640511009024 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 640511009025 putative C-terminal domain interface [polypeptide binding]; other site 640511009026 putative GSH binding site (G-site) [chemical binding]; other site 640511009027 putative dimer interface [polypeptide binding]; other site 640511009028 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 640511009029 putative substrate binding pocket (H-site) [chemical binding]; other site 640511009030 putative N-terminal domain interface [polypeptide binding]; other site 640511009031 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 640511009032 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 640511009033 putative NAD(P) binding site [chemical binding]; other site 640511009034 active site 640511009035 lytic murein transglycosylase; Provisional; Region: PRK11619 640511009036 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 640511009037 N-acetyl-D-glucosamine binding site [chemical binding]; other site 640511009038 catalytic residue [active] 640511009039 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 640511009040 Helix-turn-helix domains; Region: HTH; cl00088 640511009041 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 640511009042 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 640511009043 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 640511009044 Escherichia coli putative lactam utilization protein YbgL and similar proteins; Region: LamB_YcsF_YbgL_like; cd10800 640511009045 putative active site [active] 640511009046 Protein of unknown function (DUF969); Region: DUF969; cl01573 640511009047 Protein of unknown function (DUF979); Region: DUF979; cl01572 640511009048 TraB family; Region: TraB; cl12050 640511009049 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 640511009050 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 640511009051 Walker A/P-loop; other site 640511009052 ATP binding site [chemical binding]; other site 640511009053 Q-loop/lid; other site 640511009054 ABC transporter signature motif; other site 640511009055 Walker B; other site 640511009056 D-loop; other site 640511009057 H-loop/switch region; other site 640511009058 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640511009059 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 640511009060 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 640511009061 Walker A/P-loop; other site 640511009062 ATP binding site [chemical binding]; other site 640511009063 Q-loop/lid; other site 640511009064 ABC transporter signature motif; other site 640511009065 Walker B; other site 640511009066 D-loop; other site 640511009067 H-loop/switch region; other site 640511009068 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640511009069 dipeptide transporter; Provisional; Region: PRK10913 640511009070 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511009071 dimer interface [polypeptide binding]; other site 640511009072 conserved gate region; other site 640511009073 putative PBP binding loops; other site 640511009074 ABC-ATPase subunit interface; other site 640511009075 dipeptide transporter permease DppB; Provisional; Region: PRK10914 640511009076 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511009077 dimer interface [polypeptide binding]; other site 640511009078 conserved gate region; other site 640511009079 putative PBP binding loops; other site 640511009080 ABC-ATPase subunit interface; other site 640511009081 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 640511009082 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 640511009083 peptide binding site [polypeptide binding]; other site 640511009084 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 640511009085 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 640511009086 peptide binding site [polypeptide binding]; other site 640511009087 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 640511009088 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 640511009089 FAD binding site [chemical binding]; other site 640511009090 Membrane protein of unknown function; Region: DUF360; cl00850 640511009091 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 640511009092 S-adenosyl-L-homocysteine hydrolase (AdoHycase) catalyzes the hydrolysis of S-adenosyl-L-homocysteine (AdoHyc) to form adenosine (Ado) and homocysteine (Hcy). The equilibrium lies far on the side of AdoHyc synthesis, but in nature the removal of Ado and...; Region: AdoHcyase; cd00401 640511009093 oligomerization interface [polypeptide binding]; other site 640511009094 active site 640511009095 NAD+ binding site [chemical binding]; other site 640511009096 LrgB-like family; Region: LrgB; cl00596 640511009097 LrgA family; Region: LrgA; cl00608 640511009098 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 640511009099 Helix-turn-helix domains; Region: HTH; cl00088 640511009100 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 640511009101 putative dimerization interface [polypeptide binding]; other site 640511009102 choline dehydrogenase; Validated; Region: PRK02106 640511009103 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511009104 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 640511009105 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 640511009106 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640511009107 active site 640511009108 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 640511009109 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640511009110 NAD(P) binding site [chemical binding]; other site 640511009111 catalytic residues [active] 640511009112 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 640511009113 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 640511009114 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 640511009115 Flagellar protein FliT; Region: FliT; cl05125 640511009116 Flagellar protein FliT; Region: FliT; cl05125 640511009117 Flagellar protein FliS; Region: FliS; cl00654 640511009118 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 640511009119 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 640511009120 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 640511009121 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 640511009122 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 640511009123 FliG C-terminal domain; Region: FliG_C; pfam01706 640511009124 Flagellar assembly protein FliH; Region: FliH; pfam02108 640511009125 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 640511009126 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 640511009127 Walker A motif/ATP binding site; other site 640511009128 Walker B motif; other site 640511009129 flagellar biosynthesis chaperone; Validated; Region: fliJ; cl09161 640511009130 Flagellar FliJ protein; Region: FliJ; pfam02050 640511009131 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 640511009132 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 640511009133 AAA domain; Region: AAA_25; pfam13481 640511009134 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511009135 Walker A motif; other site 640511009136 ATP binding site [chemical binding]; other site 640511009137 Walker B motif; other site 640511009138 Helix-turn-helix domains; Region: HTH; cl00088 640511009139 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 640511009140 Domain of unknown function (DUF4102); Region: DUF4102; pfam13356 640511009141 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 640511009142 active site 640511009143 DNA binding site [nucleotide binding] 640511009144 Int/Topo IB signature motif; other site 640511009145 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 640511009146 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 640511009147 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 640511009148 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 640511009149 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 640511009150 FliP family; Region: FliP; cl00593 640511009151 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 640511009152 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 640511009153 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 640511009154 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 640511009155 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 640511009156 Flagellar regulator YcgR; Region: YcgR; pfam07317 640511009157 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 640511009158 PilZ domain; Region: PilZ; cl01260 640511009159 flagellar rod assembly protein/muramidase FlgJ; Provisional; Region: flgJ; PRK12709 640511009160 Rod binding protein; Region: Rod-binding; cl01626 640511009161 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 640511009162 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 640511009163 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 640511009164 Flagellar L-ring protein; Region: FlgH; cl00905 640511009165 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12694 640511009166 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 640511009167 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 640511009168 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 640511009169 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 640511009170 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 640511009171 flagellar hook protein FlgE; Provisional; Region: flgE; PRK12637 640511009172 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 640511009173 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 640511009174 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 640511009175 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 640511009176 FlgD Ig-like domain; Region: FlgD_ig; cl15790 640511009177 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 640511009178 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 640511009179 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 640511009180 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12626 640511009181 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 640511009182 SAF-like; Region: SAF_2; pfam13144 640511009183 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 640511009184 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 640511009185 FlgN protein; Region: FlgN; cl09176 640511009186 YcfA-like protein; Region: YcfA; cl00752 640511009187 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 640511009188 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 640511009189 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 640511009190 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640511009191 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 640511009192 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 640511009193 DNA binding residues [nucleotide binding] 640511009194 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 640511009195 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511009196 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK06995 640511009197 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK06995 640511009198 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511009199 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 640511009200 FHIPEP family; Region: FHIPEP; pfam00771 640511009201 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 640511009202 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 640511009203 Protein of unknown function (DUF3443); Region: DUF3443; pfam11925 640511009204 Protein of unknown function (DUF2844); Region: DUF2844; pfam11005 640511009205 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 640511009206 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 640511009207 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511009208 active site 640511009209 phosphorylation site [posttranslational modification] 640511009210 intermolecular recognition site; other site 640511009211 dimerization interface [polypeptide binding]; other site 640511009212 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 640511009213 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511009214 active site 640511009215 phosphorylation site [posttranslational modification] 640511009216 intermolecular recognition site; other site 640511009217 dimerization interface [polypeptide binding]; other site 640511009218 CheB methylesterase; Region: CheB_methylest; pfam01339 640511009219 CheD chemotactic sensory transduction; Region: CheD; cl00810 640511009220 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 640511009221 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 640511009222 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 640511009223 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 640511009224 dimer interface [polypeptide binding]; other site 640511009225 ligand binding site [chemical binding]; other site 640511009226 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 640511009227 dimerization interface [polypeptide binding]; other site 640511009228 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 640511009229 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640511009230 dimer interface [polypeptide binding]; other site 640511009231 putative CheW interface [polypeptide binding]; other site 640511009232 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 640511009233 chemotaxis protein CheA; Provisional; Region: PRK10547 640511009234 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 640511009235 putative binding surface; other site 640511009236 active site 640511009237 CheY binding; Region: CheY-binding; pfam09078 640511009238 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 640511009239 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511009240 ATP binding site [chemical binding]; other site 640511009241 Mg2+ binding site [ion binding]; other site 640511009242 G-X-G motif; other site 640511009243 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 640511009244 Response regulator receiver domain; Region: Response_reg; pfam00072 640511009245 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511009246 active site 640511009247 phosphorylation site [posttranslational modification] 640511009248 intermolecular recognition site; other site 640511009249 dimerization interface [polypeptide binding]; other site 640511009250 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 640511009251 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 640511009252 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640511009253 ligand binding site [chemical binding]; other site 640511009254 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 640511009255 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 640511009256 Flagellar transcriptional activator (FlhC); Region: FlhC; cl05036 640511009257 Flagellar transcriptional activator (FlhD); Region: FlhD; cl05012 640511009258 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 640511009259 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640511009260 putative ADP-binding pocket [chemical binding]; other site 640511009261 H-NS histone family; Region: Histone_HNS; pfam00816 640511009262 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 640511009263 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 640511009264 amphipathic channel; other site 640511009265 Asn-Pro-Ala signature motifs; other site 640511009266 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 640511009267 catalytic core [active] 640511009268 putative hydrolase; Provisional; Region: PRK10976 640511009269 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 640511009270 active site 640511009271 motif I; other site 640511009272 motif II; other site 640511009273 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 640511009274 motif II; other site 640511009275 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 640511009276 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 640511009277 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 640511009278 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 640511009279 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 640511009280 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 640511009281 active site 640511009282 catalytic tetrad [active] 640511009283 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 640511009284 TPR motif; other site 640511009285 binding surface 640511009286 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 640511009287 binding surface 640511009288 TPR motif; other site 640511009289 TPR repeat; Region: TPR_11; pfam13414 640511009290 TPR repeat; Region: TPR_11; pfam13414 640511009291 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 640511009292 TPR motif; other site 640511009293 binding surface 640511009294 Glycosyl transferase family 41; Region: Glyco_transf_41; pfam13844 640511009295 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 640511009296 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 640511009297 binding surface 640511009298 TPR motif; other site 640511009299 Tetratricopeptide repeat; Region: TPR_12; pfam13424 640511009300 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 640511009301 TPR motif; other site 640511009302 binding surface 640511009303 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 640511009304 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 640511009305 Glycosyltransferase like family; Region: Glyco_tranf_2_5; pfam13712 640511009306 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 640511009307 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 640511009308 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 640511009309 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 640511009310 [2Fe-2S] cluster binding site [ion binding]; other site 640511009311 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 640511009312 alpha subunit interface [polypeptide binding]; other site 640511009313 active site 640511009314 substrate binding site [chemical binding]; other site 640511009315 Fe binding site [ion binding]; other site 640511009316 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 640511009317 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 640511009318 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 640511009319 putative trimer interface [polypeptide binding]; other site 640511009320 putative CoA binding site [chemical binding]; other site 640511009321 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640511009322 classical (c) SDRs; Region: SDR_c; cd05233 640511009323 NAD(P) binding site [chemical binding]; other site 640511009324 active site 640511009325 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 640511009326 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 640511009327 dimer interface [polypeptide binding]; other site 640511009328 active site 640511009329 CoA binding pocket [chemical binding]; other site 640511009330 Phosphopantetheine attachment site; Region: PP-binding; cl09936 640511009331 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 640511009332 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 640511009333 inhibitor-cofactor binding pocket; inhibition site 640511009334 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511009335 catalytic residue [active] 640511009336 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 640511009337 active site 640511009338 Glycosyltransferase like family; Region: Glyco_tranf_2_5; pfam13712 640511009339 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 640511009340 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 640511009341 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 640511009342 [2Fe-2S] cluster binding site [ion binding]; other site 640511009343 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 640511009344 alpha subunit interface [polypeptide binding]; other site 640511009345 active site 640511009346 substrate binding site [chemical binding]; other site 640511009347 Fe binding site [ion binding]; other site 640511009348 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 640511009349 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 640511009350 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 640511009351 flagellar capping protein; Reviewed; Region: fliD; PRK08032 640511009352 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 640511009353 Flagellar protein FliT; Region: FliT; cl05125 640511009354 Cytochrome c; Region: Cytochrom_C; cl11414 640511009355 Cytochrome c; Region: Cytochrom_C; cl11414 640511009356 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 640511009357 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511009358 Family description; Region: UvrD_C_2; cl15862 640511009359 putative oxidoreductase; Provisional; Region: PRK11579 640511009360 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511009361 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 640511009362 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 640511009363 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 640511009364 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 640511009365 lipoyl attachment site [posttranslational modification]; other site 640511009366 glycine dehydrogenase; Provisional; Region: PRK05367 640511009367 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 640511009368 tetramer interface [polypeptide binding]; other site 640511009369 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511009370 catalytic residue [active] 640511009371 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 640511009372 tetramer interface [polypeptide binding]; other site 640511009373 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511009374 catalytic residue [active] 640511009375 Alginate Lyase A1-III; enzymatically depolymerizes alginate, a complex copolymer of beta-D-mannuronate and alpha-L-guluronate, by cleaving the beta-(1,4) glycosidic bond; Region: AlgLyase; cl00179 640511009376 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 640511009377 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 640511009378 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 640511009379 thiamine pyrophosphate protein; Validated; Region: PRK08199 640511009380 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 640511009381 PYR/PP interface [polypeptide binding]; other site 640511009382 dimer interface [polypeptide binding]; other site 640511009383 TPP binding site [chemical binding]; other site 640511009384 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 640511009385 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 640511009386 TPP-binding site [chemical binding]; other site 640511009387 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 640511009388 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 640511009389 dimerization interface [polypeptide binding]; other site 640511009390 ligand binding site [chemical binding]; other site 640511009391 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 640511009392 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 640511009393 Proline dehydrogenase; Region: Pro_dh; cl03282 640511009394 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 640511009395 Glutamate binding site [chemical binding]; other site 640511009396 NAD binding site [chemical binding]; other site 640511009397 catalytic residues [active] 640511009398 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 640511009399 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 640511009400 primosome assembly protein PriA; Validated; Region: PRK05580 640511009401 primosome assembly protein PriA; Validated; Region: PRK05580 640511009402 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 640511009403 ATP binding site [chemical binding]; other site 640511009404 putative Mg++ binding site [ion binding]; other site 640511009405 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511009406 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 640511009407 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 640511009408 substrate binding site [chemical binding]; other site 640511009409 active site 640511009410 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 640511009411 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 640511009412 substrate binding pocket [chemical binding]; other site 640511009413 membrane-bound complex binding site; other site 640511009414 hinge residues; other site 640511009415 AMP-binding domain protein; Validated; Region: PRK08315 640511009416 AMP-binding enzyme; Region: AMP-binding; cl15778 640511009417 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 640511009418 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 640511009419 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 640511009420 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 640511009421 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 640511009422 alpha subunit interaction interface [polypeptide binding]; other site 640511009423 Walker A motif; other site 640511009424 ATP binding site [chemical binding]; other site 640511009425 Walker B motif; other site 640511009426 inhibitor binding site; inhibition site 640511009427 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 640511009428 ATP synthase; Region: ATP-synt; cl00365 640511009429 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 640511009430 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 640511009431 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 640511009432 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 640511009433 beta subunit interaction interface [polypeptide binding]; other site 640511009434 Walker A motif; other site 640511009435 ATP binding site [chemical binding]; other site 640511009436 Walker B motif; other site 640511009437 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 640511009438 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 640511009439 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 640511009440 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 640511009441 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 640511009442 ATP synthase subunit C; Region: ATP-synt_C; cl00466 640511009443 ATP synthase A chain; Region: ATP-synt_A; cl00413 640511009444 ATP synthase I chain; Region: ATP_synt_I; cl09170 640511009445 ParB-like partition proteins; Region: parB_part; TIGR00180 640511009446 ParB-like nuclease domain; Region: ParBc; cl02129 640511009447 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 640511009448 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 640511009449 P-loop; other site 640511009450 Magnesium ion binding site [ion binding]; other site 640511009451 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 640511009452 Magnesium ion binding site [ion binding]; other site 640511009453 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 640511009454 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 640511009455 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511009456 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511009457 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 640511009458 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 640511009459 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 640511009460 Walker A/P-loop; other site 640511009461 ATP binding site [chemical binding]; other site 640511009462 Q-loop/lid; other site 640511009463 ABC transporter signature motif; other site 640511009464 Walker B; other site 640511009465 D-loop; other site 640511009466 H-loop/switch region; other site 640511009467 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 640511009468 TM-ABC transporter signature motif; other site 640511009469 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 640511009470 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 640511009471 Walker A/P-loop; other site 640511009472 ATP binding site [chemical binding]; other site 640511009473 Q-loop/lid; other site 640511009474 ABC transporter signature motif; other site 640511009475 Walker B; other site 640511009476 D-loop; other site 640511009477 H-loop/switch region; other site 640511009478 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 640511009479 TM-ABC transporter signature motif; other site 640511009480 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 640511009481 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 640511009482 putative ligand binding site [chemical binding]; other site 640511009483 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 640511009484 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 640511009485 putative ligand binding site [chemical binding]; other site 640511009486 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 640511009487 TM-ABC transporter signature motif; other site 640511009488 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 640511009489 TM-ABC transporter signature motif; other site 640511009490 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 640511009491 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 640511009492 putative ligand binding site [chemical binding]; other site 640511009493 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 640511009494 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 640511009495 Walker A/P-loop; other site 640511009496 ATP binding site [chemical binding]; other site 640511009497 Q-loop/lid; other site 640511009498 ABC transporter signature motif; other site 640511009499 Walker B; other site 640511009500 D-loop; other site 640511009501 H-loop/switch region; other site 640511009502 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 640511009503 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 640511009504 Walker A/P-loop; other site 640511009505 ATP binding site [chemical binding]; other site 640511009506 Q-loop/lid; other site 640511009507 ABC transporter signature motif; other site 640511009508 Walker B; other site 640511009509 D-loop; other site 640511009510 H-loop/switch region; other site 640511009511 choline dehydrogenase; Validated; Region: PRK02106 640511009512 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511009513 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 640511009514 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 640511009515 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640511009516 tetrameric interface [polypeptide binding]; other site 640511009517 NAD binding site [chemical binding]; other site 640511009518 catalytic residues [active] 640511009519 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511009520 Helix-turn-helix domains; Region: HTH; cl00088 640511009521 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 640511009522 dimerization interface [polypeptide binding]; other site 640511009523 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 640511009524 putative active site [active] 640511009525 putative metal binding residues [ion binding]; other site 640511009526 signature motif; other site 640511009527 putative triphosphate binding site [ion binding]; other site 640511009528 dimer interface [polypeptide binding]; other site 640511009529 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 640511009530 Helix-turn-helix domains; Region: HTH; cl00088 640511009531 AsnC family; Region: AsnC_trans_reg; pfam01037 640511009532 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 640511009533 cofactor binding site; other site 640511009534 metal binding site [ion binding]; metal-binding site 640511009535 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 640511009536 aromatic arch; other site 640511009537 DCoH dimer interaction site [polypeptide binding]; other site 640511009538 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 640511009539 DCoH tetramer interaction site [polypeptide binding]; other site 640511009540 substrate binding site [chemical binding]; other site 640511009541 Protein of unknown function (DUF3717); Region: DUF3717; pfam12512 640511009542 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 640511009543 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511009544 active site 640511009545 phosphorylation site [posttranslational modification] 640511009546 intermolecular recognition site; other site 640511009547 dimerization interface [polypeptide binding]; other site 640511009548 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 640511009549 DNA binding site [nucleotide binding] 640511009550 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 640511009551 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640511009552 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 640511009553 dimer interface [polypeptide binding]; other site 640511009554 phosphorylation site [posttranslational modification] 640511009555 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511009556 ATP binding site [chemical binding]; other site 640511009557 Mg2+ binding site [ion binding]; other site 640511009558 G-X-G motif; other site 640511009559 SET domain; Region: SET; cl02566 640511009560 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 640511009561 active site 640511009562 FMN binding site [chemical binding]; other site 640511009563 substrate binding site [chemical binding]; other site 640511009564 homotetramer interface [polypeptide binding]; other site 640511009565 catalytic residue [active] 640511009566 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 640511009567 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 640511009568 catalytic triad [active] 640511009569 Transcriptional regulators [Transcription]; Region: MarR; COG1846 640511009570 Helix-turn-helix domains; Region: HTH; cl00088 640511009571 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 640511009572 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 640511009573 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 640511009574 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 640511009575 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 640511009576 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511009577 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 640511009578 IHF dimer interface [polypeptide binding]; other site 640511009579 IHF - DNA interface [nucleotide binding]; other site 640511009580 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 640511009581 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511009582 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 640511009583 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 640511009584 N-acetyl-D-glucosamine binding site [chemical binding]; other site 640511009585 catalytic residue [active] 640511009586 type II secretion system protein D; Region: type_II_gspD; TIGR02517 640511009587 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 640511009588 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 640511009589 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 640511009590 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 640511009591 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 640511009592 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 640511009593 type II secretion system protein E; Region: type_II_gspE; TIGR02533 640511009594 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 640511009595 Walker A motif; other site 640511009596 ATP binding site [chemical binding]; other site 640511009597 Walker B motif; other site 640511009598 type II secretion system protein F; Region: GspF; TIGR02120 640511009599 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 640511009600 Ceramidase; Region: Ceramidase; pfam05875 640511009601 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 640511009602 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 640511009603 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 640511009604 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 640511009605 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 640511009606 Type II transport protein GspH; Region: GspH; pfam12019 640511009607 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 640511009608 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 640511009609 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 640511009610 GspL periplasmic domain; Region: GspL_C; cl14909 640511009611 Type II secretion system (T2SS), protein M; Region: T2SM; cl01222 640511009612 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 640511009613 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640511009614 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640511009615 Helix-turn-helix domains; Region: HTH; cl00088 640511009616 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 640511009617 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511009618 putative substrate translocation pore; other site 640511009619 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511009620 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 640511009621 AlkA N-terminal domain; Region: AlkA_N; cl05528 640511009622 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 640511009623 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 640511009624 minor groove reading motif; other site 640511009625 helix-hairpin-helix signature motif; other site 640511009626 substrate binding pocket [chemical binding]; other site 640511009627 active site 640511009628 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 640511009629 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 640511009630 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511009631 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 640511009632 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 640511009633 DNA binding site [nucleotide binding] 640511009634 active site 640511009635 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 640511009636 dimer interface [polypeptide binding]; other site 640511009637 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640511009638 metal binding site [ion binding]; metal-binding site 640511009639 YaeQ protein; Region: YaeQ; cl01913 640511009640 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 640511009641 Helix-turn-helix domains; Region: HTH; cl00088 640511009642 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 640511009643 putative dimerization interface [polypeptide binding]; other site 640511009644 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 640511009645 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640511009646 NAD(P) binding site [chemical binding]; other site 640511009647 catalytic residues [active] 640511009648 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 640511009649 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 640511009650 ligand binding site [chemical binding]; other site 640511009651 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 640511009652 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 640511009653 Walker A/P-loop; other site 640511009654 ATP binding site [chemical binding]; other site 640511009655 Q-loop/lid; other site 640511009656 ABC transporter signature motif; other site 640511009657 Walker B; other site 640511009658 D-loop; other site 640511009659 H-loop/switch region; other site 640511009660 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 640511009661 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 640511009662 TM-ABC transporter signature motif; other site 640511009663 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 640511009664 HIT family signature motif; other site 640511009665 catalytic residue [active] 640511009666 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640511009667 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 640511009668 conserved cys residue [active] 640511009669 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 640511009670 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511009671 NAD(P) binding site [chemical binding]; other site 640511009672 active site 640511009673 Response regulator receiver domain; Region: Response_reg; pfam00072 640511009674 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511009675 active site 640511009676 phosphorylation site [posttranslational modification] 640511009677 intermolecular recognition site; other site 640511009678 dimerization interface [polypeptide binding]; other site 640511009679 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640511009680 metal binding site [ion binding]; metal-binding site 640511009681 active site 640511009682 I-site; other site 640511009683 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 640511009684 active site 640511009685 Int/Topo IB signature motif; other site 640511009686 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 640511009687 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 640511009688 trmE is a tRNA modification GTPase; Region: trmE; cd04164 640511009689 G1 box; other site 640511009690 GTP/Mg2+ binding site [chemical binding]; other site 640511009691 Switch I region; other site 640511009692 G2 box; other site 640511009693 Switch II region; other site 640511009694 G3 box; other site 640511009695 G4 box; other site 640511009696 G5 box; other site 640511009697 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 640511009698 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 640511009699 non-specific DNA binding site [nucleotide binding]; other site 640511009700 salt bridge; other site 640511009701 sequence-specific DNA binding site [nucleotide binding]; other site 640511009702 membrane protein insertase; Provisional; Region: PRK01318 640511009703 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 640511009704 Haemolytic domain; Region: Haemolytic; cl00506 640511009705 Ribonuclease P; Region: Ribonuclease_P; cl00457 640511009706 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 640511009707 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 640511009708 catalytic residue [active] 640511009709 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 640511009710 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 640511009711 N-terminal plug; other site 640511009712 ligand-binding site [chemical binding]; other site 640511009713 Histidine kinase; Region: HisKA_3; pfam07730 640511009714 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511009715 ATP binding site [chemical binding]; other site 640511009716 Mg2+ binding site [ion binding]; other site 640511009717 G-X-G motif; other site 640511009718 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640511009719 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511009720 active site 640511009721 phosphorylation site [posttranslational modification] 640511009722 intermolecular recognition site; other site 640511009723 dimerization interface [polypeptide binding]; other site 640511009724 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 640511009725 DNA binding residues [nucleotide binding] 640511009726 dimerization interface [polypeptide binding]; other site 640511009727 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 640511009728 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 640511009729 FeS/SAM binding site; other site 640511009730 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 640511009731 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 640511009732 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl15243 640511009733 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 640511009734 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 640511009735 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 640511009736 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 640511009737 putative subunit interface; other site 640511009738 formylmethanofuran--tetrahydromethanopterin formyltransferase; Provisional; Region: PRK02114 640511009739 Formylmethanofuran-tetrahydromethanopterin formyltransferase; Region: FTR; pfam01913 640511009740 FTR, proximal lobe; Region: FTR_C; pfam02741 640511009741 formylmethanofuran dehydrogenase subunit A; Region: one_C_dehyd_A; TIGR03121 640511009742 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 640511009743 active site 640511009744 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 640511009745 formylmethanofuran dehydrogenase subunit B; Region: one_C_dehyd_B; TIGR03129 640511009746 putative [4Fe-4S] binding site [ion binding]; other site 640511009747 putative molybdopterin cofactor binding site [chemical binding]; other site 640511009748 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 640511009749 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 640511009750 active site 640511009751 ATP-grasp domain; Region: ATP-grasp_4; cl03087 640511009752 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 640511009753 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 640511009754 nucleotide binding site [chemical binding]; other site 640511009755 substrate binding site [chemical binding]; other site 640511009756 Protein of unknown function (DUF556); Region: DUF556; cl00822 640511009757 Flavin Reductases; Region: FlaRed; cl00801 640511009758 ribulose bisophosphate carboxylase; Reviewed; Region: rbcL; PRK04208 640511009759 Ribulose bisphosphate carboxylase large chain, Form I; Region: RuBisCO_large_I; cd08212 640511009760 homodimer interface [polypeptide binding]; other site 640511009761 active site 640511009762 heterodimer interface [polypeptide binding]; other site 640511009763 catalytic residue [active] 640511009764 metal binding site [ion binding]; metal-binding site 640511009765 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 640511009766 multimerization interface [polypeptide binding]; other site 640511009767 probable Rubsico expression protein CbbX; Region: cbbX_cfxQ; TIGR02880 640511009768 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 640511009769 Walker A motif; other site 640511009770 ATP binding site [chemical binding]; other site 640511009771 Walker B motif; other site 640511009772 arginine finger; other site 640511009773 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 640511009774 AMP binding site [chemical binding]; other site 640511009775 metal binding site [ion binding]; metal-binding site 640511009776 active site 640511009777 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511009778 transketolase; Reviewed; Region: PRK12753 640511009779 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 640511009780 TPP-binding site [chemical binding]; other site 640511009781 dimer interface [polypeptide binding]; other site 640511009782 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 640511009783 PYR/PP interface [polypeptide binding]; other site 640511009784 dimer interface [polypeptide binding]; other site 640511009785 TPP binding site [chemical binding]; other site 640511009786 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 640511009787 hypothetical protein; Provisional; Region: PRK08185 640511009788 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 640511009789 intersubunit interface [polypeptide binding]; other site 640511009790 active site 640511009791 zinc binding site [ion binding]; other site 640511009792 Na+ binding site [ion binding]; other site 640511009793 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 640511009794 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 640511009795 substrate binding site [chemical binding]; other site 640511009796 hexamer interface [polypeptide binding]; other site 640511009797 metal binding site [ion binding]; metal-binding site 640511009798 dihydropteroate synthase-related protein; Region: TIGR00284 640511009799 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 640511009800 substrate binding pocket [chemical binding]; other site 640511009801 dimer interface [polypeptide binding]; other site 640511009802 inhibitor binding site; inhibition site 640511009803 Archaeal flavoproteins [Energy production and conversion]; Region: COG1036 640511009804 Flavoprotein; Region: Flavoprotein; cl08021 640511009805 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 640511009806 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 640511009807 Walker A motif; other site 640511009808 ATP binding site [chemical binding]; other site 640511009809 Walker B motif; other site 640511009810 arginine finger; other site 640511009811 Helix-turn-helix domains; Region: HTH; cl00088 640511009812 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 640511009813 active site 640511009814 Formaldehyde-activating enzyme (Fae); Region: Fae; cl00774 640511009815 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 640511009816 alpha-L-glutamate ligases, RimK family; Region: rimK_fam; TIGR00768 640511009817 ATP-grasp domain; Region: ATP-grasp_4; cl03087 640511009818 N(5),N(10)-methenyltetrahydromethanopterin cyclohydrolase; Provisional; Region: PRK02264 640511009819 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 640511009820 trimer interface I [polypeptide binding]; other site 640511009821 putative substrate binding pocket [chemical binding]; other site 640511009822 trimer interface II [polypeptide binding]; other site 640511009823 Predicted ATP-dependent carboligase related to biotin carboxylase [General function prediction only]; Region: COG2232 640511009824 ATP-grasp domain; Region: ATP-grasp_4; cl03087 640511009825 Methylene-tetrahydromethanopterin dehydrogenase, N-terminal; Region: Mpt_N; pfam09176 640511009826 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511009827 NAD(P) binding pocket [chemical binding]; other site 640511009828 Predicted archaeal sugar kinases [General function prediction only]; Region: COG1907 640511009829 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 640511009830 aromatic arch; other site 640511009831 DCoH dimer interaction site [polypeptide binding]; other site 640511009832 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 640511009833 DCoH tetramer interaction site [polypeptide binding]; other site 640511009834 substrate binding site [chemical binding]; other site 640511009835 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 640511009836 Large subunit of methanol dehydrogenase (moxF); Region: PQQ_MDH; cd10278 640511009837 Trp docking motif [polypeptide binding]; other site 640511009838 dimer interface [polypeptide binding]; other site 640511009839 active site 640511009840 small subunit binding site [polypeptide binding]; other site 640511009841 Cytochrome c; Region: Cytochrom_C; cl11414 640511009842 quinoprotein dehydrogenase-associated probable ABC transporter substrate-binding protein; Region: ABC_peri_MoxJ_2; TIGR03871 640511009843 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511009844 Helix-turn-helix domains; Region: HTH; cl00088 640511009845 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 640511009846 putative dimerization interface [polypeptide binding]; other site 640511009847 MoxR-like ATPases [General function prediction only]; Region: COG0714 640511009848 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511009849 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 640511009850 metal ion-dependent adhesion site (MIDAS); other site 640511009851 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 640511009852 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640511009853 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 640511009854 conserved cys residue [active] 640511009855 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 640511009856 Peptidase M35-like domain of uncharacterized proteins; Region: M35_like_1; cd11007 640511009857 putative active site [active] 640511009858 putative Zn binding site [ion binding]; other site 640511009859 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 640511009860 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 640511009861 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 640511009862 conserved cys residue [active] 640511009863 Protein of unknown function (DUF3268); Region: DUF3268; pfam11672 640511009864 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 640511009865 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 640511009866 Walker A/P-loop; other site 640511009867 ATP binding site [chemical binding]; other site 640511009868 Q-loop/lid; other site 640511009869 ABC transporter signature motif; other site 640511009870 Walker B; other site 640511009871 D-loop; other site 640511009872 H-loop/switch region; other site 640511009873 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 640511009874 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511009875 dimer interface [polypeptide binding]; other site 640511009876 conserved gate region; other site 640511009877 putative PBP binding loops; other site 640511009878 ABC-ATPase subunit interface; other site 640511009879 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 640511009880 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 640511009881 substrate binding pocket [chemical binding]; other site 640511009882 membrane-bound complex binding site; other site 640511009883 hinge residues; other site 640511009884 ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: TauA; COG4521 640511009885 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 640511009886 substrate binding pocket [chemical binding]; other site 640511009887 membrane-bound complex binding site; other site 640511009888 hinge residues; other site 640511009889 taurine transporter ATP-binding subunit; Provisional; Region: tauB; PRK11248 640511009890 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 640511009891 Walker A/P-loop; other site 640511009892 ATP binding site [chemical binding]; other site 640511009893 Q-loop/lid; other site 640511009894 ABC transporter signature motif; other site 640511009895 Walker B; other site 640511009896 D-loop; other site 640511009897 H-loop/switch region; other site 640511009898 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 640511009899 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 640511009900 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 640511009901 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 640511009902 substrate binding pocket [chemical binding]; other site 640511009903 membrane-bound complex binding site; other site 640511009904 hinge residues; other site 640511009905 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 640511009906 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511009907 dimer interface [polypeptide binding]; other site 640511009908 conserved gate region; other site 640511009909 putative PBP binding loops; other site 640511009910 ABC-ATPase subunit interface; other site 640511009911 ectoine utilization protein EutE; Region: ectoine_eutE; TIGR02994 640511009912 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_2; cd06252 640511009913 putative active site [active] 640511009914 Zn binding site [ion binding]; other site 640511009915 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 640511009916 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 640511009917 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 640511009918 active site 640511009919 motif I; other site 640511009920 motif II; other site 640511009921 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 640511009922 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 640511009923 putative NAD(P) binding site [chemical binding]; other site 640511009924 LysR family transcriptional regulator; Provisional; Region: PRK14997 640511009925 Helix-turn-helix domains; Region: HTH; cl00088 640511009926 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 640511009927 putative effector binding pocket; other site 640511009928 putative dimerization interface [polypeptide binding]; other site 640511009929 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511009930 D-galactonate transporter; Region: 2A0114; TIGR00893 640511009931 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 640511009932 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511009933 DNA-binding site [nucleotide binding]; DNA binding site 640511009934 UTRA domain; Region: UTRA; cl01230 640511009935 benzoate transport; Region: 2A0115; TIGR00895 640511009936 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511009937 putative substrate translocation pore; other site 640511009938 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 640511009939 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 640511009940 active site 640511009941 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 640511009942 Helix-turn-helix domains; Region: HTH; cl00088 640511009943 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 640511009944 dimerization interface [polypeptide binding]; other site 640511009945 substrate binding pocket [chemical binding]; other site 640511009946 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 640511009947 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 640511009948 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 640511009949 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 640511009950 bifunctional biotin--[acetyl-CoA-carboxylase] ligase/pantothenate kinase; Reviewed; Region: PRK13325 640511009951 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640511009952 Coenzyme A binding pocket [chemical binding]; other site 640511009953 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 640511009954 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 640511009955 substrate binding pocket [chemical binding]; other site 640511009956 membrane-bound complex binding site; other site 640511009957 hinge residues; other site 640511009958 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 640511009959 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 640511009960 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 640511009961 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 640511009962 active site 640511009963 non-prolyl cis peptide bond; other site 640511009964 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511009965 dimer interface [polypeptide binding]; other site 640511009966 conserved gate region; other site 640511009967 putative PBP binding loops; other site 640511009968 ABC-ATPase subunit interface; other site 640511009969 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 640511009970 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 640511009971 Walker A/P-loop; other site 640511009972 ATP binding site [chemical binding]; other site 640511009973 Q-loop/lid; other site 640511009974 ABC transporter signature motif; other site 640511009975 Walker B; other site 640511009976 D-loop; other site 640511009977 H-loop/switch region; other site 640511009978 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 640511009979 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 640511009980 substrate binding pocket [chemical binding]; other site 640511009981 membrane-bound complex binding site; other site 640511009982 hinge residues; other site 640511009983 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 640511009984 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 640511009985 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 640511009986 NMT1-like family; Region: NMT1_2; cl15260 640511009987 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 640511009988 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 640511009989 Walker A/P-loop; other site 640511009990 ATP binding site [chemical binding]; other site 640511009991 Q-loop/lid; other site 640511009992 ABC transporter signature motif; other site 640511009993 Walker B; other site 640511009994 D-loop; other site 640511009995 H-loop/switch region; other site 640511009996 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 640511009997 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 640511009998 56kDa selenium binding protein (SBP56); Region: SBP56; pfam05694 640511009999 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 640511010000 Fe-S cluster binding site [ion binding]; other site 640511010001 active site 640511010002 Protein of unknown function DUF72; Region: DUF72; cl00777 640511010003 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 640511010004 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 640511010005 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 640511010006 putative NAD(P) binding site [chemical binding]; other site 640511010007 Helix-turn-helix domains; Region: HTH; cl00088 640511010008 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 640511010009 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 640511010010 iron-sulfur cluster [ion binding]; other site 640511010011 [2Fe-2S] cluster binding site [ion binding]; other site 640511010012 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 640511010013 alpha subunit interface [polypeptide binding]; other site 640511010014 active site 640511010015 substrate binding site [chemical binding]; other site 640511010016 Fe binding site [ion binding]; other site 640511010017 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 640511010018 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 640511010019 FMN-binding pocket [chemical binding]; other site 640511010020 flavin binding motif; other site 640511010021 phosphate binding motif [ion binding]; other site 640511010022 beta-alpha-beta structure motif; other site 640511010023 NAD binding pocket [chemical binding]; other site 640511010024 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 640511010025 catalytic loop [active] 640511010026 iron binding site [ion binding]; other site 640511010027 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 640511010028 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 640511010029 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 640511010030 Cytochrome c; Region: Cytochrom_C; cl11414 640511010031 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 640511010032 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 640511010033 D-pathway; other site 640511010034 Putative ubiquinol binding site [chemical binding]; other site 640511010035 Low-spin heme (heme b) binding site [chemical binding]; other site 640511010036 Putative water exit pathway; other site 640511010037 Binuclear center (heme o3/CuB) [ion binding]; other site 640511010038 K-pathway; other site 640511010039 Putative proton exit pathway; other site 640511010040 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 640511010041 Subunit I/III interface [polypeptide binding]; other site 640511010042 Cytochrome c; Region: Cytochrom_C; cl11414 640511010043 Cytochrome c; Region: Cytochrom_C; cl11414 640511010044 acetyacetyl-CoA reductase; Provisional; Region: PRK12938 640511010045 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 640511010046 NAD(P) binding site [chemical binding]; other site 640511010047 homotetramer interface [polypeptide binding]; other site 640511010048 homodimer interface [polypeptide binding]; other site 640511010049 active site 640511010050 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 640511010051 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 640511010052 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 640511010053 PhoU domain; Region: PhoU; pfam01895 640511010054 Domain of unknown function (DUF3597); Region: DUF3597; pfam12200 640511010055 FCD domain; Region: FCD; cl11656 640511010056 benzoate transport; Region: 2A0115; TIGR00895 640511010057 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511010058 putative substrate translocation pore; other site 640511010059 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511010060 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 640511010061 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 640511010062 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 640511010063 ATP-grasp domain; Region: ATP-grasp_4; cl03087 640511010064 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640511010065 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 640511010066 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511010067 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511010068 tyrosine kinase; Provisional; Region: PRK11519 640511010069 Chain length determinant protein; Region: Wzz; cl15801 640511010070 Chain length determinant protein; Region: Wzz; cl15801 640511010071 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511010072 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511010073 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640511010074 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 640511010075 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 640511010076 active site 640511010077 MatE; Region: MatE; cl10513 640511010078 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640511010079 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 640511010080 putative ADP-binding pocket [chemical binding]; other site 640511010081 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 640511010082 O-Antigen ligase; Region: Wzy_C; cl04850 640511010083 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 640511010084 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 640511010085 Substrate binding site; other site 640511010086 Cupin domain; Region: Cupin_2; cl09118 640511010087 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 640511010088 Bacterial sugar transferase; Region: Bac_transf; cl00939 640511010089 Sugar-transfer associated ATP-grasp; Region: ATPgrasp_ST; pfam14397 640511010090 benzoate transport; Region: 2A0115; TIGR00895 640511010091 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511010092 putative substrate translocation pore; other site 640511010093 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511010094 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_7; cd06910 640511010095 putative active site [active] 640511010096 Zn binding site [ion binding]; other site 640511010097 tartrate dehydrogenase; Provisional; Region: PRK08194 640511010098 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 640511010099 Propionate catabolism activator; Region: PrpR_N; pfam06506 640511010100 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 640511010101 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 640511010102 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 640511010103 Walker A motif; other site 640511010104 ATP binding site [chemical binding]; other site 640511010105 Walker B motif; other site 640511010106 arginine finger; other site 640511010107 Helix-turn-helix domains; Region: HTH; cl00088 640511010108 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 640511010109 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 640511010110 dimer interface [polypeptide binding]; other site 640511010111 active site 640511010112 citrylCoA binding site [chemical binding]; other site 640511010113 oxalacetate/citrate binding site [chemical binding]; other site 640511010114 coenzyme A binding site [chemical binding]; other site 640511010115 catalytic triad [active] 640511010116 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 640511010117 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 640511010118 substrate binding site [chemical binding]; other site 640511010119 ligand binding site [chemical binding]; other site 640511010120 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 640511010121 substrate binding site [chemical binding]; other site 640511010122 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 640511010123 PrpF protein; Region: PrpF; pfam04303 640511010124 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511010125 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640511010126 putative substrate translocation pore; other site 640511010127 Domain of unknown function (DUF305); Region: DUF305; cl15795 640511010128 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 640511010129 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 640511010130 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 640511010131 putative NAD(P) binding site [chemical binding]; other site 640511010132 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 640511010133 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511010134 Walker A/P-loop; other site 640511010135 ATP binding site [chemical binding]; other site 640511010136 Q-loop/lid; other site 640511010137 ABC transporter signature motif; other site 640511010138 Walker B; other site 640511010139 D-loop; other site 640511010140 H-loop/switch region; other site 640511010141 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 640511010142 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 640511010143 shikimate binding site; other site 640511010144 NAD(P) binding site [chemical binding]; other site 640511010145 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12843 640511010146 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511010147 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511010148 putative FAD-binding dehydrogenase; Reviewed; Region: PRK06134 640511010149 NIPSNAP; Region: NIPSNAP; pfam07978 640511010150 NIPSNAP; Region: NIPSNAP; pfam07978 640511010151 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 640511010152 benzoate transport; Region: 2A0115; TIGR00895 640511010153 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511010154 putative substrate translocation pore; other site 640511010155 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511010156 Helix-turn-helix domains; Region: HTH; cl00088 640511010157 Bacterial transcriptional regulator; Region: IclR; pfam01614 640511010158 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 640511010159 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 640511010160 Walker A motif; other site 640511010161 ATP binding site [chemical binding]; other site 640511010162 Walker B motif; other site 640511010163 arginine finger; other site 640511010164 Peptidase family M41; Region: Peptidase_M41; pfam01434 640511010165 OpgC protein; Region: OpgC_C; cl00792 640511010166 Acyltransferase family; Region: Acyl_transf_3; pfam01757 640511010167 OpgC protein; Region: OpgC_C; cl00792 640511010168 Tannase and feruloyl esterase; Region: Tannase; pfam07519 640511010169 Response regulator receiver domain; Region: Response_reg; pfam00072 640511010170 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511010171 active site 640511010172 phosphorylation site [posttranslational modification] 640511010173 intermolecular recognition site; other site 640511010174 dimerization interface [polypeptide binding]; other site 640511010175 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 640511010176 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 640511010177 putative active site [active] 640511010178 heme pocket [chemical binding]; other site 640511010179 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 640511010180 dimer interface [polypeptide binding]; other site 640511010181 phosphorylation site [posttranslational modification] 640511010182 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511010183 ATP binding site [chemical binding]; other site 640511010184 Mg2+ binding site [ion binding]; other site 640511010185 G-X-G motif; other site 640511010186 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511010187 active site 640511010188 phosphorylation site [posttranslational modification] 640511010189 intermolecular recognition site; other site 640511010190 dimerization interface [polypeptide binding]; other site 640511010191 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 640511010192 The ABCA subfamily mediates the transport of a variety of lipid compounds. Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency; Region: ABC_subfamily_A; cd03263 640511010193 Walker A/P-loop; other site 640511010194 ATP binding site [chemical binding]; other site 640511010195 Q-loop/lid; other site 640511010196 ABC transporter signature motif; other site 640511010197 Walker B; other site 640511010198 D-loop; other site 640511010199 H-loop/switch region; other site 640511010200 ABC-2 type transporter; Region: ABC2_membrane; cl11417 640511010201 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 640511010202 Autoinducer binding domain; Region: Autoind_bind; pfam03472 640511010203 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 640511010204 DNA binding residues [nucleotide binding] 640511010205 dimerization interface [polypeptide binding]; other site 640511010206 Helix-turn-helix domain; Region: HTH_18; pfam12833 640511010207 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511010208 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511010209 Cyclophilin-like; Region: Cyclophil_like; cl00950 640511010210 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 640511010211 active site 640511010212 catalytic triad [active] 640511010213 oxyanion hole [active] 640511010214 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 640511010215 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511010216 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511010217 DNA-binding site [nucleotide binding]; DNA binding site 640511010218 FCD domain; Region: FCD; cl11656 640511010219 hypothetical protein; Provisional; Region: PRK05858 640511010220 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 640511010221 PYR/PP interface [polypeptide binding]; other site 640511010222 dimer interface [polypeptide binding]; other site 640511010223 TPP binding site [chemical binding]; other site 640511010224 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 640511010225 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 640511010226 TPP-binding site; other site 640511010227 dimer interface [polypeptide binding]; other site 640511010228 formyl-coenzyme A transferase; Provisional; Region: PRK05398 640511010229 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640511010230 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 640511010231 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 640511010232 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 640511010233 Autophagy protein Apg6; Region: APG6; pfam04111 640511010234 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511010235 Helix-turn-helix domains; Region: HTH; cl00088 640511010236 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 640511010237 putative dimerization interface [polypeptide binding]; other site 640511010238 oxalate/formate antiporter; Region: oxa_formateAnti; TIGR04259 640511010239 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511010240 putative substrate translocation pore; other site 640511010241 Helix-turn-helix domains; Region: HTH; cl00088 640511010242 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 640511010243 putative dimerization interface [polypeptide binding]; other site 640511010244 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640511010245 Pseudomonas fluorescens 4-hydroxymuconic semialdehyde dehydrogenase-like; Region: ALDH_HMSADH_HapE; cd07115 640511010246 NAD(P) binding site [chemical binding]; other site 640511010247 catalytic residues [active] 640511010248 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 640511010249 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511010250 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 640511010251 LysE type translocator; Region: LysE; cl00565 640511010252 Uncharacterized conserved protein [Function unknown]; Region: COG1739 640511010253 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 640511010254 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 640511010255 LysE type translocator; Region: LysE; cl00565 640511010256 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 640511010257 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 640511010258 putative catalytic residue [active] 640511010259 Protein of unknown function (DUF2866); Region: DUF2866; pfam11065 640511010260 GAF domain; Region: GAF; cl15785 640511010261 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640511010262 metal binding site [ion binding]; metal-binding site 640511010263 active site 640511010264 I-site; other site 640511010265 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 640511010266 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 640511010267 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 640511010268 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 640511010269 Cache domain; Region: Cache_2; cl07034 640511010270 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 640511010271 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640511010272 dimer interface [polypeptide binding]; other site 640511010273 putative CheW interface [polypeptide binding]; other site 640511010274 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 640511010275 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 640511010276 tetramer interface [polypeptide binding]; other site 640511010277 active site 640511010278 Mg2+/Mn2+ binding site [ion binding]; other site 640511010279 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 640511010280 active site 640511010281 metal-binding site 640511010282 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 640511010283 phosphonopyruvate decarboxylase; Region: Ppyr-DeCO2ase; TIGR03297 640511010284 PYR/PP interface [polypeptide binding]; other site 640511010285 dimer interface [polypeptide binding]; other site 640511010286 TPP binding site [chemical binding]; other site 640511010287 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 640511010288 TPP-binding site; other site 640511010289 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 640511010290 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 640511010291 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640511010292 catalytic residue [active] 640511010293 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12650 640511010294 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 640511010295 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 640511010296 AMP-binding enzyme; Region: AMP-binding; cl15778 640511010297 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 640511010298 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 640511010299 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 640511010300 Ligand binding site; other site 640511010301 metal-binding site 640511010302 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 640511010303 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 640511010304 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640511010305 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 640511010306 FAD binding domain; Region: FAD_binding_4; pfam01565 640511010307 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 640511010308 aldehyde oxidoreductase 2Fe-2S subunit; Provisional; Region: PRK11433 640511010309 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 640511010310 catalytic loop [active] 640511010311 iron binding site [ion binding]; other site 640511010312 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 640511010313 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 640511010314 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 640511010315 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 640511010316 hydrogenase 4 subunit F; Validated; Region: PRK06458 640511010317 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 640511010318 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 640511010319 NADH dehydrogenase; Region: NADHdh; cl00469 640511010320 hydrogenase 4 subunit B; Validated; Region: PRK06521 640511010321 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 640511010322 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 640511010323 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 640511010324 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 640511010325 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 640511010326 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 640511010327 PhnA protein; Region: PhnA; pfam03831 640511010328 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 640511010329 putative catalytic site [active] 640511010330 putative phosphate binding site [ion binding]; other site 640511010331 active site 640511010332 metal binding site A [ion binding]; metal-binding site 640511010333 DNA binding site [nucleotide binding] 640511010334 putative AP binding site [nucleotide binding]; other site 640511010335 putative metal binding site B [ion binding]; other site 640511010336 CsbD-like; Region: CsbD; cl15799 640511010337 flagellar motor protein MotB; Validated; Region: motB; PRK09041 640511010338 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 640511010339 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640511010340 ligand binding site [chemical binding]; other site 640511010341 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 640511010342 NodB motif; other site 640511010343 active site 640511010344 catalytic site [active] 640511010345 metal binding site [ion binding]; metal-binding site 640511010346 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640511010347 classical (c) SDRs; Region: SDR_c; cd05233 640511010348 NAD(P) binding site [chemical binding]; other site 640511010349 active site 640511010350 Oxidoreductase-like protein, N-terminal; Region: Oxidored-like; pfam09791 640511010351 NAD-dependent deacetylase; Provisional; Region: PRK05333 640511010352 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 640511010353 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 640511010354 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 640511010355 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511010356 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 640511010357 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 640511010358 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640511010359 Cupin domain; Region: Cupin_2; cl09118 640511010360 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 640511010361 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 640511010362 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 640511010363 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 640511010364 tetramer interface [polypeptide binding]; other site 640511010365 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511010366 catalytic residue [active] 640511010367 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640511010368 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511010369 putative substrate translocation pore; other site 640511010370 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511010371 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 640511010372 homodimer interface [polypeptide binding]; other site 640511010373 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 640511010374 active site pocket [active] 640511010375 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 640511010376 Leucine carboxyl methyltransferase; Region: LCM; cl01306 640511010377 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 640511010378 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 640511010379 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511010380 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 640511010381 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 640511010382 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640511010383 active site 640511010384 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 640511010385 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 640511010386 Ligand binding site [chemical binding]; other site 640511010387 Electron transfer flavoprotein domain; Region: ETF; pfam01012 640511010388 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 640511010389 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 640511010390 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 640511010391 (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 640511010392 dimer interaction site [polypeptide binding]; other site 640511010393 substrate-binding tunnel; other site 640511010394 active site 640511010395 catalytic site [active] 640511010396 substrate binding site [chemical binding]; other site 640511010397 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 640511010398 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 640511010399 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 640511010400 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640511010401 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 640511010402 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511010403 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640511010404 putative substrate translocation pore; other site 640511010405 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 640511010406 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 640511010407 NADP binding site [chemical binding]; other site 640511010408 dimer interface [polypeptide binding]; other site 640511010409 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 640511010410 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 640511010411 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 640511010412 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 640511010413 [2Fe-2S] cluster binding site [ion binding]; other site 640511010414 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 640511010415 AMP-binding enzyme; Region: AMP-binding; cl15778 640511010416 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 640511010417 trimer interface [polypeptide binding]; other site 640511010418 eyelet of channel; other site 640511010419 BON domain; Region: BON; cl02771 640511010420 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 640511010421 putative dimer interface [polypeptide binding]; other site 640511010422 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640511010423 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 640511010424 CAAX protease self-immunity; Region: Abi; cl00558 640511010425 Protein of unknown function (DUF419); Region: DUF419; cl15265 640511010426 Dehydratase family; Region: ILVD_EDD; cl00340 640511010427 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 640511010428 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511010429 metabolite-proton symporter; Region: 2A0106; TIGR00883 640511010430 putative substrate translocation pore; other site 640511010431 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 640511010432 eyelet of channel; other site 640511010433 trimer interface [polypeptide binding]; other site 640511010434 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 640511010435 Predicted deacylase [General function prediction only]; Region: COG3608 640511010436 active site 640511010437 Zn binding site [ion binding]; other site 640511010438 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional; Region: PRK15010 640511010439 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 640511010440 substrate binding pocket [chemical binding]; other site 640511010441 membrane-bound complex binding site; other site 640511010442 hinge residues; other site 640511010443 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 640511010444 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 640511010445 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640511010446 metal binding site [ion binding]; metal-binding site 640511010447 active site 640511010448 I-site; other site 640511010449 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 640511010450 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 640511010451 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 640511010452 active site 640511010453 phosphonate C-P lyase system protein PhnL; Region: CP_lyasePhnL; TIGR02324 640511010454 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511010455 Walker A/P-loop; other site 640511010456 ATP binding site [chemical binding]; other site 640511010457 Q-loop/lid; other site 640511010458 ABC transporter signature motif; other site 640511010459 Walker B; other site 640511010460 D-loop; other site 640511010461 H-loop/switch region; other site 640511010462 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 640511010463 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 640511010464 Walker A/P-loop; other site 640511010465 ATP binding site [chemical binding]; other site 640511010466 Q-loop/lid; other site 640511010467 ABC transporter signature motif; other site 640511010468 Walker B; other site 640511010469 D-loop; other site 640511010470 H-loop/switch region; other site 640511010471 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640511010472 Phosphonate metabolism protein PhnJ; Region: PhnJ; cl01457 640511010473 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; cl01456 640511010474 Bacterial phosphonate metabolism protein (PhnH); Region: PhnH; cl01455 640511010475 Phosphonate metabolism protein PhnG; Region: PhnG; cl01454 640511010476 phosphonates metabolism transcriptional regulator PhnF; Region: C_P_lyase_phnF; TIGR02325 640511010477 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511010478 DNA-binding site [nucleotide binding]; DNA binding site 640511010479 UTRA domain; Region: UTRA; cl01230 640511010480 Protein of unknown function (DUF1045); Region: DUF1045; cl15435 640511010481 Guanylate kinase; Region: Guanylate_kin; pfam00625 640511010482 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511010483 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 640511010484 Helix-turn-helix domains; Region: HTH; cl00088 640511010485 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 640511010486 dimerization interface [polypeptide binding]; other site 640511010487 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 640511010488 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 640511010489 metal binding site [ion binding]; metal-binding site 640511010490 putative dimer interface [polypeptide binding]; other site 640511010491 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 640511010492 Helix-turn-helix domains; Region: HTH; cl00088 640511010493 Bacterial transcriptional regulator; Region: IclR; pfam01614 640511010494 Transcriptional regulators [Transcription]; Region: FadR; COG2186 640511010495 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511010496 DNA-binding site [nucleotide binding]; DNA binding site 640511010497 FCD domain; Region: FCD; cl11656 640511010498 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 640511010499 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511010500 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 640511010501 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 640511010502 intersubunit interface [polypeptide binding]; other site 640511010503 active site 640511010504 Zn2+ binding site [ion binding]; other site 640511010505 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 640511010506 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 640511010507 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 640511010508 putative NAD(P) binding site [chemical binding]; other site 640511010509 active site 640511010510 putative substrate binding site [chemical binding]; other site 640511010511 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 640511010512 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 640511010513 dimer interface [polypeptide binding]; other site 640511010514 active site 640511010515 Cation efflux family; Region: Cation_efflux; cl00316 640511010516 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 640511010517 putative metal binding site [ion binding]; other site 640511010518 putative homodimer interface [polypeptide binding]; other site 640511010519 putative homotetramer interface [polypeptide binding]; other site 640511010520 putative homodimer-homodimer interface [polypeptide binding]; other site 640511010521 putative allosteric switch controlling residues; other site 640511010522 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 640511010523 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640511010524 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 640511010525 dimer interface [polypeptide binding]; other site 640511010526 phosphorylation site [posttranslational modification] 640511010527 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511010528 ATP binding site [chemical binding]; other site 640511010529 Mg2+ binding site [ion binding]; other site 640511010530 G-X-G motif; other site 640511010531 Response regulator receiver domain; Region: Response_reg; pfam00072 640511010532 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511010533 active site 640511010534 phosphorylation site [posttranslational modification] 640511010535 intermolecular recognition site; other site 640511010536 dimerization interface [polypeptide binding]; other site 640511010537 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511010538 Helix-turn-helix domains; Region: HTH; cl00088 640511010539 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 640511010540 putative effector binding pocket; other site 640511010541 putative dimerization interface [polypeptide binding]; other site 640511010542 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 640511010543 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 640511010544 active site 640511010545 catalytic tetrad [active] 640511010546 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511010547 Helix-turn-helix domains; Region: HTH; cl00088 640511010548 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 640511010549 putative substrate binding pocket [chemical binding]; other site 640511010550 putative dimerization interface [polypeptide binding]; other site 640511010551 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 640511010552 Putative esterase; Region: Esterase; pfam00756 640511010553 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 640511010554 aspartate carbamoyltransferase; Provisional; Region: PRK11891 640511010555 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 640511010556 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511010557 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 640511010558 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 640511010559 dimer interface [polypeptide binding]; other site 640511010560 active site 640511010561 catalytic residue [active] 640511010562 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 640511010563 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 640511010564 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640511010565 metal binding site [ion binding]; metal-binding site 640511010566 active site 640511010567 I-site; other site 640511010568 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 640511010569 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 640511010570 active site residue [active] 640511010571 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 640511010572 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 640511010573 conserved cys residue [active] 640511010574 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; cl12088 640511010575 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 640511010576 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 640511010577 transmembrane helices; other site 640511010578 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511010579 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 640511010580 NAD(P) binding site [chemical binding]; other site 640511010581 LDH/MDH dimer interface [polypeptide binding]; other site 640511010582 substrate binding site [chemical binding]; other site 640511010583 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 640511010584 Cupin domain; Region: Cupin_2; cl09118 640511010585 Helix-turn-helix domain; Region: HTH_18; pfam12833 640511010586 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511010587 Protein of unknown function (DUF1479); Region: DUF1479; pfam07350 640511010588 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 640511010589 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 640511010590 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 640511010591 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 640511010592 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511010593 dimer interface [polypeptide binding]; other site 640511010594 conserved gate region; other site 640511010595 putative PBP binding loops; other site 640511010596 ABC-ATPase subunit interface; other site 640511010597 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 640511010598 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511010599 dimer interface [polypeptide binding]; other site 640511010600 conserved gate region; other site 640511010601 putative PBP binding loops; other site 640511010602 ABC-ATPase subunit interface; other site 640511010603 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 640511010604 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 640511010605 Walker A/P-loop; other site 640511010606 ATP binding site [chemical binding]; other site 640511010607 Q-loop/lid; other site 640511010608 ABC transporter signature motif; other site 640511010609 Walker B; other site 640511010610 D-loop; other site 640511010611 H-loop/switch region; other site 640511010612 TOBE domain; Region: TOBE_2; cl01440 640511010613 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640511010614 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640511010615 DNA binding site [nucleotide binding] 640511010616 domain linker motif; other site 640511010617 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 640511010618 dimerization interface (closed form) [polypeptide binding]; other site 640511010619 ligand binding site [chemical binding]; other site 640511010620 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 640511010621 Sulfate transporter family; Region: Sulfate_transp; cl15842 640511010622 Sulfate transporter family; Region: Sulfate_transp; cl15842 640511010623 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 640511010624 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 640511010625 active site 640511010626 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 640511010627 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 640511010628 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640511010629 dimer interface [polypeptide binding]; other site 640511010630 putative CheW interface [polypeptide binding]; other site 640511010631 Radical SAM superfamily; Region: Radical_SAM; pfam04055 640511010632 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 640511010633 FeS/SAM binding site; other site 640511010634 glutamine synthetase, type I; Region: GlnA; TIGR00653 640511010635 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 640511010636 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 640511010637 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 640511010638 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 640511010639 transmembrane helices; other site 640511010640 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 640511010641 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 640511010642 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 640511010643 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511010644 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 640511010645 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 640511010646 SLBB domain; Region: SLBB; pfam10531 640511010647 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 640511010648 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 640511010649 transmembrane helices; other site 640511010650 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 640511010651 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 640511010652 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 640511010653 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 640511010654 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 640511010655 L-lactate permease; Region: Lactate_perm; cl00701 640511010656 glycolate transporter; Provisional; Region: PRK09695 640511010657 LysE type translocator; Region: LysE; cl00565 640511010658 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511010659 Helix-turn-helix domains; Region: HTH; cl00088 640511010660 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 640511010661 putative dimerization interface [polypeptide binding]; other site 640511010662 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 640511010663 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640511010664 putative metal binding site [ion binding]; other site 640511010665 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 640511010666 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 640511010667 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 640511010668 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640511010669 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 640511010670 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511010671 active site 640511010672 phosphorylation site [posttranslational modification] 640511010673 intermolecular recognition site; other site 640511010674 dimerization interface [polypeptide binding]; other site 640511010675 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 640511010676 DNA binding site [nucleotide binding] 640511010677 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 640511010678 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 640511010679 dimer interface [polypeptide binding]; other site 640511010680 phosphorylation site [posttranslational modification] 640511010681 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511010682 ATP binding site [chemical binding]; other site 640511010683 Mg2+ binding site [ion binding]; other site 640511010684 G-X-G motif; other site 640511010685 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 640511010686 active site 640511010687 DNA polymerase IV; Validated; Region: PRK02406 640511010688 DNA binding site [nucleotide binding] 640511010689 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 640511010690 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 640511010691 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 640511010692 YceI-like domain; Region: YceI; cl01001 640511010693 YceI-like domain; Region: YceI; cl01001 640511010694 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 640511010695 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 640511010696 transmembrane helices; other site 640511010697 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl08302 640511010698 pseudo EF-hand loop; other site 640511010699 peptide binding pocket; other site 640511010700 Ca2+ binding site [ion binding]; other site 640511010701 osmolarity response regulator; Provisional; Region: ompR; PRK09468 640511010702 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511010703 active site 640511010704 phosphorylation site [posttranslational modification] 640511010705 intermolecular recognition site; other site 640511010706 dimerization interface [polypeptide binding]; other site 640511010707 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 640511010708 DNA binding site [nucleotide binding] 640511010709 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 640511010710 dimerization interface [polypeptide binding]; other site 640511010711 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 640511010712 dimer interface [polypeptide binding]; other site 640511010713 phosphorylation site [posttranslational modification] 640511010714 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511010715 ATP binding site [chemical binding]; other site 640511010716 Mg2+ binding site [ion binding]; other site 640511010717 G-X-G motif; other site 640511010718 DDE superfamily endonuclease; Region: DDE_4; cl15789 640511010719 PAS fold; Region: PAS_4; pfam08448 640511010720 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 640511010721 putative active site [active] 640511010722 PAS fold; Region: PAS_3; pfam08447 640511010723 heme pocket [chemical binding]; other site 640511010724 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 640511010725 dimer interface [polypeptide binding]; other site 640511010726 phosphorylation site [posttranslational modification] 640511010727 adaptive-response sensory kinase; Validated; Region: PRK09303 640511010728 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511010729 ATP binding site [chemical binding]; other site 640511010730 G-X-G motif; other site 640511010731 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 640511010732 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511010733 active site 640511010734 phosphorylation site [posttranslational modification] 640511010735 intermolecular recognition site; other site 640511010736 dimerization interface [polypeptide binding]; other site 640511010737 Response regulator receiver domain; Region: Response_reg; pfam00072 640511010738 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511010739 active site 640511010740 phosphorylation site [posttranslational modification] 640511010741 intermolecular recognition site; other site 640511010742 dimerization interface [polypeptide binding]; other site 640511010743 cellulose synthase subunit BcsC; Provisional; Region: PRK11447 640511010744 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 640511010745 binding surface 640511010746 TPR motif; other site 640511010747 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 640511010748 binding surface 640511010749 TPR motif; other site 640511010750 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 640511010751 TPR motif; other site 640511010752 binding surface 640511010753 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 640511010754 TPR motif; other site 640511010755 binding surface 640511010756 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 640511010757 TPR motif; other site 640511010758 binding surface 640511010759 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 640511010760 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 640511010761 Bacterial cellulose synthase subunit; Region: BcsB; cl15851 640511010762 cellulose synthase catalytic subunit (UDP-forming); Region: CelA; TIGR03030 640511010763 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 640511010764 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 640511010765 DXD motif; other site 640511010766 PilZ domain; Region: PilZ; cl01260 640511010767 cellulose synthase operon protein YhjQ; Region: cellulose_yhjQ; TIGR03371 640511010768 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511010769 Cellulose synthase subunit D; Region: Cellsynth_D; pfam03500 640511010770 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640511010771 metal binding site [ion binding]; metal-binding site 640511010772 active site 640511010773 I-site; other site 640511010774 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640511010775 metal binding site [ion binding]; metal-binding site 640511010776 active site 640511010777 I-site; other site 640511010778 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 640511010779 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 640511010780 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 640511010781 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 640511010782 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 640511010783 putative substrate binding pocket [chemical binding]; other site 640511010784 trimer interface [polypeptide binding]; other site 640511010785 The Class III extradiol dioxygenase, homoprotocatechuate 2,3-dioxygenase, catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate; Region: HPCD; cd07370 640511010786 putative active site [active] 640511010787 putative metal binding site [ion binding]; other site 640511010788 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640511010789 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 640511010790 NAD binding site [chemical binding]; other site 640511010791 catalytic residues [active] 640511010792 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 640511010793 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 640511010794 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 640511010795 Helix-turn-helix domains; Region: HTH; cl00088 640511010796 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640511010797 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 640511010798 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 640511010799 dimer interface [polypeptide binding]; other site 640511010800 active site 640511010801 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 640511010802 substrate binding site [chemical binding]; other site 640511010803 catalytic residue [active] 640511010804 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 640511010805 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 640511010806 motif II; other site 640511010807 Helix-turn-helix domains; Region: HTH; cl00088 640511010808 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 640511010809 putative effector binding pocket; other site 640511010810 putative dimerization interface [polypeptide binding]; other site 640511010811 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 640511010812 trimer interface [polypeptide binding]; other site 640511010813 active site 640511010814 dimer interface [polypeptide binding]; other site 640511010815 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 640511010816 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511010817 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 640511010818 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511010819 metabolite-proton symporter; Region: 2A0106; TIGR00883 640511010820 putative substrate translocation pore; other site 640511010821 Helix-turn-helix domains; Region: HTH; cl00088 640511010822 transcriptional activator TtdR; Provisional; Region: PRK09801 640511010823 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 640511010824 putative effector binding pocket; other site 640511010825 putative dimerization interface [polypeptide binding]; other site 640511010826 H+ Antiporter protein; Region: 2A0121; TIGR00900 640511010827 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511010828 putative substrate translocation pore; other site 640511010829 Isochorismatase family; Region: Isochorismatase; pfam00857 640511010830 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 640511010831 catalytic triad [active] 640511010832 conserved cis-peptide bond; other site 640511010833 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640511010834 Helix-turn-helix domains; Region: HTH; cl00088 640511010835 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 640511010836 Predicted acetyltransferase [General function prediction only]; Region: COG3153 640511010837 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 640511010838 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 640511010839 FMN binding site [chemical binding]; other site 640511010840 active site 640511010841 substrate binding site [chemical binding]; other site 640511010842 catalytic residue [active] 640511010843 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 640511010844 putative DNA binding site [nucleotide binding]; other site 640511010845 dimerization interface [polypeptide binding]; other site 640511010846 putative Zn2+ binding site [ion binding]; other site 640511010847 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional; Region: PRK10841 640511010848 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 640511010849 dimer interface [polypeptide binding]; other site 640511010850 phosphorylation site [posttranslational modification] 640511010851 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511010852 ATP binding site [chemical binding]; other site 640511010853 Mg2+ binding site [ion binding]; other site 640511010854 G-X-G motif; other site 640511010855 Response regulator receiver domain; Region: Response_reg; pfam00072 640511010856 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511010857 active site 640511010858 phosphorylation site [posttranslational modification] 640511010859 intermolecular recognition site; other site 640511010860 dimerization interface [polypeptide binding]; other site 640511010861 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 640511010862 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640511010863 Helix-turn-helix domains; Region: HTH; cl00088 640511010864 Bacterial transcriptional regulator; Region: IclR; pfam01614 640511010865 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 640511010866 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 640511010867 alpha subunit interface [polypeptide binding]; other site 640511010868 active site 640511010869 substrate binding site [chemical binding]; other site 640511010870 Fe binding site [ion binding]; other site 640511010871 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640511010872 classical (c) SDRs; Region: SDR_c; cd05233 640511010873 NAD(P) binding site [chemical binding]; other site 640511010874 active site 640511010875 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 640511010876 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 640511010877 FMN-binding pocket [chemical binding]; other site 640511010878 flavin binding motif; other site 640511010879 phosphate binding motif [ion binding]; other site 640511010880 beta-alpha-beta structure motif; other site 640511010881 NAD binding pocket [chemical binding]; other site 640511010882 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 640511010883 catalytic loop [active] 640511010884 iron binding site [ion binding]; other site 640511010885 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511010886 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640511010887 putative substrate translocation pore; other site 640511010888 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 640511010889 trimer interface [polypeptide binding]; other site 640511010890 eyelet of channel; other site 640511010891 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640511010892 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511010893 ATP binding site [chemical binding]; other site 640511010894 Mg2+ binding site [ion binding]; other site 640511010895 G-X-G motif; other site 640511010896 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 640511010897 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511010898 active site 640511010899 phosphorylation site [posttranslational modification] 640511010900 intermolecular recognition site; other site 640511010901 dimerization interface [polypeptide binding]; other site 640511010902 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511010903 Response regulator receiver domain; Region: Response_reg; pfam00072 640511010904 active site 640511010905 phosphorylation site [posttranslational modification] 640511010906 intermolecular recognition site; other site 640511010907 dimerization interface [polypeptide binding]; other site 640511010908 Predicted dehydrogenase [General function prediction only]; Region: COG5322 640511010909 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 640511010910 dimerization interface [polypeptide binding]; other site 640511010911 substrate binding site [chemical binding]; other site 640511010912 active site 640511010913 calcium binding site [ion binding]; other site 640511010914 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 640511010915 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 640511010916 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 640511010917 active site 640511010918 LssY C-terminus; Region: LssY_C; pfam14067 640511010919 OsmC-like protein; Region: OsmC; cl00767 640511010920 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 640511010921 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 640511010922 putative DNA binding site [nucleotide binding]; other site 640511010923 putative Zn2+ binding site [ion binding]; other site 640511010924 AsnC family; Region: AsnC_trans_reg; pfam01037 640511010925 LysE type translocator; Region: LysE; cl00565 640511010926 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 640511010927 Uncharacterized BCR, YnfA/UPF0060 family; Region: UPF0060; cl00757 640511010928 Domain of unknown function (DUF1993); Region: DUF1993; cl01567 640511010929 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cd11377 640511010930 peptidase domain interface [polypeptide binding]; other site 640511010931 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 640511010932 active site 640511010933 catalytic triad [active] 640511010934 calcium binding site [ion binding]; other site 640511010935 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 640511010936 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 640511010937 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 640511010938 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 640511010939 homodimer interface [polypeptide binding]; other site 640511010940 NAD binding pocket [chemical binding]; other site 640511010941 ATP binding pocket [chemical binding]; other site 640511010942 Mg binding site [ion binding]; other site 640511010943 active-site loop [active] 640511010944 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 640511010945 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 640511010946 Helix-turn-helix domains; Region: HTH; cl00088 640511010947 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 640511010948 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 640511010949 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 640511010950 2-aminoethylphosphonate ABC transport system, ATP-binding component PhnT; Region: PhnT; TIGR03258 640511010951 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511010952 Walker A/P-loop; other site 640511010953 ATP binding site [chemical binding]; other site 640511010954 Q-loop/lid; other site 640511010955 ABC transporter signature motif; other site 640511010956 Walker B; other site 640511010957 D-loop; other site 640511010958 H-loop/switch region; other site 640511010959 TOBE domain; Region: TOBE_2; cl01440 640511010960 2-aminoethylphosphonate transport system permease PhnU; Provisional; Region: PRK15050 640511010961 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511010962 dimer interface [polypeptide binding]; other site 640511010963 conserved gate region; other site 640511010964 putative PBP binding loops; other site 640511010965 ABC-ATPase subunit interface; other site 640511010966 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 640511010967 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 640511010968 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511010969 DNA-binding site [nucleotide binding]; DNA binding site 640511010970 FCD domain; Region: FCD; cl11656 640511010971 Sulfatase; Region: Sulfatase; cl10460 640511010972 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640511010973 Streptomyces putative phosphonoformaldehyde dehydrogenase PhpJ-like; Region: ALDH_PhpJ; cd07146 640511010974 NAD(P) binding site [chemical binding]; other site 640511010975 catalytic residues [active] 640511010976 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 640511010977 transcriptional regulator; Provisional; Region: PRK10632 640511010978 Helix-turn-helix domains; Region: HTH; cl00088 640511010979 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 640511010980 putative effector binding pocket; other site 640511010981 dimerization interface [polypeptide binding]; other site 640511010982 Fusaric acid resistance protein family; Region: FUSC; pfam04632 640511010983 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 640511010984 succinate CoA transferases; Region: YgfH_subfam; TIGR03458 640511010985 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 640511010986 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 640511010987 Predicted phosphohydrolases [General function prediction only]; Region: COG1408 640511010988 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 640511010989 putative active site [active] 640511010990 putative metal binding site [ion binding]; other site 640511010991 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 640511010992 putative FMN binding site [chemical binding]; other site 640511010993 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 640511010994 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 640511010995 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640511010996 putative ligand binding site [chemical binding]; other site 640511010997 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 640511010998 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 640511010999 Walker A/P-loop; other site 640511011000 ATP binding site [chemical binding]; other site 640511011001 Q-loop/lid; other site 640511011002 ABC transporter signature motif; other site 640511011003 Walker B; other site 640511011004 D-loop; other site 640511011005 H-loop/switch region; other site 640511011006 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 640511011007 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 640511011008 TM-ABC transporter signature motif; other site 640511011009 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 640511011010 TM-ABC transporter signature motif; other site 640511011011 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 640511011012 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 640511011013 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 640511011014 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 640511011015 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 640511011016 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 640511011017 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 640511011018 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 640511011019 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 640511011020 Acyl transferase domain; Region: Acyl_transf_1; cl08282 640511011021 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; cl07913 640511011022 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 640511011023 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 640511011024 Malonate decarboxylase delta subunit (MdcD); Region: ACP; cl06082 640511011025 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 640511011026 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 640511011027 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 640511011028 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 640511011029 Transcriptional regulators [Transcription]; Region: GntR; COG1802 640511011030 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511011031 DNA-binding site [nucleotide binding]; DNA binding site 640511011032 FCD domain; Region: FCD; cl11656 640511011033 benzoate transport; Region: 2A0115; TIGR00895 640511011034 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511011035 putative substrate translocation pore; other site 640511011036 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 640511011037 EamA-like transporter family; Region: EamA; cl01037 640511011038 EamA-like transporter family; Region: EamA; cl01037 640511011039 Helix-turn-helix domains; Region: HTH; cl00088 640511011040 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 640511011041 dimerization interface [polypeptide binding]; other site 640511011042 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 640511011043 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 640511011044 N-acetyltransferase; Region: Acetyltransf_2; cl00949 640511011045 Phospholipid methyltransferase; Region: PEMT; cl00763 640511011046 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 640511011047 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511011048 DNA-binding site [nucleotide binding]; DNA binding site 640511011049 UTRA domain; Region: UTRA; cl01230 640511011050 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 640511011051 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511011052 DNA-binding site [nucleotide binding]; DNA binding site 640511011053 UTRA domain; Region: UTRA; cl01230 640511011054 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 640511011055 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 640511011056 Walker A/P-loop; other site 640511011057 ATP binding site [chemical binding]; other site 640511011058 Q-loop/lid; other site 640511011059 ABC transporter signature motif; other site 640511011060 Walker B; other site 640511011061 D-loop; other site 640511011062 H-loop/switch region; other site 640511011063 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511011064 dimer interface [polypeptide binding]; other site 640511011065 conserved gate region; other site 640511011066 putative PBP binding loops; other site 640511011067 ABC-ATPase subunit interface; other site 640511011068 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 640511011069 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640511011070 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511011071 putative PBP binding loops; other site 640511011072 dimer interface [polypeptide binding]; other site 640511011073 ABC-ATPase subunit interface; other site 640511011074 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 640511011075 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 640511011076 substrate binding pocket [chemical binding]; other site 640511011077 membrane-bound complex binding site; other site 640511011078 hinge residues; other site 640511011079 oxidase reductase; Provisional; Region: PTZ00273 640511011080 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; cl14733 640511011081 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 640511011082 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 640511011083 FAD binding domain; Region: FAD_binding_4; pfam01565 640511011084 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 640511011085 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 640511011086 poly(R)-hydroxyalkanoic acid synthase, class III, PhaC subunit; Region: PHA_synth_III_C; TIGR01836 640511011087 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 640511011088 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640511011089 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 640511011090 dimer interface [polypeptide binding]; other site 640511011091 phosphorylation site [posttranslational modification] 640511011092 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511011093 ATP binding site [chemical binding]; other site 640511011094 Mg2+ binding site [ion binding]; other site 640511011095 G-X-G motif; other site 640511011096 Response regulator receiver domain; Region: Response_reg; pfam00072 640511011097 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511011098 active site 640511011099 phosphorylation site [posttranslational modification] 640511011100 intermolecular recognition site; other site 640511011101 dimerization interface [polypeptide binding]; other site 640511011102 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640511011103 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511011104 active site 640511011105 phosphorylation site [posttranslational modification] 640511011106 intermolecular recognition site; other site 640511011107 dimerization interface [polypeptide binding]; other site 640511011108 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 640511011109 DNA binding residues [nucleotide binding] 640511011110 dimerization interface [polypeptide binding]; other site 640511011111 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 640511011112 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 640511011113 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 640511011114 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 640511011115 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640511011116 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 640511011117 extended (e) SDRs; Region: SDR_e; cd08946 640511011118 NAD(P) binding site [chemical binding]; other site 640511011119 active site 640511011120 substrate binding site [chemical binding]; other site 640511011121 tartronate semialdehyde reductase; Provisional; Region: PRK15059 640511011122 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511011123 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 640511011124 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 640511011125 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640511011126 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 640511011127 dimer interface [polypeptide binding]; other site 640511011128 NADP binding site [chemical binding]; other site 640511011129 catalytic residues [active] 640511011130 Transcriptional regulators [Transcription]; Region: FadR; COG2186 640511011131 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511011132 DNA-binding site [nucleotide binding]; DNA binding site 640511011133 FCD domain; Region: FCD; cl11656 640511011134 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511011135 D-galactonate transporter; Region: 2A0114; TIGR00893 640511011136 putative substrate translocation pore; other site 640511011137 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511011138 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 640511011139 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 640511011140 putative active site [active] 640511011141 catalytic residue [active] 640511011142 galactarate dehydratase; Region: galactar-dH20; TIGR03248 640511011143 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 640511011144 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 640511011145 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 640511011146 extended (e) SDRs; Region: SDR_e; cd08946 640511011147 NAD(P) binding site [chemical binding]; other site 640511011148 active site 640511011149 substrate binding site [chemical binding]; other site 640511011150 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 640511011151 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 640511011152 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 640511011153 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 640511011154 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 640511011155 DctM-like transporters; Region: DctM; pfam06808 640511011156 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 640511011157 trimer interface [polypeptide binding]; other site 640511011158 eyelet of channel; other site 640511011159 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 640511011160 active site 1 [active] 640511011161 dimer interface [polypeptide binding]; other site 640511011162 hexamer interface [polypeptide binding]; other site 640511011163 active site 2 [active] 640511011164 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]; Region: COG3357 640511011165 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 640511011166 Urea transporter; Region: UT; cl01829 640511011167 Putative glycolipid-binding; Region: Glycolipid_bind; cl01425 640511011168 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 640511011169 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640511011170 Coenzyme A binding pocket [chemical binding]; other site 640511011171 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 640511011172 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 640511011173 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 640511011174 putative active site [active] 640511011175 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 640511011176 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511011177 DNA-binding site [nucleotide binding]; DNA binding site 640511011178 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 640511011179 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511011180 homodimer interface [polypeptide binding]; other site 640511011181 catalytic residue [active] 640511011182 NMT1-like family; Region: NMT1_2; cl15260 640511011183 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640511011184 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511011185 putative substrate translocation pore; other site 640511011186 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640511011187 Helix-turn-helix domains; Region: HTH; cl00088 640511011188 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 640511011189 Response regulator receiver domain; Region: Response_reg; pfam00072 640511011190 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511011191 active site 640511011192 phosphorylation site [posttranslational modification] 640511011193 intermolecular recognition site; other site 640511011194 dimerization interface [polypeptide binding]; other site 640511011195 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 640511011196 metal binding site 2 [ion binding]; metal-binding site 640511011197 putative DNA binding helix; other site 640511011198 metal binding site 1 [ion binding]; metal-binding site 640511011199 dimer interface [polypeptide binding]; other site 640511011200 structural Zn2+ binding site [ion binding]; other site 640511011201 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 640511011202 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 640511011203 putative C-terminal domain interface [polypeptide binding]; other site 640511011204 putative GSH binding site (G-site) [chemical binding]; other site 640511011205 putative dimer interface [polypeptide binding]; other site 640511011206 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 640511011207 putative N-terminal domain interface [polypeptide binding]; other site 640511011208 putative dimer interface [polypeptide binding]; other site 640511011209 putative substrate binding pocket (H-site) [chemical binding]; other site 640511011210 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3972 640511011211 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511011212 Family description; Region: UvrD_C_2; cl15862 640511011213 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 640511011214 active site 640511011215 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 640511011216 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 640511011217 dimer interface [polypeptide binding]; other site 640511011218 phosphorylation site [posttranslational modification] 640511011219 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511011220 ATP binding site [chemical binding]; other site 640511011221 Mg2+ binding site [ion binding]; other site 640511011222 G-X-G motif; other site 640511011223 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511011224 active site 640511011225 phosphorylation site [posttranslational modification] 640511011226 intermolecular recognition site; other site 640511011227 dimerization interface [polypeptide binding]; other site 640511011228 BetR domain; Region: BetR; pfam08667 640511011229 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511011230 active site 640511011231 phosphorylation site [posttranslational modification] 640511011232 intermolecular recognition site; other site 640511011233 dimerization interface [polypeptide binding]; other site 640511011234 HipA N-terminal domain; Region: Couple_hipA; cl11853 640511011235 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 640511011236 HipA-like N-terminal domain; Region: HipA_N; pfam07805 640511011237 HipA-like C-terminal domain; Region: HipA_C; pfam07804 640511011238 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 640511011239 sequence-specific DNA binding site [nucleotide binding]; other site 640511011240 salt bridge; other site 640511011241 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640511011242 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511011243 Peptidase_C39 like family; Region: Peptidase_C39_2; pfam13529 640511011244 ornithine cyclodeaminase; Validated; Region: PRK07340 640511011245 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511011246 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 640511011247 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 640511011248 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 640511011249 nuc_hydro: Nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes vary in their substrate specificity. This group contains eukaryotic, bacterial and archeal...; Region: nuc_hydro; cl00226 640511011250 active site 640511011251 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511011252 Helix-turn-helix domains; Region: HTH; cl00088 640511011253 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 640511011254 putative effector binding pocket; other site 640511011255 putative dimerization interface [polypeptide binding]; other site 640511011256 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 640511011257 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 640511011258 putative NAD(P) binding site [chemical binding]; other site 640511011259 putative substrate binding site [chemical binding]; other site 640511011260 catalytic Zn binding site [ion binding]; other site 640511011261 structural Zn binding site [ion binding]; other site 640511011262 dimer interface [polypeptide binding]; other site 640511011263 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 640511011264 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 640511011265 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511011266 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 640511011267 Moco binding site; other site 640511011268 metal coordination site [ion binding]; other site 640511011269 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 640511011270 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 640511011271 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511011272 active site 640511011273 phosphorylation site [posttranslational modification] 640511011274 intermolecular recognition site; other site 640511011275 dimerization interface [polypeptide binding]; other site 640511011276 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 640511011277 DNA binding site [nucleotide binding] 640511011278 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 640511011279 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 640511011280 dimerization interface [polypeptide binding]; other site 640511011281 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 640511011282 dimer interface [polypeptide binding]; other site 640511011283 phosphorylation site [posttranslational modification] 640511011284 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511011285 ATP binding site [chemical binding]; other site 640511011286 Mg2+ binding site [ion binding]; other site 640511011287 G-X-G motif; other site 640511011288 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 640511011289 PAS domain; Region: PAS_9; pfam13426 640511011290 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640511011291 metal binding site [ion binding]; metal-binding site 640511011292 active site 640511011293 I-site; other site 640511011294 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 640511011295 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511011296 DNA-binding site [nucleotide binding]; DNA binding site 640511011297 UTRA domain; Region: UTRA; cl01230 640511011298 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 640511011299 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 640511011300 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 640511011301 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 640511011302 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 640511011303 active site 640511011304 dimer interface [polypeptide binding]; other site 640511011305 effector binding site; other site 640511011306 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 640511011307 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 640511011308 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 640511011309 Putative esterase; Region: Esterase; pfam00756 640511011310 OpgC protein; Region: OpgC_C; cl00792 640511011311 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 640511011312 trimer interface [polypeptide binding]; other site 640511011313 eyelet of channel; other site 640511011314 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 640511011315 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 640511011316 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 640511011317 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 640511011318 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 640511011319 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640511011320 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 640511011321 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 640511011322 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640511011323 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640511011324 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640511011325 Cytochrome c; Region: Cytochrom_C; cl11414 640511011326 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511011327 NAD(P) binding site [chemical binding]; other site 640511011328 active site 640511011329 OsmC-like protein; Region: OsmC; cl00767 640511011330 OsmC-like protein; Region: OsmC; cl00767 640511011331 Helix-turn-helix domains; Region: HTH; cl00088 640511011332 Helix-turn-helix domains; Region: HTH; cl00088 640511011333 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640511011334 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511011335 dimer interface [polypeptide binding]; other site 640511011336 conserved gate region; other site 640511011337 putative PBP binding loops; other site 640511011338 ABC-ATPase subunit interface; other site 640511011339 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640511011340 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511011341 dimer interface [polypeptide binding]; other site 640511011342 conserved gate region; other site 640511011343 putative PBP binding loops; other site 640511011344 ABC-ATPase subunit interface; other site 640511011345 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 640511011346 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 640511011347 substrate binding pocket [chemical binding]; other site 640511011348 membrane-bound complex binding site; other site 640511011349 hinge residues; other site 640511011350 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein; Region: PhnT2; TIGR03265 640511011351 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511011352 Walker A/P-loop; other site 640511011353 ATP binding site [chemical binding]; other site 640511011354 Q-loop/lid; other site 640511011355 ABC transporter signature motif; other site 640511011356 Walker B; other site 640511011357 D-loop; other site 640511011358 H-loop/switch region; other site 640511011359 TOBE domain; Region: TOBE_2; cl01440 640511011360 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511011361 dimer interface [polypeptide binding]; other site 640511011362 conserved gate region; other site 640511011363 putative PBP binding loops; other site 640511011364 ABC-ATPase subunit interface; other site 640511011365 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 640511011366 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511011367 putative PBP binding loops; other site 640511011368 ABC-ATPase subunit interface; other site 640511011369 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 640511011370 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 640511011371 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640511011372 Helix-turn-helix domains; Region: HTH; cl00088 640511011373 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 640511011374 substrate binding pocket [chemical binding]; other site 640511011375 dimerization interface [polypeptide binding]; other site 640511011376 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 640511011377 BON domain; Region: BON; cl02771 640511011378 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 640511011379 active site 640511011380 DNA binding site [nucleotide binding] 640511011381 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640511011382 FOG: CBS domain [General function prediction only]; Region: COG0517 640511011383 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 640511011384 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 640511011385 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 640511011386 dimerization interface [polypeptide binding]; other site 640511011387 active site 640511011388 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511011389 NADH(P)-binding; Region: NAD_binding_10; pfam13460 640511011390 NAD(P) binding site [chemical binding]; other site 640511011391 active site 640511011392 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 640511011393 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 640511011394 Putative zinc-finger; Region: zf-HC2; cl15806 640511011395 RNA polymerase sigma factor; Provisional; Region: PRK12547 640511011396 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640511011397 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 640511011398 DNA binding residues [nucleotide binding] 640511011399 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640511011400 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 640511011401 putative heme binding pocket [chemical binding]; other site 640511011402 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 640511011403 Uncharacterized conserved protein [Function unknown]; Region: COG4715 640511011404 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 640511011405 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 640511011406 ATP binding site [chemical binding]; other site 640511011407 putative Mg++ binding site [ion binding]; other site 640511011408 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 640511011409 nucleotide binding region [chemical binding]; other site 640511011410 ATP-binding site [chemical binding]; other site 640511011411 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 640511011412 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511011413 active site 640511011414 phosphorylation site [posttranslational modification] 640511011415 intermolecular recognition site; other site 640511011416 dimerization interface [polypeptide binding]; other site 640511011417 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 640511011418 DNA binding site [nucleotide binding] 640511011419 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 640511011420 FecR protein; Region: FecR; pfam04773 640511011421 CHASE2 domain; Region: CHASE2; cl01732 640511011422 sensory histidine kinase AtoS; Provisional; Region: PRK11360 640511011423 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 640511011424 dimer interface [polypeptide binding]; other site 640511011425 phosphorylation site [posttranslational modification] 640511011426 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511011427 ATP binding site [chemical binding]; other site 640511011428 Mg2+ binding site [ion binding]; other site 640511011429 G-X-G motif; other site 640511011430 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 640511011431 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 640511011432 putative FMN binding site [chemical binding]; other site 640511011433 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 640511011434 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511011435 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 640511011436 catalytic triad [active] 640511011437 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 640511011438 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 640511011439 homodimer interface [polypeptide binding]; other site 640511011440 Walker A motif; other site 640511011441 ATP binding site [chemical binding]; other site 640511011442 hydroxycobalamin binding site [chemical binding]; other site 640511011443 Walker B motif; other site 640511011444 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 640511011445 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 640511011446 Cobalamin synthesis G C-terminus; Region: CbiG_C; cl12133 640511011447 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 640511011448 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511011449 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 640511011450 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 640511011451 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 640511011452 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 640511011453 Mg-protoporyphyrin IX chelatase; Region: chlI; CHL00081 640511011454 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 640511011455 Walker A motif; other site 640511011456 ATP binding site [chemical binding]; other site 640511011457 Walker B motif; other site 640511011458 arginine finger; other site 640511011459 Mg-chelatase subunit ChlD [Coenzyme metabolism]; Region: ChlD; COG1240 640511011460 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 640511011461 Flagellar protein YcgR; Region: YcgR_2; pfam12945 640511011462 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 640511011463 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 640511011464 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 640511011465 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 640511011466 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 640511011467 FtsX-like permease family; Region: FtsX; cl15850 640511011468 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 640511011469 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 640511011470 Walker A/P-loop; other site 640511011471 ATP binding site [chemical binding]; other site 640511011472 Q-loop/lid; other site 640511011473 ABC transporter signature motif; other site 640511011474 Walker B; other site 640511011475 D-loop; other site 640511011476 H-loop/switch region; other site 640511011477 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 640511011478 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 640511011479 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 640511011480 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 640511011481 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 640511011482 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 640511011483 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 640511011484 D-pathway; other site 640511011485 Putative ubiquinol binding site [chemical binding]; other site 640511011486 Low-spin heme (heme b) binding site [chemical binding]; other site 640511011487 Putative water exit pathway; other site 640511011488 Binuclear center (heme o3/CuB) [ion binding]; other site 640511011489 K-pathway; other site 640511011490 Putative proton exit pathway; other site 640511011491 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 640511011492 Subunit I/III interface [polypeptide binding]; other site 640511011493 Subunit III/IV interface [polypeptide binding]; other site 640511011494 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 640511011495 Helix-turn-helix domains; Region: HTH; cl00088 640511011496 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 640511011497 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 640511011498 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 640511011499 Substrate binding site; other site 640511011500 Cupin domain; Region: Cupin_2; cl09118 640511011501 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 640511011502 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 640511011503 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 640511011504 RNA polymerase sigma factor; Reviewed; Region: PRK05602 640511011505 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640511011506 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 640511011507 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 640511011508 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4102 640511011509 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 640511011510 Flavin Reductases; Region: FlaRed; cl00801 640511011511 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 640511011512 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 640511011513 active site 640511011514 non-prolyl cis peptide bond; other site 640511011515 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 640511011516 non-specific DNA binding site [nucleotide binding]; other site 640511011517 salt bridge; other site 640511011518 sequence-specific DNA binding site [nucleotide binding]; other site 640511011519 BON domain; Region: BON; cl02771 640511011520 Ferritin-CCC1, N-terminal ferritin-like diiron-binding domain; Region: Ferritin_CCC1_N; cd01044 640511011521 diiron binding motif [ion binding]; other site 640511011522 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_2; cd02433 640511011523 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 640511011524 This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these...; Region: ABC_Pro_Gly_Bertaine; cd03294 640511011525 Walker A/P-loop; other site 640511011526 ATP binding site [chemical binding]; other site 640511011527 Q-loop/lid; other site 640511011528 ABC transporter signature motif; other site 640511011529 Walker B; other site 640511011530 D-loop; other site 640511011531 H-loop/switch region; other site 640511011532 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 640511011533 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511011534 dimer interface [polypeptide binding]; other site 640511011535 conserved gate region; other site 640511011536 putative PBP binding loops; other site 640511011537 ABC-ATPase subunit interface; other site 640511011538 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640511011539 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 640511011540 conserved cys residue [active] 640511011541 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640511011542 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 640511011543 conserved cys residue [active] 640511011544 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 640511011545 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511011546 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 640511011547 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 640511011548 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 640511011549 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 640511011550 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511011551 Sarcosine oxidase, delta subunit family; Region: SoxD; cl01767 640511011552 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 640511011553 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 640511011554 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 640511011555 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 640511011556 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 640511011557 formaldehyde dehydrogenase, glutathione-independent; Region: fdhA_non_GSH; TIGR02819 640511011558 Pseudomonas putida aldehyde-dismutating formaldehyde dehydrogenase (PFDH); Region: PFDH_like; cd08282 640511011559 NAD binding site [chemical binding]; other site 640511011560 catalytic Zn binding site [ion binding]; other site 640511011561 structural Zn binding site [ion binding]; other site 640511011562 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640511011563 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 640511011564 conserved cys residue [active] 640511011565 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511011566 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 640511011567 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 640511011568 dimer interface [polypeptide binding]; other site 640511011569 active site 640511011570 glycine-pyridoxal phosphate binding site [chemical binding]; other site 640511011571 folate binding site [chemical binding]; other site 640511011572 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 640511011573 active site 640511011574 dimer interface [polypeptide binding]; other site 640511011575 Heme NO binding; Region: HNOB; cl15268 640511011576 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 640511011577 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 640511011578 putative active site [active] 640511011579 putative FMN binding site [chemical binding]; other site 640511011580 putative substrate binding site [chemical binding]; other site 640511011581 putative catalytic residue [active] 640511011582 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511011583 Domain of unknown function (DUF3483); Region: DUF3483; pfam11982 640511011584 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 640511011585 Cysteine-rich domain; Region: CCG; pfam02754 640511011586 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 640511011587 Cysteine-rich domain; Region: CCG; pfam02754 640511011588 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 640511011589 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 640511011590 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 640511011591 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 640511011592 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 640511011593 [2Fe-2S] cluster binding site [ion binding]; other site 640511011594 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 640511011595 putative alpha subunit interface [polypeptide binding]; other site 640511011596 putative active site [active] 640511011597 putative substrate binding site [chemical binding]; other site 640511011598 Fe binding site [ion binding]; other site 640511011599 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 640511011600 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 640511011601 FAD binding pocket [chemical binding]; other site 640511011602 FAD binding motif [chemical binding]; other site 640511011603 phosphate binding motif [ion binding]; other site 640511011604 beta-alpha-beta structure motif; other site 640511011605 NAD binding pocket [chemical binding]; other site 640511011606 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 640511011607 catalytic loop [active] 640511011608 iron binding site [ion binding]; other site 640511011609 NMT1-like family; Region: NMT1_2; cl15260 640511011610 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 640511011611 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 640511011612 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 640511011613 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 640511011614 putative active site [active] 640511011615 putative substrate binding site [chemical binding]; other site 640511011616 putative cosubstrate binding site; other site 640511011617 catalytic site [active] 640511011618 LysR family transcriptional regulator; Provisional; Region: PRK14997 640511011619 Helix-turn-helix domains; Region: HTH; cl00088 640511011620 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 640511011621 putative effector binding pocket; other site 640511011622 dimerization interface [polypeptide binding]; other site 640511011623 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 640511011624 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 640511011625 putative C-terminal domain interface [polypeptide binding]; other site 640511011626 putative GSH binding site (G-site) [chemical binding]; other site 640511011627 putative dimer interface [polypeptide binding]; other site 640511011628 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 640511011629 putative N-terminal domain interface [polypeptide binding]; other site 640511011630 putative dimer interface [polypeptide binding]; other site 640511011631 putative substrate binding pocket (H-site) [chemical binding]; other site 640511011632 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 640511011633 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 640511011634 Helix-turn-helix domains; Region: HTH; cl00088 640511011635 Winged helix-turn helix; Region: HTH_29; pfam13551 640511011636 Winged helix-turn helix; Region: HTH_33; pfam13592 640511011637 amino acid transporter; Region: 2A0306; TIGR00909 640511011638 Spore germination protein; Region: Spore_permease; cl15802 640511011639 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 640511011640 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 640511011641 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 640511011642 Protein export membrane protein; Region: SecD_SecF; cl14618 640511011643 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640511011644 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 640511011645 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 640511011646 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 640511011647 protein binding site [polypeptide binding]; other site 640511011648 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 640511011649 protein binding site [polypeptide binding]; other site 640511011650 Cupin domain; Region: Cupin_2; cl09118 640511011651 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511011652 D-galactonate transporter; Region: 2A0114; TIGR00893 640511011653 putative substrate translocation pore; other site 640511011654 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511011655 2-deoxy-D-gluconate 3-dehydrogenase; Region: kduD; TIGR01832 640511011656 NAD(P) binding site [chemical binding]; other site 640511011657 active site 640511011658 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640511011659 Helix-turn-helix domains; Region: HTH; cl00088 640511011660 Bacterial transcriptional regulator; Region: IclR; pfam01614 640511011661 rod shape-determining protein MreB; Provisional; Region: PRK13927 640511011662 Cell division protein FtsA; Region: FtsA; cl11496 640511011663 hypothetical protein; Provisional; Region: PRK11239 640511011664 Protein of unknown function, DUF480; Region: DUF480; cl01209 640511011665 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 640511011666 CoenzymeA binding site [chemical binding]; other site 640511011667 subunit interaction site [polypeptide binding]; other site 640511011668 PHB binding site; other site 640511011669 Acetokinase family; Region: Acetate_kinase; cl01029 640511011670 acetate kinase; Region: ackA; TIGR00016 640511011671 putative phosphoketolase; Provisional; Region: PRK05261 640511011672 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 640511011673 TPP-binding site; other site 640511011674 D-xylulose 5-phosphate/D-fructose 6-phosphate phosphoketolase; Region: XFP; pfam03894 640511011675 XFP C-terminal domain; Region: XFP_C; pfam09363 640511011676 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 640511011677 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 640511011678 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 640511011679 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 640511011680 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511011681 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK12490 640511011682 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511011683 sugar efflux transporter; Region: 2A0120; TIGR00899 640511011684 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 640511011685 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 640511011686 catalytic residues [active] 640511011687 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 640511011688 Fructose-1,6-bisphosphate aldolase; Region: FBP_aldolase_I_a; cd00948 640511011689 active site 640511011690 intersubunit interface [polypeptide binding]; other site 640511011691 catalytic residue [active] 640511011692 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 640511011693 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511011694 ATP binding site [chemical binding]; other site 640511011695 Mg2+ binding site [ion binding]; other site 640511011696 G-X-G motif; other site 640511011697 Response regulator receiver domain; Region: Response_reg; pfam00072 640511011698 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511011699 active site 640511011700 phosphorylation site [posttranslational modification] 640511011701 intermolecular recognition site; other site 640511011702 dimerization interface [polypeptide binding]; other site 640511011703 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 640511011704 iron-sulfur cluster [ion binding]; other site 640511011705 [2Fe-2S] cluster binding site [ion binding]; other site 640511011706 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 640511011707 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640511011708 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 640511011709 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 640511011710 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 640511011711 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 640511011712 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 640511011713 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 640511011714 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 640511011715 active site 640511011716 catalytic site [active] 640511011717 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 640511011718 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 640511011719 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 640511011720 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640511011721 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 640511011722 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 640511011723 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 640511011724 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 640511011725 catalytic loop [active] 640511011726 iron binding site [ion binding]; other site 640511011727 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 640511011728 short chain dehydrogenase; Provisional; Region: PRK06701 640511011729 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 640511011730 NAD binding site [chemical binding]; other site 640511011731 metal binding site [ion binding]; metal-binding site 640511011732 active site 640511011733 Response regulator receiver domain; Region: Response_reg; pfam00072 640511011734 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511011735 active site 640511011736 phosphorylation site [posttranslational modification] 640511011737 intermolecular recognition site; other site 640511011738 dimerization interface [polypeptide binding]; other site 640511011739 ATP-dependent DNA ligase; Validated; Region: PRK09247 640511011740 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 640511011741 active site 640511011742 DNA binding site [nucleotide binding] 640511011743 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 640511011744 DNA binding site [nucleotide binding] 640511011745 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 640511011746 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 640511011747 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 640511011748 thiamine pyrophosphate protein; Provisional; Region: PRK08273 640511011749 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 640511011750 PYR/PP interface [polypeptide binding]; other site 640511011751 dimer interface [polypeptide binding]; other site 640511011752 tetramer interface [polypeptide binding]; other site 640511011753 TPP binding site [chemical binding]; other site 640511011754 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 640511011755 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 640511011756 TPP-binding site [chemical binding]; other site 640511011757 Predicted ATPase [General function prediction only]; Region: COG1485 640511011758 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640511011759 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 640511011760 active site 640511011761 metal binding site [ion binding]; metal-binding site 640511011762 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 640511011763 substrate binding site [chemical binding]; other site 640511011764 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 640511011765 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511011766 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640511011767 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511011768 short chain dehydrogenase; Provisional; Region: PRK06180 640511011769 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 640511011770 NADP binding site [chemical binding]; other site 640511011771 active site 640511011772 steroid binding site; other site 640511011773 Cupin domain; Region: Cupin_2; cl09118 640511011774 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 640511011775 Glutaredoxin-like domain protein; Region: GlrX_arch; TIGR02187 640511011776 catalytic residue [active] 640511011777 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 640511011778 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 640511011779 Ligand Binding Site [chemical binding]; other site 640511011780 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 640511011781 Ligand Binding Site [chemical binding]; other site 640511011782 Ferritin-like domain; Region: Ferritin; pfam00210 640511011783 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 640511011784 dinuclear metal binding motif [ion binding]; other site 640511011785 transketolase; Reviewed; Region: PRK05899 640511011786 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 640511011787 TPP-binding site [chemical binding]; other site 640511011788 dimer interface [polypeptide binding]; other site 640511011789 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 640511011790 PYR/PP interface [polypeptide binding]; other site 640511011791 dimer interface [polypeptide binding]; other site 640511011792 TPP binding site [chemical binding]; other site 640511011793 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 640511011794 Cupin domain; Region: Cupin_2; cl09118 640511011795 chaperone protein DnaJ; Provisional; Region: PRK14282 640511011796 MarC family integral membrane protein; Region: MarC; cl00919 640511011797 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 640511011798 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 640511011799 Na binding site [ion binding]; other site 640511011800 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 640511011801 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 640511011802 C-terminal domain interface [polypeptide binding]; other site 640511011803 GSH binding site (G-site) [chemical binding]; other site 640511011804 dimer interface [polypeptide binding]; other site 640511011805 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 640511011806 dimer interface [polypeptide binding]; other site 640511011807 N-terminal domain interface [polypeptide binding]; other site 640511011808 substrate binding pocket (H-site) [chemical binding]; other site 640511011809 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640511011810 metal binding site [ion binding]; metal-binding site 640511011811 active site 640511011812 I-site; other site 640511011813 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 640511011814 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 640511011815 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 640511011816 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 640511011817 active site 640511011818 metal binding site [ion binding]; metal-binding site 640511011819 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 640511011820 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 640511011821 active site 640511011822 catalytic tetrad [active] 640511011823 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 640511011824 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 640511011825 Epoxide hydrolase N terminus; Region: EHN; pfam06441 640511011826 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640511011827 Survival protein SurE; Region: SurE; cl00448 640511011828 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 640511011829 active site clefts [active] 640511011830 zinc binding site [ion binding]; other site 640511011831 dimer interface [polypeptide binding]; other site 640511011832 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 640511011833 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 640511011834 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 640511011835 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; cl00922 640511011836 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 640511011837 CbiD; Region: CbiD; cl00828 640511011838 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 640511011839 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 640511011840 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 640511011841 precorrin-3B synthase; Region: CobG; TIGR02435 640511011842 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 640511011843 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 640511011844 Precorrin isomerase [Coenzyme metabolism]; Region: CobH; cl00913 640511011845 Precorrin-8X methylmutase; Region: CbiC; pfam02570 640511011846 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 640511011847 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 640511011848 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 640511011849 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 640511011850 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 640511011851 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 640511011852 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511011853 Walker A/P-loop; other site 640511011854 ATP binding site [chemical binding]; other site 640511011855 Q-loop/lid; other site 640511011856 ABC transporter signature motif; other site 640511011857 Uncharacterized conserved protein [Function unknown]; Region: COG4717 640511011858 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 640511011859 active site 640511011860 metal binding site [ion binding]; metal-binding site 640511011861 DNA binding site [nucleotide binding] 640511011862 Protein of unknown function (DUF445); Region: DUF445; pfam04286 640511011863 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 640511011864 AIDA autotransporter-like protein ShdA; Provisional; Region: PRK15319 640511011865 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 640511011866 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 640511011867 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 640511011868 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 640511011869 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 640511011870 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511011871 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 640511011872 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511011873 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 640511011874 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 640511011875 intersubunit interface [polypeptide binding]; other site 640511011876 active site 640511011877 Zn2+ binding site [ion binding]; other site 640511011878 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 640511011879 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 640511011880 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511011881 homodimer interface [polypeptide binding]; other site 640511011882 catalytic residue [active] 640511011883 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511011884 Helix-turn-helix domains; Region: HTH; cl00088 640511011885 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 640511011886 putative dimerization interface [polypeptide binding]; other site 640511011887 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 640511011888 DNA binding residues [nucleotide binding] 640511011889 dimerization interface [polypeptide binding]; other site 640511011890 Response regulator receiver domain; Region: Response_reg; pfam00072 640511011891 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511011892 active site 640511011893 phosphorylation site [posttranslational modification] 640511011894 intermolecular recognition site; other site 640511011895 dimerization interface [polypeptide binding]; other site 640511011896 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 640511011897 dimer interface [polypeptide binding]; other site 640511011898 phosphorylation site [posttranslational modification] 640511011899 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511011900 ATP binding site [chemical binding]; other site 640511011901 Mg2+ binding site [ion binding]; other site 640511011902 G-X-G motif; other site 640511011903 CheB methylesterase; Region: CheB_methylest; pfam01339 640511011904 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 640511011905 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 640511011906 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 640511011907 CHASE3 domain; Region: CHASE3; cl05000 640511011908 GAF domain; Region: GAF_2; pfam13185 640511011909 GAF domain; Region: GAF; cl15785 640511011910 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 640511011911 dimer interface [polypeptide binding]; other site 640511011912 phosphorylation site [posttranslational modification] 640511011913 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511011914 ATP binding site [chemical binding]; other site 640511011915 Mg2+ binding site [ion binding]; other site 640511011916 G-X-G motif; other site 640511011917 Response regulator receiver domain; Region: Response_reg; pfam00072 640511011918 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511011919 active site 640511011920 phosphorylation site [posttranslational modification] 640511011921 intermolecular recognition site; other site 640511011922 dimerization interface [polypeptide binding]; other site 640511011923 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 640511011924 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511011925 active site 640511011926 phosphorylation site [posttranslational modification] 640511011927 intermolecular recognition site; other site 640511011928 dimerization interface [polypeptide binding]; other site 640511011929 Response regulator receiver domain; Region: Response_reg; pfam00072 640511011930 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511011931 active site 640511011932 phosphorylation site [posttranslational modification] 640511011933 intermolecular recognition site; other site 640511011934 dimerization interface [polypeptide binding]; other site 640511011935 hydroperoxidase II; Provisional; Region: katE; PRK11249 640511011936 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 640511011937 tetramer interface [polypeptide binding]; other site 640511011938 heme binding pocket [chemical binding]; other site 640511011939 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 640511011940 domain interactions; other site 640511011941 MltA-interacting protein MipA; Region: MipA; cl01504 640511011942 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 640511011943 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 640511011944 Helix-turn-helix domains; Region: HTH; cl00088 640511011945 AsnC family; Region: AsnC_trans_reg; pfam01037 640511011946 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 640511011947 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 640511011948 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511011949 catalytic residue [active] 640511011950 LysR family transcriptional regulator; Provisional; Region: PRK14997 640511011951 Helix-turn-helix domains; Region: HTH; cl00088 640511011952 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 640511011953 putative effector binding pocket; other site 640511011954 dimerization interface [polypeptide binding]; other site 640511011955 Pirin-related protein [General function prediction only]; Region: COG1741 640511011956 Cupin domain; Region: Cupin_2; cl09118 640511011957 DoxX; Region: DoxX; cl00976 640511011958 putative transposase OrfB; Reviewed; Region: PHA02517 640511011959 HTH-like domain; Region: HTH_21; pfam13276 640511011960 Integrase core domain; Region: rve; cl01316 640511011961 Integrase core domain; Region: rve_3; cl15866 640511011962 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 640511011963 Helix-turn-helix domains; Region: HTH; cl00088 640511011964 Helix-turn-helix domains; Region: HTH; cl00088 640511011965 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 640511011966 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 640511011967 catalytic residue [active] 640511011968 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 640511011969 catalytic residues [active] 640511011970 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640511011971 peroxiredoxin; Region: AhpC; TIGR03137 640511011972 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 640511011973 dimer interface [polypeptide binding]; other site 640511011974 decamer (pentamer of dimers) interface [polypeptide binding]; other site 640511011975 catalytic triad [active] 640511011976 peroxidatic and resolving cysteines [active] 640511011977 Propionate catabolism activator; Region: PrpR_N; pfam06506 640511011978 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 640511011979 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 640511011980 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 640511011981 Walker A motif; other site 640511011982 ATP binding site [chemical binding]; other site 640511011983 Walker B motif; other site 640511011984 arginine finger; other site 640511011985 Helix-turn-helix domains; Region: HTH; cl00088 640511011986 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 640511011987 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 640511011988 tetramer interface [polypeptide binding]; other site 640511011989 active site 640511011990 Mg2+/Mn2+ binding site [ion binding]; other site 640511011991 putative transporter; Provisional; Region: PRK10504 640511011992 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511011993 putative substrate translocation pore; other site 640511011994 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 640511011995 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640511011996 Coenzyme A binding pocket [chemical binding]; other site 640511011997 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 640511011998 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 640511011999 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 640511012000 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511012001 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 640511012002 putative substrate translocation pore; other site 640511012003 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 640511012004 Helix-turn-helix domains; Region: HTH; cl00088 640511012005 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 640511012006 dimerization interface [polypeptide binding]; other site 640511012007 substrate binding pocket [chemical binding]; other site 640511012008 Helix-turn-helix domains; Region: HTH; cl00088 640511012009 NifQ; Region: NifQ; pfam04891 640511012010 putative nicotinate phosphoribosyltransferase; Provisional; Region: PRK09198 640511012011 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 640511012012 active site 640511012013 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 640511012014 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 640511012015 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 640511012016 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 640511012017 Walker A motif; other site 640511012018 ATP binding site [chemical binding]; other site 640511012019 Walker B motif; other site 640511012020 arginine finger; other site 640511012021 Helix-turn-helix domains; Region: HTH; cl00088 640511012022 Mechanosensitive ion channel; Region: MS_channel; pfam00924 640511012023 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 640511012024 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511012025 DEAD_2; Region: DEAD_2; pfam06733 640511012026 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511012027 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 640511012028 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 640511012029 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 640511012030 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 640511012031 Cysteine-rich domain; Region: CCG; pfam02754 640511012032 Cysteine-rich domain; Region: CCG; pfam02754 640511012033 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640511012034 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640511012035 DNA binding site [nucleotide binding] 640511012036 domain linker motif; other site 640511012037 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 640511012038 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 640511012039 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 640511012040 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511012041 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 640511012042 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511012043 DNA-binding site [nucleotide binding]; DNA binding site 640511012044 FCD domain; Region: FCD; cl11656 640511012045 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 640511012046 Sulfotransferase family; Region: Sulfotransfer_3; cl14559 640511012047 aspartate aminotransferase; Provisional; Region: PRK05764 640511012048 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 640511012049 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511012050 homodimer interface [polypeptide binding]; other site 640511012051 catalytic residue [active] 640511012052 RNA polymerase factor sigma-54; Provisional; Region: PRK12469 640511012053 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 640511012054 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 640511012055 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 640511012056 BON domain; Region: BON; cl02771 640511012057 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 640511012058 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 640511012059 Domain of unknown function (DUF305); Region: DUF305; cl15795 640511012060 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 640511012061 intracellular protease, PfpI family; Region: PfpI; TIGR01382 640511012062 proposed catalytic triad [active] 640511012063 conserved cys residue [active] 640511012064 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 640511012065 active site 640511012066 DNA binding site [nucleotide binding] 640511012067 Int/Topo IB signature motif; other site 640511012068 catalytic residues [active] 640511012069 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 640511012070 Protein of unknown function (DUF3175); Region: DUF3175; pfam11373 640511012071 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 640511012072 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 640511012073 dimerization interface [polypeptide binding]; other site 640511012074 ligand binding site [chemical binding]; other site 640511012075 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 640511012076 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 640511012077 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511012078 DNA-binding site [nucleotide binding]; DNA binding site 640511012079 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 640511012080 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511012081 homodimer interface [polypeptide binding]; other site 640511012082 catalytic residue [active] 640511012083 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 640511012084 Cupin domain; Region: Cupin_2; cl09118 640511012085 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640511012086 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511012087 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 640511012088 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 640511012089 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 640511012090 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 640511012091 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 640511012092 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 640511012093 active site 640511012094 catalytic tetrad [active] 640511012095 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 640511012096 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 640511012097 ATP binding site [chemical binding]; other site 640511012098 putative Mg++ binding site [ion binding]; other site 640511012099 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 640511012100 nucleotide binding region [chemical binding]; other site 640511012101 ATP-binding site [chemical binding]; other site 640511012102 DEAD/H associated; Region: DEAD_assoc; pfam08494 640511012103 putative ATP-dependent helicase Lhr; Provisional; Region: PRK09751 640511012104 RNase II stability modulator; Provisional; Region: PRK10060 640511012105 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 640511012106 putative active site [active] 640511012107 heme pocket [chemical binding]; other site 640511012108 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640511012109 metal binding site [ion binding]; metal-binding site 640511012110 active site 640511012111 I-site; other site 640511012112 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 640511012113 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 640511012114 hypothetical protein; Provisional; Region: PRK07907 640511012115 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_5; cd05682 640511012116 metal binding site [ion binding]; metal-binding site 640511012117 putative dimer interface [polypeptide binding]; other site 640511012118 Superinfection immunity protein; Region: Imm_superinfect; pfam14373 640511012119 Uncharacterized small protein (DUF2158); Region: DUF2158; cl02293 640511012120 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511012121 putative substrate translocation pore; other site 640511012122 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511012123 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640511012124 Helix-turn-helix domains; Region: HTH; cl00088 640511012125 OsmC-like protein; Region: OsmC; cl00767 640511012126 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640511012127 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 640511012128 hypothetical protein; Provisional; Region: PRK07483 640511012129 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 640511012130 inhibitor-cofactor binding pocket; inhibition site 640511012131 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511012132 catalytic residue [active] 640511012133 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 640511012134 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 640511012135 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 640511012136 putative active site [active] 640511012137 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 640511012138 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 640511012139 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640511012140 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 640511012141 NAD(P) binding site [chemical binding]; other site 640511012142 catalytic residues [active] 640511012143 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 640511012144 enoyl-CoA hydratase; Provisional; Region: PRK06688 640511012145 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 640511012146 substrate binding site [chemical binding]; other site 640511012147 oxyanion hole (OAH) forming residues; other site 640511012148 trimer interface [polypeptide binding]; other site 640511012149 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 640511012150 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640511012151 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511012152 D-galactonate transporter; Region: 2A0114; TIGR00893 640511012153 putative substrate translocation pore; other site 640511012154 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640511012155 WHG domain; Region: WHG; pfam13305 640511012156 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511012157 putative transporter; Provisional; Region: PRK10504 640511012158 putative substrate translocation pore; other site 640511012159 putative acyltransferase; Provisional; Region: PRK05790 640511012160 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 640511012161 dimer interface [polypeptide binding]; other site 640511012162 active site 640511012163 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 640511012164 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 640511012165 Na binding site [ion binding]; other site 640511012166 Protein of unknown function, DUF485; Region: DUF485; cl01231 640511012167 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 640511012168 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 640511012169 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 640511012170 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 640511012171 Ligand binding site [chemical binding]; other site 640511012172 Electron transfer flavoprotein domain; Region: ETF; pfam01012 640511012173 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 640511012174 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 640511012175 FMN binding site [chemical binding]; other site 640511012176 substrate binding site [chemical binding]; other site 640511012177 putative catalytic residue [active] 640511012178 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 640511012179 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640511012180 enoyl-CoA hydratase; Provisional; Region: PRK07511 640511012181 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 640511012182 substrate binding site [chemical binding]; other site 640511012183 oxyanion hole (OAH) forming residues; other site 640511012184 trimer interface [polypeptide binding]; other site 640511012185 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 640511012186 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 640511012187 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 640511012188 active site 640511012189 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 640511012190 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640511012191 active site 640511012192 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 640511012193 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 640511012194 dimer interface [polypeptide binding]; other site 640511012195 active site 640511012196 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 640511012197 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 640511012198 substrate binding site [chemical binding]; other site 640511012199 oxyanion hole (OAH) forming residues; other site 640511012200 trimer interface [polypeptide binding]; other site 640511012201 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511012202 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 640511012203 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 640511012204 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511012205 Helix-turn-helix domains; Region: HTH; cl00088 640511012206 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 640511012207 putative effector binding pocket; other site 640511012208 dimerization interface [polypeptide binding]; other site 640511012209 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 640511012210 dimerization interface [polypeptide binding]; other site 640511012211 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 640511012212 conserved cys residue [active] 640511012213 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 640511012214 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511012215 DNA-binding site [nucleotide binding]; DNA binding site 640511012216 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 640511012217 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511012218 homodimer interface [polypeptide binding]; other site 640511012219 catalytic residue [active] 640511012220 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640511012221 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 640511012222 conserved cys residue [active] 640511012223 Epoxide hydrolase N terminus; Region: EHN; pfam06441 640511012224 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 640511012225 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 640511012226 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 640511012227 putative active site [active] 640511012228 putative catalytic site [active] 640511012229 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511012230 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 640511012231 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 640511012232 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 640511012233 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 640511012234 dimerization interface [polypeptide binding]; other site 640511012235 ligand binding site [chemical binding]; other site 640511012236 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 640511012237 Proline racemase; Region: Pro_racemase; pfam05544 640511012238 Protein of unknown function (DUF429); Region: DUF429; cl12046 640511012239 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 640511012240 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 640511012241 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 640511012242 dimer interface [polypeptide binding]; other site 640511012243 Citrate synthase; Region: Citrate_synt; pfam00285 640511012244 active site 640511012245 citrylCoA binding site [chemical binding]; other site 640511012246 NADH binding [chemical binding]; other site 640511012247 cationic pore residues; other site 640511012248 oxalacetate/citrate binding site [chemical binding]; other site 640511012249 coenzyme A binding site [chemical binding]; other site 640511012250 catalytic triad [active] 640511012251 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640511012252 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation', the process of becoming...; Region: Lipase; cl14883 640511012253 nucleophilic elbow; other site 640511012254 catalytic triad; other site 640511012255 rod shape-determining protein MreB; Provisional; Region: PRK13930 640511012256 Cell division protein FtsA; Region: FtsA; cl11496 640511012257 Predicted esterase [General function prediction only]; Region: COG0400 640511012258 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 640511012259 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 640511012260 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511012261 putative substrate translocation pore; other site 640511012262 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511012263 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 640511012264 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511012265 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511012266 NAD(P) binding site [chemical binding]; other site 640511012267 active site 640511012268 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 640511012269 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 640511012270 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 640511012271 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 640511012272 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640511012273 dimer interface [polypeptide binding]; other site 640511012274 putative CheW interface [polypeptide binding]; other site 640511012275 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640511012276 classical (c) SDRs; Region: SDR_c; cd05233 640511012277 NAD(P) binding site [chemical binding]; other site 640511012278 active site 640511012279 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 640511012280 Cupin domain; Region: Cupin_2; cl09118 640511012281 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 640511012282 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 640511012283 NAD(P) binding site [chemical binding]; other site 640511012284 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 640511012285 trimer interface [polypeptide binding]; other site 640511012286 eyelet of channel; other site 640511012287 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 640511012288 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 640511012289 active site 640511012290 catalytic residues [active] 640511012291 metal binding site [ion binding]; metal-binding site 640511012292 DmpG-like communication domain; Region: DmpG_comm; pfam07836 640511012293 acetaldehyde dehydrogenase; Validated; Region: PRK08300 640511012294 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511012295 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 640511012296 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 640511012297 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 640511012298 putative active site [active] 640511012299 Fe(II) binding site [ion binding]; other site 640511012300 putative dimer interface [polypeptide binding]; other site 640511012301 putative tetramer interface [polypeptide binding]; other site 640511012302 Lipocalin-like domain; Region: Lipocalin_5; pfam13924 640511012303 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 640511012304 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 640511012305 2,3-dihydroxybiphenyl 1,2-dioxygenase; Region: 23dbph12diox; TIGR03213 640511012306 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 640511012307 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 640511012308 active site 640511012309 Fe binding site [ion binding]; other site 640511012310 indole acetimide hydrolase; Validated; Region: PRK07488 640511012311 Amidase; Region: Amidase; cl11426 640511012312 M20 Peptidases, Poly(aspartic acid) hydrolase-like proteins; Region: M20_PAAh_like; cd03896 640511012313 acetylornithine deacetylase or succinyl-diaminopimelate desuccinylase; Region: DapE-ArgE; TIGR01910 640511012314 putative metal binding site [ion binding]; other site 640511012315 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 640511012316 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 640511012317 catalytic loop [active] 640511012318 iron binding site [ion binding]; other site 640511012319 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 640511012320 FAD binding pocket [chemical binding]; other site 640511012321 FAD binding motif [chemical binding]; other site 640511012322 phosphate binding motif [ion binding]; other site 640511012323 beta-alpha-beta structure motif; other site 640511012324 NAD binding pocket [chemical binding]; other site 640511012325 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 640511012326 Amidase; Region: Amidase; cl11426 640511012327 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 640511012328 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 640511012329 iron-sulfur cluster [ion binding]; other site 640511012330 [2Fe-2S] cluster binding site [ion binding]; other site 640511012331 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 640511012332 alpha subunit interface [polypeptide binding]; other site 640511012333 active site 640511012334 substrate binding site [chemical binding]; other site 640511012335 Fe binding site [ion binding]; other site 640511012336 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511012337 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640511012338 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511012339 acyl-CoA synthetase; Validated; Region: PRK08162 640511012340 AMP-binding enzyme; Region: AMP-binding; cl15778 640511012341 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511012342 Transposase; Region: DDE_Tnp_ISL3; pfam01610 640511012343 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 640511012344 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 640511012345 AAA domain; Region: AAA_22; pfam13401 640511012346 Integrase core domain; Region: rve; cl01316 640511012347 TnsA endonuclease C terminal; Region: Tn7_Tnp_TnsA_C; pfam08721 640511012348 Phage integrase protein; Region: DUF3701; pfam12482 640511012349 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 640511012350 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 640511012351 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 640511012352 Int/Topo IB signature motif; other site 640511012353 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 640511012354 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511012355 putative substrate translocation pore; other site 640511012356 Transcriptional regulators [Transcription]; Region: MarR; COG1846 640511012357 Helix-turn-helix domains; Region: HTH; cl00088 640511012358 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 640511012359 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 640511012360 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640511012361 dimer interface [polypeptide binding]; other site 640511012362 putative CheW interface [polypeptide binding]; other site 640511012363 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 640511012364 active site 640511012365 FMN binding site [chemical binding]; other site 640511012366 substrate binding site [chemical binding]; other site 640511012367 putative catalytic residue [active] 640511012368 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640511012369 classical (c) SDRs; Region: SDR_c; cd05233 640511012370 NAD(P) binding site [chemical binding]; other site 640511012371 active site 640511012372 Cytochrome c; Region: Cytochrom_C; cl11414 640511012373 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 640511012374 FAD binding domain; Region: FAD_binding_4; pfam01565 640511012375 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640511012376 classical (c) SDRs; Region: SDR_c; cd05233 640511012377 NAD(P) binding site [chemical binding]; other site 640511012378 active site 640511012379 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640511012380 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 640511012381 tetramerization interface [polypeptide binding]; other site 640511012382 NAD(P) binding site [chemical binding]; other site 640511012383 catalytic residues [active] 640511012384 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 640511012385 inhibitor site; inhibition site 640511012386 active site 640511012387 dimer interface [polypeptide binding]; other site 640511012388 catalytic residue [active] 640511012389 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 640511012390 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511012391 YceI-like domain; Region: YceI; cl01001 640511012392 Transcriptional regulators [Transcription]; Region: FadR; COG2186 640511012393 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511012394 DNA-binding site [nucleotide binding]; DNA binding site 640511012395 FCD domain; Region: FCD; cl11656 640511012396 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 640511012397 hypothetical protein; Provisional; Region: PRK06847 640511012398 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511012399 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511012400 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 640511012401 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 640511012402 Cupin domain; Region: Cupin_2; cl09118 640511012403 2,3-dihydroxybiphenyl 1,2-dioxygenase; Region: 23dbph12diox; TIGR03213 640511012404 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 640511012405 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640511012406 putative active site [active] 640511012407 putative metal binding site [ion binding]; other site 640511012408 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 640511012409 iron-sulfur cluster [ion binding]; other site 640511012410 [2Fe-2S] cluster binding site [ion binding]; other site 640511012411 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 640511012412 Helix-turn-helix domains; Region: HTH; cl00088 640511012413 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 640511012414 substrate binding pocket [chemical binding]; other site 640511012415 dimerization interface [polypeptide binding]; other site 640511012416 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 640511012417 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 640511012418 iron-sulfur cluster [ion binding]; other site 640511012419 [2Fe-2S] cluster binding site [ion binding]; other site 640511012420 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 640511012421 alpha subunit interface [polypeptide binding]; other site 640511012422 active site 640511012423 substrate binding site [chemical binding]; other site 640511012424 Fe binding site [ion binding]; other site 640511012425 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 640511012426 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 640511012427 FMN-binding pocket [chemical binding]; other site 640511012428 flavin binding motif; other site 640511012429 phosphate binding motif [ion binding]; other site 640511012430 beta-alpha-beta structure motif; other site 640511012431 NAD binding pocket [chemical binding]; other site 640511012432 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 640511012433 catalytic loop [active] 640511012434 iron binding site [ion binding]; other site 640511012435 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511012436 putative substrate translocation pore; other site 640511012437 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640511012438 Helix-turn-helix domains; Region: HTH; cl00088 640511012439 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 640511012440 CoenzymeA binding site [chemical binding]; other site 640511012441 subunit interaction site [polypeptide binding]; other site 640511012442 PHB binding site; other site 640511012443 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 640511012444 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 640511012445 Helix-turn-helix domains; Region: HTH; cl00088 640511012446 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 640511012447 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 640511012448 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl15306 640511012449 substrate binding pocket [chemical binding]; other site 640511012450 membrane-bound complex binding site; other site 640511012451 hinge residues; other site 640511012452 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 640511012453 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511012454 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640511012455 putative substrate translocation pore; other site 640511012456 3-(3-hydroxyphenyl)propionate hydroxylase; Validated; Region: mhpA; PRK06183 640511012457 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511012458 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511012459 Cupin domain; Region: Cupin_2; cl09118 640511012460 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 640511012461 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 640511012462 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640511012463 Helix-turn-helix domains; Region: HTH; cl00088 640511012464 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 640511012465 non-specific DNA binding site [nucleotide binding]; other site 640511012466 salt bridge; other site 640511012467 sequence-specific DNA binding site [nucleotide binding]; other site 640511012468 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 640511012469 Protein of unknown function (DUF3732); Region: DUF3732; pfam12532 640511012470 Helix-turn-helix domains; Region: HTH; cl00088 640511012471 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 640511012472 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 640511012473 FAD binding pocket [chemical binding]; other site 640511012474 FAD binding motif [chemical binding]; other site 640511012475 phosphate binding motif [ion binding]; other site 640511012476 NAD binding pocket [chemical binding]; other site 640511012477 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511012478 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640511012479 putative substrate translocation pore; other site 640511012480 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 640511012481 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 640511012482 CsbD-like; Region: CsbD; cl15799 640511012483 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 640511012484 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 640511012485 substrate binding site [chemical binding]; other site 640511012486 oxyanion hole (OAH) forming residues; other site 640511012487 trimer interface [polypeptide binding]; other site 640511012488 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 640511012489 enoyl-CoA hydratase; Provisional; Region: PRK09076 640511012490 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 640511012491 substrate binding site [chemical binding]; other site 640511012492 oxyanion hole (OAH) forming residues; other site 640511012493 trimer interface [polypeptide binding]; other site 640511012494 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511012495 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 640511012496 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 640511012497 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640511012498 tetrameric interface [polypeptide binding]; other site 640511012499 NAD binding site [chemical binding]; other site 640511012500 catalytic residues [active] 640511012501 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 640511012502 AMP-binding enzyme; Region: AMP-binding; cl15778 640511012503 AMP-binding enzyme; Region: AMP-binding; cl15778 640511012504 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 640511012505 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640511012506 active site 640511012507 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 640511012508 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640511012509 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511012510 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 640511012511 active site residues [active] 640511012512 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 640511012513 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 640511012514 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 640511012515 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 640511012516 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640511012517 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 640511012518 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 640511012519 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 640511012520 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 640511012521 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 640511012522 catalytic loop [active] 640511012523 iron binding site [ion binding]; other site 640511012524 Protein of unknown function (DUF1653); Region: DUF1653; cl01949 640511012525 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 640511012526 YheO-like PAS domain; Region: PAS_6; pfam08348 640511012527 Helix-turn-helix domains; Region: HTH; cl00088 640511012528 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 640511012529 rRNA binding site [nucleotide binding]; other site 640511012530 predicted 30S ribosome binding site; other site 640511012531 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 640511012532 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511012533 active site 640511012534 phosphorylation site [posttranslational modification] 640511012535 intermolecular recognition site; other site 640511012536 dimerization interface [polypeptide binding]; other site 640511012537 ANTAR domain; Region: ANTAR; cl04297 640511012538 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 640511012539 NMT1-like family; Region: NMT1_2; cl15260 640511012540 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 640511012541 rhamnose ABC transporter, rhamnose-binding protein; Region: RhaS; TIGR02637 640511012542 ligand binding site [chemical binding]; other site 640511012543 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 640511012544 TM-ABC transporter signature motif; other site 640511012545 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 640511012546 TM-ABC transporter signature motif; other site 640511012547 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 640511012548 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 640511012549 Walker A/P-loop; other site 640511012550 ATP binding site [chemical binding]; other site 640511012551 Q-loop/lid; other site 640511012552 ABC transporter signature motif; other site 640511012553 Walker B; other site 640511012554 D-loop; other site 640511012555 H-loop/switch region; other site 640511012556 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 640511012557 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 640511012558 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 640511012559 Domain of unknown function (DUF718); Region: DUF718; cl01281 640511012560 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 640511012561 Helix-turn-helix domains; Region: HTH; cl00088 640511012562 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 640511012563 putative dimerization interface [polypeptide binding]; other site 640511012564 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640511012565 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511012566 NAD(P) binding site [chemical binding]; other site 640511012567 active site 640511012568 L-rhamnonate dehydratase; Provisional; Region: PRK15440 640511012569 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 640511012570 putative active site pocket [active] 640511012571 putative metal binding site [ion binding]; other site 640511012572 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640511012573 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511012574 NAD(P) binding site [chemical binding]; other site 640511012575 active site 640511012576 H-NS histone family; Region: Histone_HNS; pfam00816 640511012577 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 640511012578 Low molecular weight phosphatase family; Region: LMWPc; cl00105 640511012579 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 640511012580 active site 640511012581 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 640511012582 HSP70 interaction site [polypeptide binding]; other site 640511012583 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 640511012584 indole acetimide hydrolase; Validated; Region: PRK07488 640511012585 Amidase; Region: Amidase; cl11426 640511012586 CDP-diacylglycerol pyrophosphatase; Region: CDH; cl00934 640511012587 Fatty acid desaturase protein family subgroup, a delta-12 acyl-lipid desaturase-like, DesA-like, yet uncharacterized subgroup of membrane fatty acid desaturase proteins found in alpha-, beta-, and gamma-proteobacteria. Sequences of this domain family...; Region: DesA_FADS-like; cd03509 640511012588 putative di-iron ligands [ion binding]; other site 640511012589 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 640511012590 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 640511012591 Cation efflux family; Region: Cation_efflux; cl00316 640511012592 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 640511012593 putative FMN binding site [chemical binding]; other site 640511012594 NADPH bind site [chemical binding]; other site 640511012595 TIGR03442 family protein; Region: TIGR03442 640511012596 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 640511012597 putative active site [active] 640511012598 putative dimer interface [polypeptide binding]; other site 640511012599 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 640511012600 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 640511012601 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 640511012602 active site 640511012603 metal binding site [ion binding]; metal-binding site 640511012604 PAS fold; Region: PAS_4; pfam08448 640511012605 PAS fold; Region: PAS_3; pfam08447 640511012606 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 640511012607 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640511012608 metal binding site [ion binding]; metal-binding site 640511012609 active site 640511012610 I-site; other site 640511012611 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 640511012612 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511012613 Helix-turn-helix domains; Region: HTH; cl00088 640511012614 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 640511012615 substrate binding pocket [chemical binding]; other site 640511012616 dimerization interface [polypeptide binding]; other site 640511012617 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 640511012618 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 640511012619 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 640511012620 shikimate binding site; other site 640511012621 NAD(P) binding site [chemical binding]; other site 640511012622 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 640511012623 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640511012624 (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 640511012625 active site 640511012626 catalytic site [active] 640511012627 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640511012628 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 640511012629 active site 640511012630 metal binding site [ion binding]; metal-binding site 640511012631 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 640511012632 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511012633 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 640511012634 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640511012635 gluconate 5-dehydrogenase; Provisional; Region: PRK06124 640511012636 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 640511012637 NADP binding site [chemical binding]; other site 640511012638 homodimer interface [polypeptide binding]; other site 640511012639 active site 640511012640 Putative ParB-like nuclease; Region: ParBc_2; pfam08857 640511012641 Type VI secretion lipoprotein; Region: T6SS-SciN; cl01405 640511012642 Protein of unknown function (DUF1305); Region: DUF1305; cl01404 640511012643 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 640511012644 Bacterial protein of unknown function (DUF879); Region: DUF879; cl15462 640511012645 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 640511012646 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 640511012647 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 640511012648 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 640511012649 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 640511012650 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 640511012651 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 640511012652 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 640511012653 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 640511012654 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 640511012655 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 640511012656 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 640511012657 Protein of unknown function (DUF877); Region: DUF877; pfam05943 640511012658 Protein of unknown function (DUF770); Region: DUF770; cl01402 640511012659 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522; cl01406 640511012660 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 640511012661 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 640511012662 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640511012663 ligand binding site [chemical binding]; other site 640511012664 Protein of unknown function (DUF796); Region: DUF796; cl01226 640511012665 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 640511012666 Clp amino terminal domain; Region: Clp_N; pfam02861 640511012667 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 640511012668 Walker A motif; other site 640511012669 ATP binding site [chemical binding]; other site 640511012670 Walker B motif; other site 640511012671 arginine finger; other site 640511012672 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 640511012673 Walker A motif; other site 640511012674 ATP binding site [chemical binding]; other site 640511012675 Walker B motif; other site 640511012676 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 640511012677 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 640511012678 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 640511012679 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 640511012680 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 640511012681 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 640511012682 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 640511012683 ATP-grasp domain; Region: ATP-grasp_4; cl03087 640511012684 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 640511012685 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 640511012686 carboxyltransferase (CT) interaction site; other site 640511012687 biotinylation site [posttranslational modification]; other site 640511012688 enoyl-CoA hydratase; Provisional; Region: PRK05995 640511012689 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 640511012690 substrate binding site [chemical binding]; other site 640511012691 oxyanion hole (OAH) forming residues; other site 640511012692 trimer interface [polypeptide binding]; other site 640511012693 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 640511012694 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 640511012695 isovaleryl-CoA dehydrogenase; Region: PLN02519 640511012696 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 640511012697 substrate binding site [chemical binding]; other site 640511012698 FAD binding site [chemical binding]; other site 640511012699 catalytic base [active] 640511012700 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640511012701 Helix-turn-helix domains; Region: HTH; cl00088 640511012702 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 640511012703 Protein of unknown function DUF72; Region: DUF72; cl00777 640511012704 NeuB family; Region: NeuB; cl00496 640511012705 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 640511012706 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 640511012707 IHF dimer interface [polypeptide binding]; other site 640511012708 IHF - DNA interface [nucleotide binding]; other site 640511012709 Predicted signal transduction protein containing a membrane domain, an EAL and a GGDEF domain [Signal transduction mechanisms]; Region: COG5001 640511012710 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640511012711 metal binding site [ion binding]; metal-binding site 640511012712 active site 640511012713 I-site; other site 640511012714 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 640511012715 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 640511012716 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640511012717 Helix-turn-helix domains; Region: HTH; cl00088 640511012718 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 640511012719 dimerization interface [polypeptide binding]; other site 640511012720 substrate binding pocket [chemical binding]; other site 640511012721 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 640511012722 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511012723 putative substrate translocation pore; other site 640511012724 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 640511012725 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 640511012726 Cupin domain; Region: Cupin_2; cl09118 640511012727 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 640511012728 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 640511012729 active site residue [active] 640511012730 Peptidase C26; Region: Peptidase_C26; pfam07722 640511012731 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 640511012732 catalytic triad [active] 640511012733 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 640511012734 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 640511012735 putative aminotransferase; Validated; Region: PRK07480 640511012736 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 640511012737 inhibitor-cofactor binding pocket; inhibition site 640511012738 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511012739 catalytic residue [active] 640511012740 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640511012741 Uncharacterized conserved protein (DUF2278); Region: DUF2278; pfam10042 640511012742 Uncharacterized conserved protein [Function unknown]; Region: COG5634 640511012743 benzoate transport; Region: 2A0115; TIGR00895 640511012744 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511012745 putative substrate translocation pore; other site 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 benzoylformate decarboxylase; Reviewed; Region: PRK07092 640511012748 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 640511012749 PYR/PP interface [polypeptide binding]; other site 640511012750 dimer interface [polypeptide binding]; other site 640511012751 TPP binding site [chemical binding]; other site 640511012752 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 640511012753 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 640511012754 TPP-binding site [chemical binding]; other site 640511012755 dimer interface [polypeptide binding]; other site 640511012756 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 640511012757 Helix-turn-helix domains; Region: HTH; cl00088 640511012758 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 640511012759 putative dimerization interface [polypeptide binding]; other site 640511012760 Protein of unknown function (DUF2891); Region: DUF2891; pfam11199 640511012761 DNA polymerase II; Reviewed; Region: PRK05762 640511012762 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 640511012763 active site 640511012764 catalytic site [active] 640511012765 substrate binding site [chemical binding]; other site 640511012766 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 640511012767 active site 640511012768 metal-binding site 640511012769 periplasmic protein; Provisional; Region: PRK10568 640511012770 BON domain; Region: BON; cl02771 640511012771 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 640511012772 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 640511012773 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 640511012774 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 640511012775 motif II; other site 640511012776 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 640511012777 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 640511012778 active site 640511012779 substrate binding site [chemical binding]; other site 640511012780 Mg2+ binding site [ion binding]; other site 640511012781 benzoate transport; Region: 2A0115; TIGR00895 640511012782 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511012783 putative substrate translocation pore; other site 640511012784 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511012785 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 640511012786 substrate binding site [chemical binding]; other site 640511012787 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 640511012788 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 640511012789 substrate binding site [chemical binding]; other site 640511012790 ligand binding site [chemical binding]; other site 640511012791 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 640511012792 Helix-turn-helix domains; Region: HTH; cl00088 640511012793 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 640511012794 putative dimerization interface [polypeptide binding]; other site 640511012795 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 640511012796 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 640511012797 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 640511012798 catalytic residues [active] 640511012799 Protein of unknown function (DUF1255); Region: DUF1255; cl01202 640511012800 BON domain; Region: BON; cl02771 640511012801 Major royal jelly protein; Region: MRJP; pfam03022 640511012802 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 640511012803 Paraquat-inducible protein A; Region: PqiA; pfam04403 640511012804 Paraquat-inducible protein A; Region: PqiA; pfam04403 640511012805 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 640511012806 mce related protein; Region: MCE; pfam02470 640511012807 mce related protein; Region: MCE; pfam02470 640511012808 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 640511012809 Protein of unknown function (DUF330); Region: DUF330; cl01135 640511012810 Helix-turn-helix domains; Region: HTH; cl00088 640511012811 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 640511012812 The C-terminal domain of Gallate Dioxygenase, which catalyzes the oxidization and subsequent ring-opening of gallate; Region: Gallate_dioxygenase_C; cd07923 640511012813 putative dimer interface [polypeptide binding]; other site 640511012814 putative N- and C-terminal domain interface [polypeptide binding]; other site 640511012815 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 640511012816 putative active site [active] 640511012817 Fe(II) binding site [ion binding]; other site 640511012818 putative dimer interface [polypeptide binding]; other site 640511012819 Transcriptional regulators [Transcription]; Region: FadR; COG2186 640511012820 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511012821 DNA-binding site [nucleotide binding]; DNA binding site 640511012822 FCD domain; Region: FCD; cl11656 640511012823 Helix-turn-helix domains; Region: HTH; cl00088 640511012824 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 640511012825 Helix-turn-helix domains; Region: HTH; cl00088 640511012826 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 640511012827 putative dimerization interface [polypeptide binding]; other site 640511012828 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 640511012829 TPR motif; other site 640511012830 binding surface 640511012831 TPR repeat; Region: TPR_11; pfam13414 640511012832 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 640511012833 binding surface 640511012834 TPR motif; other site 640511012835 TPR repeat; Region: TPR_11; pfam13414 640511012836 TPR repeat; Region: TPR_11; pfam13414 640511012837 TPR repeat; Region: TPR_11; pfam13414 640511012838 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 640511012839 binding surface 640511012840 TPR motif; other site 640511012841 TPR repeat; Region: TPR_11; pfam13414 640511012842 TPR repeat; Region: TPR_11; pfam13414 640511012843 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 640511012844 binding surface 640511012845 TPR motif; other site 640511012846 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 640511012847 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 640511012848 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 640511012849 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 640511012850 N-terminal plug; other site 640511012851 ligand-binding site [chemical binding]; other site 640511012852 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 640511012853 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 640511012854 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 640511012855 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 640511012856 Helix-turn-helix domains; Region: HTH; cl00088 640511012857 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 640511012858 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 640511012859 Peptidase family M23; Region: Peptidase_M23; pfam01551 640511012860 Uncharacterized protein conserved in bacteria (DUF2322); Region: DUF2322; cl01820 640511012861 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 640511012862 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511012863 dimer interface [polypeptide binding]; other site 640511012864 conserved gate region; other site 640511012865 putative PBP binding loops; other site 640511012866 ABC-ATPase subunit interface; other site 640511012867 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 640511012868 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511012869 dimer interface [polypeptide binding]; other site 640511012870 conserved gate region; other site 640511012871 putative PBP binding loops; other site 640511012872 ABC-ATPase subunit interface; other site 640511012873 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 640511012874 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 640511012875 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 640511012876 Beta-galactosidase; Region: Glyco_hydro_42; cl03154 640511012877 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 640511012878 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 640511012879 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 640511012880 Walker A/P-loop; other site 640511012881 ATP binding site [chemical binding]; other site 640511012882 Q-loop/lid; other site 640511012883 ABC transporter signature motif; other site 640511012884 Walker B; other site 640511012885 D-loop; other site 640511012886 H-loop/switch region; other site 640511012887 TOBE domain; Region: TOBE_2; cl01440 640511012888 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640511012889 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640511012890 DNA binding site [nucleotide binding] 640511012891 domain linker motif; other site 640511012892 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 640511012893 dimerization interface [polypeptide binding]; other site 640511012894 ligand binding site [chemical binding]; other site 640511012895 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511012896 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 640511012897 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 640511012898 ligand binding site [chemical binding]; other site 640511012899 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 640511012900 TM-ABC transporter signature motif; other site 640511012901 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 640511012902 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 640511012903 Walker A/P-loop; other site 640511012904 ATP binding site [chemical binding]; other site 640511012905 Q-loop/lid; other site 640511012906 ABC transporter signature motif; other site 640511012907 Walker B; other site 640511012908 D-loop; other site 640511012909 H-loop/switch region; other site 640511012910 Helix-turn-helix domains; Region: HTH; cl00088 640511012911 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 640511012912 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 640511012913 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 640511012914 Transglycosylase; Region: Transgly; cl07896 640511012915 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 640511012916 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511012917 Helix-turn-helix domains; Region: HTH; cl00088 640511012918 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 640511012919 putative dimerization interface [polypeptide binding]; other site 640511012920 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 640511012921 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 640511012922 inhibitor site; inhibition site 640511012923 active site 640511012924 dimer interface [polypeptide binding]; other site 640511012925 catalytic residue [active] 640511012926 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511012927 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640511012928 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640511012929 Helix-turn-helix domains; Region: HTH; cl00088 640511012930 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511012931 D-galactonate transporter; Region: 2A0114; TIGR00893 640511012932 putative substrate translocation pore; 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 shikimate 5-dehydrogenase; Reviewed; Region: PRK12549 640511012935 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 640511012936 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 640511012937 shikimate binding site; other site 640511012938 NAD(P) binding site [chemical binding]; other site 640511012939 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 640511012940 active site 640511012941 trimer interface [polypeptide binding]; other site 640511012942 dimer interface [polypeptide binding]; other site 640511012943 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 640511012944 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 640511012945 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 640511012946 dimer interface [polypeptide binding]; other site 640511012947 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 640511012948 active site 640511012949 Fe binding site [ion binding]; other site 640511012950 PAS fold; Region: PAS_4; pfam08448 640511012951 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640511012952 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511012953 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 640511012954 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 640511012955 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 640511012956 FAD dependent oxidoreductase; Region: DAO; pfam01266 640511012957 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 640511012958 hydroxyproline-2-epimerase; Provisional; Region: PRK13970 640511012959 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 640511012960 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 640511012961 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511012962 active site 640511012963 phosphorylation site [posttranslational modification] 640511012964 intermolecular recognition site; other site 640511012965 dimerization interface [polypeptide binding]; other site 640511012966 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 640511012967 DNA binding site [nucleotide binding] 640511012968 metabolite-proton symporter; Region: 2A0106; TIGR00883 640511012969 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511012970 putative substrate translocation pore; other site 640511012971 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511012972 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640511012973 putative substrate translocation pore; other site 640511012974 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511012975 DoxX; Region: DoxX; cl00976 640511012976 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 640511012977 dimer interface [polypeptide binding]; other site 640511012978 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640511012979 metal binding site [ion binding]; metal-binding site 640511012980 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 640511012981 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 640511012982 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 640511012983 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 640511012984 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 640511012985 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 640511012986 non-specific DNA binding site [nucleotide binding]; other site 640511012987 salt bridge; other site 640511012988 sequence-specific DNA binding site [nucleotide binding]; other site 640511012989 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 640511012990 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 640511012991 Flagellar transcriptional activator (FlhD); Region: FlhD; cl05012 640511012992 Flagellar transcriptional activator (FlhC); Region: FlhC; cl05036 640511012993 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 640511012994 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 640511012995 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 640511012996 Flavin binding site [chemical binding]; other site 640511012997 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640511012998 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 640511012999 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 640511013000 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 640511013001 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 640511013002 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 640511013003 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 640511013004 substrate binding pocket [chemical binding]; other site 640511013005 transcriptional regulator; Provisional; Region: PRK10632 640511013006 Helix-turn-helix domains; Region: HTH; cl00088 640511013007 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 640511013008 putative effector binding pocket; other site 640511013009 putative dimerization interface [polypeptide binding]; other site 640511013010 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640511013011 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 640511013012 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 640511013013 active site 640511013014 catalytic tetrad [active] 640511013015 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 640511013016 Cation efflux family; Region: Cation_efflux; cl00316 640511013017 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 640511013018 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511013019 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640511013020 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_7; cd03862 640511013021 putative active site [active] 640511013022 Zn binding site [ion binding]; other site 640511013023 DDE superfamily endonuclease; Region: DDE_4; cl15789 640511013024 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 640511013025 DDE superfamily endonuclease; Region: DDE_4; cl15789 640511013026 DDE superfamily endonuclease; Region: DDE_4; cl15789 640511013027 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 640511013028 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 640511013029 ABC-type phosphate/phosphonate transport system. Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all...; Region: ABC_PhnC_transporter; cd03256 640511013030 Walker A/P-loop; other site 640511013031 ATP binding site [chemical binding]; other site 640511013032 Q-loop/lid; other site 640511013033 ABC transporter signature motif; other site 640511013034 Walker B; other site 640511013035 D-loop; other site 640511013036 H-loop/switch region; other site 640511013037 NMT1-like family; Region: NMT1_2; cl15260 640511013038 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 640511013039 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 640511013040 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511013041 dimer interface [polypeptide binding]; other site 640511013042 conserved gate region; other site 640511013043 ABC-ATPase subunit interface; other site 640511013044 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 640511013045 active site 640511013046 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 640511013047 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511013048 active site 640511013049 phosphorylation site [posttranslational modification] 640511013050 intermolecular recognition site; other site 640511013051 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 640511013052 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 640511013053 motif II; other site 640511013054 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 640511013055 trimer interface [polypeptide binding]; other site 640511013056 eyelet of channel; other site 640511013057 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 640511013058 Helix-turn-helix domains; Region: HTH; cl00088 640511013059 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 640511013060 dimerization interface [polypeptide binding]; other site 640511013061 Integral membrane protein TerC family; Region: TerC; cl10468 640511013062 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 640511013063 hypothetical protein; Provisional; Region: PRK09040 640511013064 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640511013065 ligand binding site [chemical binding]; other site 640511013066 Domain of unknown function (DUF802); Region: DUF802; pfam05650 640511013067 Protein of unknown function (DUF3348); Region: DUF3348; pfam11828 640511013068 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640511013069 glycerol-3-phosphate dehydrogenase, anaerobic, B subunit; Region: glycerol3P_GlpB; TIGR03378 640511013070 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511013071 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 640511013072 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 640511013073 N-terminal plug; other site 640511013074 ligand-binding site [chemical binding]; other site 640511013075 Sel1 repeat; Region: Sel1; cl02723 640511013076 Sel1 repeat; Region: Sel1; cl02723 640511013077 Sel1 repeat; Region: Sel1; cl02723 640511013078 Sel1 repeat; Region: Sel1; cl02723 640511013079 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 640511013080 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 640511013081 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 640511013082 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 640511013083 Na binding site [ion binding]; other site 640511013084 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 640511013085 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 640511013086 Cache domain; Region: Cache_2; cl07034 640511013087 Histidine kinase; Region: HisKA_3; pfam07730 640511013088 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511013089 ATP binding site [chemical binding]; other site 640511013090 Mg2+ binding site [ion binding]; other site 640511013091 G-X-G motif; other site 640511013092 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640511013093 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511013094 active site 640511013095 phosphorylation site [posttranslational modification] 640511013096 intermolecular recognition site; other site 640511013097 dimerization interface [polypeptide binding]; other site 640511013098 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 640511013099 DNA binding residues [nucleotide binding] 640511013100 dimerization interface [polypeptide binding]; other site 640511013101 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 640511013102 Sulfatase; Region: Sulfatase; cl10460 640511013103 Sulfatase; Region: Sulfatase; cl10460 640511013104 Sulfatase; Region: Sulfatase; cl10460 640511013105 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 640511013106 NMT1-like family; Region: NMT1_2; cl15260 640511013107 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 640511013108 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 640511013109 putative active site [active] 640511013110 catalytic site [active] 640511013111 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 640511013112 putative active site [active] 640511013113 catalytic site [active] 640511013114 H-NS histone family; Region: Histone_HNS; pfam00816 640511013115 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 640511013116 Protein of unknown function, DUF488; Region: DUF488; cl01246 640511013117 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 640511013118 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 640511013119 ATP binding site [chemical binding]; other site 640511013120 putative Mg++ binding site [ion binding]; other site 640511013121 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 640511013122 nucleotide binding region [chemical binding]; other site 640511013123 ATP-binding site [chemical binding]; other site 640511013124 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 640511013125 putative active site [active] 640511013126 putative metal binding site [ion binding]; other site 640511013127 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 640511013128 FAD binding domain; Region: FAD_binding_4; pfam01565 640511013129 Berberine and berberine like; Region: BBE; pfam08031 640511013130 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 640511013131 Cache domain; Region: Cache_2; cl07034 640511013132 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 640511013133 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640511013134 dimer interface [polypeptide binding]; other site 640511013135 putative CheW interface [polypeptide binding]; other site 640511013136 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 640511013137 putative deacylase active site [active] 640511013138 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 640511013139 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 640511013140 trimer interface [polypeptide binding]; other site 640511013141 eyelet of channel; other site 640511013142 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 640511013143 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 640511013144 active site 640511013145 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 640511013146 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 640511013147 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; cl00980 640511013148 Uncharacterized conserved protein [Function unknown]; Region: COG2308 640511013149 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; pfam04174 640511013150 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cl00257 640511013151 IHF dimer interface [polypeptide binding]; other site 640511013152 IHF - DNA interface [nucleotide binding]; other site 640511013153 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 640511013154 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511013155 DNA-binding site [nucleotide binding]; DNA binding site 640511013156 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 640511013157 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511013158 homodimer interface [polypeptide binding]; other site 640511013159 catalytic residue [active] 640511013160 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 640511013161 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 640511013162 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511013163 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 640511013164 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640511013165 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 640511013166 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511013167 putative substrate translocation pore; other site 640511013168 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 640511013169 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 640511013170 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 640511013171 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640511013172 Helix-turn-helix domains; Region: HTH; cl00088 640511013173 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640511013174 Helix-turn-helix domains; Region: HTH; cl00088 640511013175 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640511013176 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 640511013177 conserved cys residue [active] 640511013178 META domain; Region: META; cl01245 640511013179 Domain of unknown function (DUF4377); Region: DUF4377; pfam14302 640511013180 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511013181 Helix-turn-helix domains; Region: HTH; cl00088 640511013182 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 640511013183 putative effector binding pocket; other site 640511013184 putative dimerization interface [polypeptide binding]; other site 640511013185 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 640511013186 active site 640511013187 EamA-like transporter family; Region: EamA; cl01037 640511013188 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 640511013189 EamA-like transporter family; Region: EamA; cl01037 640511013190 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640511013191 Helix-turn-helix domains; Region: HTH; cl00088 640511013192 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 640511013193 dimerization interface [polypeptide binding]; other site 640511013194 substrate binding pocket [chemical binding]; other site 640511013195 Predicted ATPase [General function prediction only]; Region: COG3910 640511013196 ABC-type Class 2 contains systems involved in cellular processes other than transport. These families are characterised by the fact that the ABC subunit is made up of duplicated, fused ABC modules (ABC2). No known transmembrane proteins or domains are...; Region: ABC_Class2; cd03227 640511013197 Walker A/P-loop; other site 640511013198 ATP binding site [chemical binding]; other site 640511013199 Q-loop/lid; other site 640511013200 ABC transporter signature motif; other site 640511013201 Walker B; other site 640511013202 D-loop; other site 640511013203 H-loop/switch region; other site 640511013204 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 640511013205 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 640511013206 Uncharacterized conserved protein [Function unknown]; Region: COG2308 640511013207 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; pfam04174 640511013208 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; cl00980 640511013209 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 640511013210 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 640511013211 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 640511013212 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 640511013213 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 640511013214 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4307 640511013215 Uncharacterized protein conserved in bacteria (DUF2248); Region: DUF2248; pfam10005 640511013216 Protein of unknown function (DUF3443); Region: DUF3443; pfam11925 640511013217 Protein of unknown function (DUF2844); Region: DUF2844; pfam11005 640511013218 Phasin protein; Region: Phasin_2; cl11491 640511013219 Domain of unknown function (DUF4410); Region: DUF4410; pfam14366 640511013220 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511013221 active site 640511013222 phosphorylation site [posttranslational modification] 640511013223 intermolecular recognition site; other site 640511013224 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 640511013225 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 640511013226 N-terminal plug; other site 640511013227 ligand-binding site [chemical binding]; other site 640511013228 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 640511013229 Ligand Binding Site [chemical binding]; other site 640511013230 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 640511013231 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 640511013232 Cl- selectivity filter; other site 640511013233 Cl- binding residues [ion binding]; other site 640511013234 pore gating glutamate residue; other site 640511013235 dimer interface [polypeptide binding]; other site 640511013236 FOG: CBS domain [General function prediction only]; Region: COG0517 640511013237 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 640511013238 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 640511013239 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 640511013240 HPP family; Region: HPP; pfam04982 640511013241 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 640511013242 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 640511013243 Helix-turn-helix domains; Region: HTH; cl00088 640511013244 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 640511013245 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 640511013246 Cl- selectivity filter; other site 640511013247 Cl- binding residues [ion binding]; other site 640511013248 pore gating glutamate residue; other site 640511013249 dimer interface [polypeptide binding]; other site 640511013250 FOG: CBS domain [General function prediction only]; Region: COG0517 640511013251 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 640511013252 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 640511013253 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 640511013254 substrate binding pocket [chemical binding]; other site 640511013255 membrane-bound complex binding site; other site 640511013256 hinge residues; other site 640511013257 TniQ; Region: TniQ; pfam06527 640511013258 HTH-like domain; Region: HTH_21; pfam13276 640511013259 Integrase core domain; Region: rve; cl01316 640511013260 Integrase core domain; Region: rve_3; cl15866 640511013261 phenylcoumaran benzylic ether reductase (PCBER) like, atypical (a) SDRs; Region: PCBER_SDR_a; cd05259 640511013262 NmrA-like family; Region: NmrA; pfam05368 640511013263 NAD(P) binding site [chemical binding]; other site 640511013264 active site lysine 640511013265 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640511013266 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511013267 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511013268 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 640511013269 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 640511013270 substrate binding pocket [chemical binding]; other site 640511013271 membrane-bound complex binding site; other site 640511013272 hinge residues; other site 640511013273 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 640511013274 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511013275 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 640511013276 YheO-like PAS domain; Region: PAS_6; pfam08348 640511013277 Helix-turn-helix domains; Region: HTH; cl00088 640511013278 Domain of unknown function (DUF305); Region: DUF305; cl15795 640511013279 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511013280 FAD dependent oxidoreductase; Region: DAO; pfam01266 640511013281 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 640511013282 Cupin domain; Region: Cupin_2; cl09118 640511013283 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 640511013284 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 640511013285 Walker A/P-loop; other site 640511013286 ATP binding site [chemical binding]; other site 640511013287 Q-loop/lid; other site 640511013288 ABC transporter signature motif; other site 640511013289 Walker B; other site 640511013290 D-loop; other site 640511013291 H-loop/switch region; other site 640511013292 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640511013293 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 640511013294 Walker A/P-loop; other site 640511013295 ATP binding site [chemical binding]; other site 640511013296 Q-loop/lid; other site 640511013297 ABC transporter signature motif; other site 640511013298 Walker B; other site 640511013299 D-loop; other site 640511013300 H-loop/switch region; other site 640511013301 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640511013302 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 640511013303 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511013304 dimer interface [polypeptide binding]; other site 640511013305 conserved gate region; other site 640511013306 ABC-ATPase subunit interface; other site 640511013307 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 640511013308 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511013309 dimer interface [polypeptide binding]; other site 640511013310 conserved gate region; other site 640511013311 putative PBP binding loops; other site 640511013312 ABC-ATPase subunit interface; other site 640511013313 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 640511013314 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 640511013315 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511013316 FAD dependent oxidoreductase; Region: DAO; pfam01266 640511013317 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 640511013318 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 640511013319 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640511013320 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 640511013321 NAD(P) binding site [chemical binding]; other site 640511013322 catalytic residues [active] 640511013323 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 640511013324 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640511013325 Coenzyme A binding pocket [chemical binding]; other site 640511013326 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 640511013327 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511013328 hypothetical protein; Provisional; Region: PRK05965 640511013329 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 640511013330 inhibitor-cofactor binding pocket; inhibition site 640511013331 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511013332 catalytic residue [active] 640511013333 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 640511013334 Helix-turn-helix domains; Region: HTH; cl00088 640511013335 AsnC family; Region: AsnC_trans_reg; pfam01037 640511013336 tartrate dehydrogenase; Provisional; Region: PRK08194 640511013337 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 640511013338 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640511013339 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 640511013340 tetramerization interface [polypeptide binding]; other site 640511013341 NAD(P) binding site [chemical binding]; other site 640511013342 catalytic residues [active] 640511013343 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_7; cd06910 640511013344 putative active site [active] 640511013345 Zn binding site [ion binding]; other site 640511013346 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 640511013347 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 640511013348 tetramer interface [polypeptide binding]; other site 640511013349 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511013350 catalytic residue [active] 640511013351 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 640511013352 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511013353 LysE type translocator; Region: LysE; cl00565 640511013354 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 640511013355 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511013356 DNA-binding site [nucleotide binding]; DNA binding site 640511013357 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 640511013358 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511013359 homodimer interface [polypeptide binding]; other site 640511013360 catalytic residue [active] 640511013361 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 640511013362 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 640511013363 inhibitor-cofactor binding pocket; inhibition site 640511013364 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511013365 catalytic residue [active] 640511013366 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 640511013367 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_Arsenic_SBP_like; cd06330 640511013368 putative ligand binding site [chemical binding]; other site 640511013369 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 640511013370 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 640511013371 Walker A/P-loop; other site 640511013372 ATP binding site [chemical binding]; other site 640511013373 Q-loop/lid; other site 640511013374 ABC transporter signature motif; other site 640511013375 Walker B; other site 640511013376 D-loop; other site 640511013377 H-loop/switch region; other site 640511013378 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 640511013379 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 640511013380 Walker A/P-loop; other site 640511013381 ATP binding site [chemical binding]; other site 640511013382 Q-loop/lid; other site 640511013383 ABC transporter signature motif; other site 640511013384 Walker B; other site 640511013385 D-loop; other site 640511013386 H-loop/switch region; other site 640511013387 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 640511013388 TM-ABC transporter signature motif; other site 640511013389 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 640511013390 TM-ABC transporter signature motif; other site 640511013391 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 640511013392 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 640511013393 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 640511013394 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 640511013395 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 640511013396 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK09053 640511013397 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 640511013398 tetramer interface [polypeptide binding]; other site 640511013399 active site 640511013400 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 640511013401 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 640511013402 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511013403 Helix-turn-helix domains; Region: HTH; cl00088 640511013404 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 640511013405 substrate binding pocket [chemical binding]; other site 640511013406 dimerization interface [polypeptide binding]; other site 640511013407 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 640511013408 GTP cyclohydrolase I; Provisional; Region: PLN03044 640511013409 active site 640511013410 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 640511013411 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 640511013412 active site residue [active] 640511013413 Cache domain; Region: Cache_1; pfam02743 640511013414 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640511013415 metal binding site [ion binding]; metal-binding site 640511013416 active site 640511013417 I-site; other site 640511013418 CHAD domain; Region: CHAD; cl10506 640511013419 classical (c) SDRs; Region: SDR_c; cd05233 640511013420 NAD(P) binding site [chemical binding]; other site 640511013421 active site 640511013422 Phosphate transporter family; Region: PHO4; cl00396 640511013423 Phosphate transporter family; Region: PHO4; cl00396 640511013424 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 640511013425 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 640511013426 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640511013427 active site 640511013428 metal binding site [ion binding]; metal-binding site 640511013429 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 640511013430 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 640511013431 protein binding site [polypeptide binding]; other site 640511013432 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511013433 putative transporter; Provisional; Region: PRK10504 640511013434 putative substrate translocation pore; other site 640511013435 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511013436 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 640511013437 active site 640511013438 metal-binding site 640511013439 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 640511013440 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 640511013441 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 640511013442 CRISPR-associated protein, TIGR03984 family; Region: TIGR03984 640511013443 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 640511013444 serine O-acetyltransferase; Region: cysE; TIGR01172 640511013445 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 640511013446 trimer interface [polypeptide binding]; other site 640511013447 active site 640511013448 substrate binding site [chemical binding]; other site 640511013449 CoA binding site [chemical binding]; other site 640511013450 Protein of unknown function (DUF3005); Region: DUF3005; pfam11448 640511013451 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511013452 short chain dehydrogenase; Provisional; Region: PRK12827 640511013453 NAD(P) binding site [chemical binding]; other site 640511013454 active site 640511013455 Dehydratase family; Region: ILVD_EDD; cl00340 640511013456 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 640511013457 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511013458 dimer interface [polypeptide binding]; other site 640511013459 conserved gate region; other site 640511013460 putative PBP binding loops; other site 640511013461 ABC-ATPase subunit interface; other site 640511013462 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 640511013463 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511013464 dimer interface [polypeptide binding]; other site 640511013465 conserved gate region; other site 640511013466 putative PBP binding loops; other site 640511013467 ABC-ATPase subunit interface; other site 640511013468 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 640511013469 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511013470 Walker A/P-loop; other site 640511013471 ATP binding site [chemical binding]; other site 640511013472 Q-loop/lid; other site 640511013473 ABC transporter signature motif; other site 640511013474 Walker B; other site 640511013475 D-loop; other site 640511013476 H-loop/switch region; other site 640511013477 TOBE domain; Region: TOBE_2; cl01440 640511013478 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 640511013479 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 640511013480 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 640511013481 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 640511013482 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 640511013483 inhibitor site; inhibition site 640511013484 active site 640511013485 dimer interface [polypeptide binding]; other site 640511013486 catalytic residue [active] 640511013487 Autoinducer binding domain; Region: Autoind_bind; pfam03472 640511013488 LuxR family transcriptional regulatory, chaperone HchA-associated; Region: reg_near_HchA; TIGR03541 640511013489 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 640511013490 DNA binding residues [nucleotide binding] 640511013491 dimerization interface [polypeptide binding]; other site 640511013492 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 640511013493 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 640511013494 Transcriptional regulators [Transcription]; Region: FadR; COG2186 640511013495 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511013496 DNA-binding site [nucleotide binding]; DNA binding site 640511013497 FCD domain; Region: FCD; cl11656 640511013498 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 640511013499 Ligand Binding Site [chemical binding]; other site 640511013500 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 640511013501 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 640511013502 ligand binding site [chemical binding]; other site 640511013503 flexible hinge region; other site 640511013504 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 640511013505 putative switch regulator; other site 640511013506 non-specific DNA interactions [nucleotide binding]; other site 640511013507 DNA binding site [nucleotide binding] 640511013508 sequence specific DNA binding site [nucleotide binding]; other site 640511013509 putative cAMP binding site [chemical binding]; other site 640511013510 TIGR03440 family protein; Region: unchr_TIGR03440 640511013511 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 640511013512 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640511013513 Helix-turn-helix domains; Region: HTH; cl00088 640511013514 Isochorismatase family; Region: Isochorismatase; pfam00857 640511013515 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 640511013516 catalytic triad [active] 640511013517 conserved cis-peptide bond; other site 640511013518 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 640511013519 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511013520 active site 640511013521 phosphorylation site [posttranslational modification] 640511013522 intermolecular recognition site; other site 640511013523 dimerization interface [polypeptide binding]; other site 640511013524 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 640511013525 DNA binding residues [nucleotide binding] 640511013526 dimerization interface [polypeptide binding]; other site 640511013527 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511013528 active site 640511013529 phosphorylation site [posttranslational modification] 640511013530 intermolecular recognition site; other site 640511013531 dimerization interface [polypeptide binding]; other site 640511013532 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 640511013533 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 640511013534 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 640511013535 flagellar hook-basal body protein; Region: FlgEFG_subfam; TIGR03506 640511013536 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 640511013537 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 640511013538 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 640511013539 IS2 transposase TnpB; Reviewed; Region: PRK09409 640511013540 HTH-like domain; Region: HTH_21; pfam13276 640511013541 Integrase core domain; Region: rve; cl01316 640511013542 Integrase core domain; Region: rve_3; cl15866 640511013543 Helix-turn-helix domains; Region: HTH; cl00088 640511013544 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 640511013545 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511013546 Helix-turn-helix domains; Region: HTH; cl00088 640511013547 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 640511013548 putative effector binding pocket; other site 640511013549 dimerization interface [polypeptide binding]; other site 640511013550 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640511013551 classical (c) SDRs; Region: SDR_c; cd05233 640511013552 NAD(P) binding site [chemical binding]; other site 640511013553 active site 640511013554 transcriptional regulator; Provisional; Region: PRK10632 640511013555 Helix-turn-helix domains; Region: HTH; cl00088 640511013556 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 640511013557 putative effector binding pocket; other site 640511013558 dimerization interface [polypeptide binding]; other site 640511013559 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 640511013560 Catalytic domain of Protein Kinases; Region: PKc; cd00180 640511013561 substrate binding site [chemical binding]; other site 640511013562 activation loop (A-loop); other site 640511013563 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511013564 Predicted ATPase [General function prediction only]; Region: COG3899 640511013565 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 640511013566 GAF domain; Region: GAF; cl15785 640511013567 PAS domain S-box; Region: sensory_box; TIGR00229 640511013568 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 640511013569 putative active site [active] 640511013570 heme pocket [chemical binding]; other site 640511013571 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 640511013572 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511013573 ATP binding site [chemical binding]; other site 640511013574 Mg2+ binding site [ion binding]; other site 640511013575 G-X-G motif; other site 640511013576 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 640511013577 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 640511013578 tetramer interface [polypeptide binding]; other site 640511013579 heme binding pocket [chemical binding]; other site 640511013580 NADPH binding site [chemical binding]; other site 640511013581 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511013582 Helix-turn-helix domains; Region: HTH; cl00088 640511013583 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 640511013584 dimerization interface [polypeptide binding]; other site 640511013585 Cupin domain; Region: Cupin_2; cl09118 640511013586 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 640511013587 Cytochrome c; Region: Cytochrom_C; cl11414 640511013588 Cytochrome c; Region: Cytochrom_C; cl11414 640511013589 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 640511013590 Putative D-pathway homolog; other site 640511013591 Low-spin heme binding site [chemical binding]; other site 640511013592 Subunit I/II interface [polypeptide binding]; other site 640511013593 Putative Q-pathway; other site 640511013594 Putative alternate electron transfer pathway; other site 640511013595 Putative water exit pathway; other site 640511013596 Binuclear center (active site) [active] 640511013597 Putative K-pathway homolog; other site 640511013598 Putative proton exit pathway; other site 640511013599 Subunit I/IIa interface [polypeptide binding]; other site 640511013600 Electron transfer pathway; other site 640511013601 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 640511013602 Cytochrome c; Region: Cytochrom_C; cl11414 640511013603 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640511013604 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640511013605 Cytochrome c; Region: Cytochrom_C; cl11414 640511013606 Cytochrome c; Region: Cytochrom_C; cl11414 640511013607 Cytochrome c; Region: Cytochrom_C; cl11414 640511013608 Isochorismatase family; Region: Isochorismatase; pfam00857 640511013609 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 640511013610 catalytic triad [active] 640511013611 conserved cis-peptide bond; other site 640511013612 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 640511013613 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511013614 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 640511013615 putative effector binding pocket; other site 640511013616 dimerization interface [polypeptide binding]; other site 640511013617 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 640511013618 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511013619 DNA-binding site [nucleotide binding]; DNA binding site 640511013620 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 640511013621 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511013622 homodimer interface [polypeptide binding]; other site 640511013623 catalytic residue [active] 640511013624 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 640511013625 classical (c) SDRs; Region: SDR_c; cd05233 640511013626 NAD(P) binding site [chemical binding]; other site 640511013627 active site 640511013628 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 640511013629 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511013630 active site 640511013631 phosphorylation site [posttranslational modification] 640511013632 intermolecular recognition site; other site 640511013633 dimerization interface [polypeptide binding]; other site 640511013634 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 640511013635 DNA binding residues [nucleotide binding] 640511013636 dimerization interface [polypeptide binding]; other site 640511013637 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511013638 Response regulator receiver domain; Region: Response_reg; pfam00072 640511013639 active site 640511013640 phosphorylation site [posttranslational modification] 640511013641 intermolecular recognition site; other site 640511013642 dimerization interface [polypeptide binding]; other site 640511013643 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 640511013644 substrate binding site [chemical binding]; other site 640511013645 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 640511013646 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 640511013647 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 640511013648 MEKHLA domain; Region: MEKHLA; pfam08670 640511013649 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511013650 NADH(P)-binding; Region: NAD_binding_10; pfam13460 640511013651 NAD(P) binding site [chemical binding]; other site 640511013652 active site 640511013653 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 640511013654 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640511013655 metal binding site [ion binding]; metal-binding site 640511013656 active site 640511013657 I-site; other site 640511013658 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 640511013659 CHRD domain; Region: CHRD; cl06473 640511013660 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640511013661 metal binding site [ion binding]; metal-binding site 640511013662 active site 640511013663 I-site; other site 640511013664 Dehydratase family; Region: ILVD_EDD; cl00340 640511013665 leucine ABC transporter subunit substrate-binding protein LivK; Provisional; Region: PRK15404 640511013666 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 640511013667 dimerization interface [polypeptide binding]; other site 640511013668 ligand binding site [chemical binding]; other site 640511013669 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 640511013670 nudix motif; other site 640511013671 LysE type translocator; Region: LysE; cl00565 640511013672 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 640511013673 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 640511013674 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640511013675 ligand binding site [chemical binding]; other site 640511013676 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 640511013677 Protein kinase; unclassified specificity; Region: STYKc; smart00221 640511013678 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 640511013679 active site 640511013680 ATP binding site [chemical binding]; other site 640511013681 substrate binding site [chemical binding]; other site 640511013682 activation loop (A-loop); other site 640511013683 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 640511013684 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 640511013685 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 640511013686 DNA binding site [nucleotide binding] 640511013687 active site 640511013688 allantoate amidohydrolase; Reviewed; Region: PRK12893 640511013689 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 640511013690 active site 640511013691 metal binding site [ion binding]; metal-binding site 640511013692 dimer interface [polypeptide binding]; other site 640511013693 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 640511013694 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511013695 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 640511013696 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 640511013697 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 640511013698 dimerization interface [polypeptide binding]; other site 640511013699 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 640511013700 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640511013701 dimer interface [polypeptide binding]; other site 640511013702 putative CheW interface [polypeptide binding]; other site 640511013703 Helix-turn-helix domains; Region: HTH; cl00088 640511013704 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640511013705 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 640511013706 trimer interface [polypeptide binding]; other site 640511013707 eyelet of channel; other site 640511013708 NMT1-like family; Region: NMT1_2; cl15260 640511013709 putative transporter; Provisional; Region: PRK10504 640511013710 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511013711 putative substrate translocation pore; other site 640511013712 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 640511013713 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511013714 G2 box; other site 640511013715 Switch I region; other site 640511013716 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640511013717 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 640511013718 trimer interface [polypeptide binding]; other site 640511013719 eyelet of channel; other site 640511013720 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 640511013721 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 640511013722 active site 640511013723 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511013724 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640511013725 putative substrate translocation pore; other site 640511013726 hypothetical protein; Validated; Region: PRK07121 640511013727 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 640511013728 iron-sulfur cluster [ion binding]; other site 640511013729 [2Fe-2S] cluster binding site [ion binding]; other site 640511013730 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 640511013731 alpha subunit interface [polypeptide binding]; other site 640511013732 active site 640511013733 substrate binding site [chemical binding]; other site 640511013734 Fe binding site [ion binding]; other site 640511013735 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 640511013736 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 640511013737 active site 640511013738 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 640511013739 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 640511013740 NAD(P) binding site [chemical binding]; other site 640511013741 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 640511013742 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 640511013743 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 640511013744 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 640511013745 alpha subunit interface [polypeptide binding]; other site 640511013746 active site 640511013747 substrate binding site [chemical binding]; other site 640511013748 Fe binding site [ion binding]; other site 640511013749 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 640511013750 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640511013751 active site 640511013752 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 640511013753 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 640511013754 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 640511013755 FMN-binding pocket [chemical binding]; other site 640511013756 flavin binding motif; other site 640511013757 phosphate binding motif [ion binding]; other site 640511013758 beta-alpha-beta structure motif; other site 640511013759 NAD binding pocket [chemical binding]; other site 640511013760 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 640511013761 catalytic loop [active] 640511013762 iron binding site [ion binding]; other site 640511013763 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 640511013764 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 640511013765 putative active site [active] 640511013766 putative Fe(II) binding site [ion binding]; other site 640511013767 putative dimer interface [polypeptide binding]; other site 640511013768 putative tetramer interface [polypeptide binding]; other site 640511013769 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 640511013770 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 640511013771 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 640511013772 Flavin Reductases; Region: FlaRed; cl00801 640511013773 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 640511013774 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511013775 DNA-binding site [nucleotide binding]; DNA binding site 640511013776 FCD domain; Region: FCD; cl11656 640511013777 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 640511013778 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 640511013779 trimer interface [polypeptide binding]; other site 640511013780 eyelet of channel; other site 640511013781 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511013782 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640511013783 putative substrate translocation pore; other site 640511013784 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511013785 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 640511013786 PPIC-type PPIASE domain; Region: Rotamase; cl08278 640511013787 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 640511013788 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 640511013789 Fibronectin type III-like domain; Region: Fn3-like; cl15273 640511013790 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 640511013791 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 640511013792 active site 640511013793 tetramer interface [polypeptide binding]; other site 640511013794 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511013795 D-galactonate transporter; Region: 2A0114; TIGR00893 640511013796 putative substrate translocation pore; other site 640511013797 Transcriptional regulators [Transcription]; Region: FadR; COG2186 640511013798 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511013799 DNA-binding site [nucleotide binding]; DNA binding site 640511013800 FCD domain; Region: FCD; cl11656 640511013801 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 640511013802 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511013803 D-galactonate transporter; Region: 2A0114; TIGR00893 640511013804 putative substrate translocation pore; other site 640511013805 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640511013806 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 640511013807 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 640511013808 dimerization interface [polypeptide binding]; other site 640511013809 ligand binding site [chemical binding]; other site 640511013810 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 640511013811 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 640511013812 putative 3-hydroxyphenylpropionic transporter MhpT; Provisional; Region: PRK11551 640511013813 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511013814 putative substrate translocation pore; other site 640511013815 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 640511013816 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 640511013817 active site 640511013818 catalytic residues [active] 640511013819 metal binding site [ion binding]; metal-binding site 640511013820 DmpG-like communication domain; Region: DmpG_comm; pfam07836 640511013821 acetaldehyde dehydrogenase; Validated; Region: PRK08300 640511013822 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511013823 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 640511013824 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 640511013825 Subunit B of Class III Extradiol ring-cleavage dioxygenases; Region: Extradiol_Dioxygenase_3B_like; cl00599 640511013826 active site 640511013827 metal binding site [ion binding]; metal-binding site 640511013828 3-(3-hydroxyphenyl)propionate hydroxylase; Validated; Region: mhpA; PRK06183 640511013829 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511013830 DNA-binding transcriptional activator MhpR; Provisional; Region: PRK09834 640511013831 Helix-turn-helix domains; Region: HTH; cl00088 640511013832 Bacterial transcriptional regulator; Region: IclR; pfam01614 640511013833 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 640511013834 NMT1-like family; Region: NMT1_2; cl15260 640511013835 NMT1/THI5 like; Region: NMT1; pfam09084 640511013836 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 640511013837 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 640511013838 dimer interface [polypeptide binding]; other site 640511013839 phosphorylation site [posttranslational modification] 640511013840 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511013841 ATP binding site [chemical binding]; other site 640511013842 Mg2+ binding site [ion binding]; other site 640511013843 G-X-G motif; other site 640511013844 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 640511013845 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511013846 active site 640511013847 phosphorylation site [posttranslational modification] 640511013848 intermolecular recognition site; other site 640511013849 dimerization interface [polypeptide binding]; other site 640511013850 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 640511013851 DNA binding site [nucleotide binding] 640511013852 NMT1-like family; Region: NMT1_2; cl15260 640511013853 NMT1/THI5 like; Region: NMT1; pfam09084 640511013854 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 640511013855 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 640511013856 Walker A/P-loop; other site 640511013857 ATP binding site [chemical binding]; other site 640511013858 Q-loop/lid; other site 640511013859 ABC transporter signature motif; other site 640511013860 Walker B; other site 640511013861 D-loop; other site 640511013862 H-loop/switch region; other site 640511013863 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 640511013864 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 640511013865 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 640511013866 binding surface 640511013867 TPR motif; other site 640511013868 TPR repeat; Region: TPR_11; pfam13414 640511013869 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 640511013870 binding surface 640511013871 TPR motif; other site 640511013872 Tetratricopeptide repeat; Region: TPR_16; pfam13432 640511013873 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 640511013874 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 640511013875 Phosphoesterase family; Region: Phosphoesterase; cl15450 640511013876 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640511013877 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 640511013878 active site lid residues [active] 640511013879 substrate binding pocket [chemical binding]; other site 640511013880 catalytic residues [active] 640511013881 substrate-Mg2+ binding site; other site 640511013882 aspartate-rich region 1; other site 640511013883 aspartate-rich region 2; other site 640511013884 circadian clock protein KaiC; Reviewed; Region: PRK09302 640511013885 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511013886 ATP binding site [chemical binding]; other site 640511013887 Walker A motif; other site 640511013888 Walker B motif; other site 640511013889 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511013890 Walker A motif; other site 640511013891 ATP binding site [chemical binding]; other site 640511013892 Walker B motif; other site 640511013893 Response regulator receiver domain; Region: Response_reg; pfam00072 640511013894 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511013895 active site 640511013896 phosphorylation site [posttranslational modification] 640511013897 intermolecular recognition site; other site 640511013898 dimerization interface [polypeptide binding]; other site 640511013899 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes TehA protein; Region: TDT_TehA; cd09324 640511013900 gating phenylalanine in ion channel; other site 640511013901 Predicted membrane protein [Function unknown]; Region: COG3918 640511013902 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640511013903 Helix-turn-helix domains; Region: HTH; cl00088 640511013904 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 640511013905 putative dimerization interface [polypeptide binding]; other site 640511013906 putative substrate binding pocket [chemical binding]; other site 640511013907 Lecithin retinol acyltransferase; Region: LRAT; pfam04970 640511013908 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 640511013909 Protein phosphatase 2C; Region: PP2C; pfam00481 640511013910 active site 640511013911 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 640511013912 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 640511013913 Walker A motif; other site 640511013914 ATP binding site [chemical binding]; other site 640511013915 Walker B motif; other site 640511013916 arginine finger; other site 640511013917 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 640511013918 ligand binding site [chemical binding]; other site 640511013919 flexible hinge region; other site 640511013920 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 640511013921 ligand binding site [chemical binding]; other site 640511013922 flexible hinge region; other site 640511013923 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 640511013924 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins; Region: Peptidase_C39B; cd02418 640511013925 putative active site [active] 640511013926 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 640511013927 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511013928 Walker A/P-loop; other site 640511013929 ATP binding site [chemical binding]; other site 640511013930 Q-loop/lid; other site 640511013931 ABC transporter signature motif; other site 640511013932 Walker B; other site 640511013933 D-loop; other site 640511013934 H-loop/switch region; other site 640511013935 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 640511013936 PPIC-type PPIASE domain; Region: Rotamase; cl08278 640511013937 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 640511013938 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 640511013939 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 640511013940 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 640511013941 phosphopeptide binding site; other site 640511013942 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 640511013943 phosphopeptide binding site; other site 640511013944 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640511013945 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 640511013946 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 640511013947 Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide...; Region: CASc; cl00042 640511013948 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 640511013949 Catalytic domain of Protein Kinases; Region: PKc; cd00180 640511013950 active site 640511013951 ATP binding site [chemical binding]; other site 640511013952 substrate binding site [chemical binding]; other site 640511013953 activation loop (A-loop); other site 640511013954 Domain of unknown function (DUF4384); Region: DUF4384; pfam14326 640511013955 Protein of unknown function (DUF3309); Region: DUF3309; pfam11752 640511013956 glucose-1-dehydrogenase; Provisional; Region: PRK08936 640511013957 glucose 1 dehydrogenase (GlcDH), classical (c) SDRs; Region: GlcDH_SDR_c; cd05358 640511013958 NAD binding site [chemical binding]; other site 640511013959 homodimer interface [polypeptide binding]; other site 640511013960 active site 640511013961 LysE type translocator; Region: LysE; cl00565 640511013962 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 640511013963 Helix-turn-helix domains; Region: HTH; cl00088 640511013964 AsnC family; Region: AsnC_trans_reg; pfam01037 640511013965 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640511013966 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 640511013967 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640511013968 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640511013969 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 640511013970 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 640511013971 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 640511013972 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 640511013973 catalytic residues [active] 640511013974 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 640511013975 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 640511013976 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 640511013977 active site 640511013978 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 640511013979 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 640511013980 Fibronectin type III-like domain; Region: Fn3-like; cl15273 640511013981 Peptidase family M23; Region: Peptidase_M23; pfam01551 640511013982 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 640511013983 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 640511013984 non-specific DNA binding site [nucleotide binding]; other site 640511013985 salt bridge; other site 640511013986 sequence-specific DNA binding site [nucleotide binding]; other site 640511013987 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640511013988 Coenzyme A binding pocket [chemical binding]; other site 640511013989 Helix-turn-helix domains; Region: HTH; cl00088 640511013990 transcriptional regulator SlyA; Provisional; Region: PRK03573 640511013991 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 640511013992 Predicted membrane protein [Function unknown]; Region: COG2860 640511013993 UPF0126 domain; Region: UPF0126; pfam03458 640511013994 UPF0126 domain; Region: UPF0126; pfam03458 640511013995 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 640511013996 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 640511013997 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 640511013998 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 640511013999 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 640511014000 ATP binding site [chemical binding]; other site 640511014001 Walker A motif; other site 640511014002 hexamer interface [polypeptide binding]; other site 640511014003 Walker B motif; other site 640511014004 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 640511014005 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 640511014006 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 640511014007 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 640511014008 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 640511014009 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 640511014010 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 640511014011 Flp/Fap pilin component; Region: Flp_Fap; cl01585 640511014012 Flp/Fap pilin component; Region: Flp_Fap; cl01585 640511014013 Protein of unknown function (DUF2029); Region: DUF2029; cl09812 640511014014 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 640511014015 Ligand binding site; other site 640511014016 Putative Catalytic site; other site 640511014017 DXD motif; other site 640511014018 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 640511014019 S-adenosylmethionine binding site [chemical binding]; other site 640511014020 GtrA-like protein; Region: GtrA; cl00971 640511014021 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 640511014022 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 640511014023 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 640511014024 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 640511014025 putative active site [active] 640511014026 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 640511014027 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 640511014028 Walker A/P-loop; other site 640511014029 ATP binding site [chemical binding]; other site 640511014030 Q-loop/lid; other site 640511014031 ABC transporter signature motif; other site 640511014032 Walker B; other site 640511014033 D-loop; other site 640511014034 H-loop/switch region; other site 640511014035 TOBE domain; Region: TOBE_2; cl01440 640511014036 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640511014037 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511014038 NAD(P) binding site [chemical binding]; other site 640511014039 active site 640511014040 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 640511014041 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 640511014042 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 640511014043 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 640511014044 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511014045 dimer interface [polypeptide binding]; other site 640511014046 conserved gate region; other site 640511014047 putative PBP binding loops; other site 640511014048 ABC-ATPase subunit interface; other site 640511014049 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 640511014050 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511014051 dimer interface [polypeptide binding]; other site 640511014052 conserved gate region; other site 640511014053 putative PBP binding loops; other site 640511014054 ABC-ATPase subunit interface; other site 640511014055 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 640511014056 Predicted amidohydrolase [General function prediction only]; Region: COG0388 640511014057 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 640511014058 active site 640511014059 catalytic triad [active] 640511014060 dimer interface [polypeptide binding]; other site 640511014061 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 640511014062 Helix-turn-helix domains; Region: HTH; cl00088 640511014063 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 640511014064 dimerization interface [polypeptide binding]; other site 640511014065 substrate binding pocket [chemical binding]; other site 640511014066 Uncharacterized conserved protein [Function unknown]; Region: COG3391 640511014067 NHL repeat; Region: NHL; pfam01436 640511014068 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640511014069 metal binding site [ion binding]; metal-binding site 640511014070 active site 640511014071 I-site; other site 640511014072 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 640511014073 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 640511014074 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640511014075 putative ligand binding site [chemical binding]; other site 640511014076 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 640511014077 TM-ABC transporter signature motif; other site 640511014078 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 640511014079 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 640511014080 Walker A/P-loop; other site 640511014081 ATP binding site [chemical binding]; other site 640511014082 Q-loop/lid; other site 640511014083 ABC transporter signature motif; other site 640511014084 Walker B; other site 640511014085 D-loop; other site 640511014086 H-loop/switch region; other site 640511014087 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 640511014088 Transcriptional regulators [Transcription]; Region: GntR; COG1802 640511014089 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511014090 DNA-binding site [nucleotide binding]; DNA binding site 640511014091 FCD domain; Region: FCD; cl11656 640511014092 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 640511014093 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 640511014094 putative active site pocket [active] 640511014095 metal binding site [ion binding]; metal-binding site 640511014096 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640511014097 Helix-turn-helix domains; Region: HTH; cl00088 640511014098 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 640511014099 dimerization interface [polypeptide binding]; other site 640511014100 substrate binding pocket [chemical binding]; other site 640511014101 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 640511014102 homotrimer interaction site [polypeptide binding]; other site 640511014103 putative active site [active] 640511014104 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 640511014105 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 640511014106 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640511014107 catalytic residue [active] 640511014108 D-cysteine desulfhydrase; Validated; Region: PRK03910 640511014109 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 640511014110 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640511014111 catalytic residue [active] 640511014112 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; cl09173 640511014113 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 640511014114 Predicted membrane protein (DUF2231); Region: DUF2231; cl01730 640511014115 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 640511014116 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 640511014117 cytochrome c oxidase subunit I; Validated; Region: COX1; MTH00007 640511014118 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 640511014119 D-pathway; other site 640511014120 Putative ubiquinol binding site [chemical binding]; other site 640511014121 Low-spin heme (heme b) binding site [chemical binding]; other site 640511014122 Putative water exit pathway; other site 640511014123 Binuclear center (heme o3/CuB) [ion binding]; other site 640511014124 K-pathway; other site 640511014125 Putative proton exit pathway; other site 640511014126 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]; Region: COG4700 640511014127 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 640511014128 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511014129 metabolite-proton symporter; Region: 2A0106; TIGR00883 640511014130 putative substrate translocation pore; other site 640511014131 esterase, PHB depolymerase family; Region: esterase_phb; TIGR01840 640511014132 esterase, PHB depolymerase family; Region: esterase_phb; TIGR01840 640511014133 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 640511014134 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 640511014135 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511014136 putative PBP binding loops; other site 640511014137 dimer interface [polypeptide binding]; other site 640511014138 ABC-ATPase subunit interface; other site 640511014139 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640511014140 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511014141 dimer interface [polypeptide binding]; other site 640511014142 conserved gate region; other site 640511014143 putative PBP binding loops; other site 640511014144 ABC-ATPase subunit interface; other site 640511014145 ectoine/hydroxyectoine ABC transporter solute-binding protein; Region: ectoine_ehuB; TIGR02995 640511014146 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 640511014147 substrate binding pocket [chemical binding]; other site 640511014148 membrane-bound complex binding site; other site 640511014149 hinge residues; other site 640511014150 ectoine/hydroxyectoine ABC transporter, ATP-binding protein; Region: ectoine_ehuA; TIGR03005 640511014151 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 640511014152 Walker A/P-loop; other site 640511014153 ATP binding site [chemical binding]; other site 640511014154 Q-loop/lid; other site 640511014155 ABC transporter signature motif; other site 640511014156 Walker B; other site 640511014157 D-loop; other site 640511014158 H-loop/switch region; other site 640511014159 ectoine utilization protein EutD; Region: ectoine_eutD; TIGR02993 640511014160 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 640511014161 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 640511014162 active site 640511014163 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR9; cd08274 640511014164 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 640511014165 putative NAD(P) binding site [chemical binding]; other site 640511014166 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 640511014167 catalytic residue [active] 640511014168 hypothetical protein; Provisional; Region: PRK07482 640511014169 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 640511014170 inhibitor-cofactor binding pocket; inhibition site 640511014171 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511014172 catalytic residue [active] 640511014173 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 640511014174 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640511014175 tetramerization interface [polypeptide binding]; other site 640511014176 NAD(P) binding site [chemical binding]; other site 640511014177 catalytic residues [active] 640511014178 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 640511014179 Helix-turn-helix domains; Region: HTH; cl00088 640511014180 AsnC family; Region: AsnC_trans_reg; pfam01037 640511014181 ectoine utilization protein EutE; Region: ectoine_eutE; TIGR02994 640511014182 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_2; cd06252 640511014183 putative active site [active] 640511014184 Zn binding site [ion binding]; other site 640511014185 ectoine utilization protein EutC; Validated; Region: PRK08291 640511014186 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511014187 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 640511014188 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 640511014189 tetramer interface [polypeptide binding]; other site 640511014190 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511014191 catalytic residue [active] 640511014192 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511014193 DNA-binding site [nucleotide binding]; DNA binding site 640511014194 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 640511014195 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 640511014196 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511014197 homodimer interface [polypeptide binding]; other site 640511014198 catalytic residue [active] 640511014199 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 640511014200 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 640511014201 Chromate transporter; Region: Chromate_transp; pfam02417 640511014202 Chromate transporter; Region: Chromate_transp; pfam02417 640511014203 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640511014204 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 640511014205 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 640511014206 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 640511014207 Protein export membrane protein; Region: SecD_SecF; cl14618 640511014208 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 640511014209 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 640511014210 prolyl 4-hydroxylase; Provisional; Region: PLN00052 640511014211 Response regulator receiver domain; Region: Response_reg; pfam00072 640511014212 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511014213 active site 640511014214 phosphorylation site [posttranslational modification] 640511014215 intermolecular recognition site; other site 640511014216 dimerization interface [polypeptide binding]; other site 640511014217 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511014218 active site 640511014219 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640511014220 phosphorylation site [posttranslational modification] 640511014221 intermolecular recognition site; other site 640511014222 dimerization interface [polypeptide binding]; other site 640511014223 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 640511014224 dimer interface [polypeptide binding]; other site 640511014225 phosphorylation site [posttranslational modification] 640511014226 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511014227 ATP binding site [chemical binding]; other site 640511014228 G-X-G motif; other site 640511014229 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 640511014230 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 640511014231 dimer interface [polypeptide binding]; other site 640511014232 phosphorylation site [posttranslational modification] 640511014233 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511014234 ATP binding site [chemical binding]; other site 640511014235 Mg2+ binding site [ion binding]; other site 640511014236 G-X-G motif; other site 640511014237 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 640511014238 Protein of unknown function (DUF2000); Region: DUF2000; cl02074 640511014239 Cupin domain; Region: Cupin_2; cl09118 640511014240 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511014241 Helix-turn-helix domain; Region: HTH_18; pfam12833 640511014242 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511014243 Isochorismatase family; Region: Isochorismatase; pfam00857 640511014244 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 640511014245 catalytic triad [active] 640511014246 conserved cis-peptide bond; other site 640511014247 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 640511014248 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 640511014249 active site 640511014250 catalytic tetrad [active] 640511014251 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511014252 putative substrate translocation pore; other site 640511014253 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511014254 hypothetical protein; Provisional; Region: PRK05939 640511014255 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 640511014256 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640511014257 catalytic residue [active] 640511014258 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 640511014259 nudix motif; other site 640511014260 CHAD domain; Region: CHAD; cl10506 640511014261 Helix-turn-helix domains; Region: HTH; cl00088 640511014262 putative DNA binding site [nucleotide binding]; other site 640511014263 putative Zn2+ binding site [ion binding]; other site 640511014264 OpgC protein; Region: OpgC_C; cl00792 640511014265 short chain dehydrogenase; Provisional; Region: PRK12939 640511014266 classical (c) SDRs; Region: SDR_c; cd05233 640511014267 NAD(P) binding site [chemical binding]; other site 640511014268 active site 640511014269 Domain of unknown function DUF302; Region: DUF302; cl01364 640511014270 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 640511014271 putative heme binding pocket [chemical binding]; other site 640511014272 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511014273 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640511014274 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511014275 autotransport protein MisL; Provisional; Region: PRK15313 640511014276 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 640511014277 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 640511014278 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511014279 Helix-turn-helix domains; Region: HTH; cl00088 640511014280 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 640511014281 dimerization interface [polypeptide binding]; other site 640511014282 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 640511014283 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 640511014284 NADP binding site [chemical binding]; other site 640511014285 dimer interface [polypeptide binding]; other site 640511014286 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 640511014287 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 640511014288 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 640511014289 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 640511014290 DNA binding site [nucleotide binding] 640511014291 Predicted ATPase [General function prediction only]; Region: COG3903 640511014292 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 640511014293 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 640511014294 DoxX; Region: DoxX; cl00976 640511014295 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 640511014296 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 640511014297 active site 640511014298 Protein of unknown function (DUF1427); Region: DUF1427; cl01771 640511014299 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 640511014300 Isochorismatase family; Region: Isochorismatase; pfam00857 640511014301 catalytic triad [active] 640511014302 dimer interface [polypeptide binding]; other site 640511014303 conserved cis-peptide bond; other site 640511014304 Protein of unknown function (DUF1427); Region: DUF1427; cl01771 640511014305 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 640511014306 Cupin domain; Region: Cupin_2; cl09118 640511014307 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 640511014308 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 640511014309 ligand binding site [chemical binding]; other site 640511014310 flexible hinge region; other site 640511014311 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 640511014312 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640511014313 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511014314 Helix-turn-helix domains; Region: HTH; cl00088 640511014315 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 640511014316 dimerization interface [polypeptide binding]; other site 640511014317 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 640511014318 DNA binding site [nucleotide binding] 640511014319 Predicted ATPase [General function prediction only]; Region: COG3903 640511014320 TOMM system kinase/cyclase fusion protein; Region: TOMM_kin_cyc; TIGR03903 640511014321 Cupin domain; Region: Cupin_2; cl09118 640511014322 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640511014323 Helix-turn-helix domains; Region: HTH; cl00088 640511014324 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 640511014325 putative effector binding pocket; other site 640511014326 dimerization interface [polypeptide binding]; other site 640511014327 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640511014328 classical (c) SDRs; Region: SDR_c; cd05233 640511014329 NAD(P) binding site [chemical binding]; other site 640511014330 active site 640511014331 Pirin-related protein [General function prediction only]; Region: COG1741 640511014332 Cupin domain; Region: Cupin_2; cl09118 640511014333 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 640511014334 ATP-grasp domain; Region: ATP-grasp_4; cl03087 640511014335 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 640511014336 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 640511014337 S-adenosylmethionine binding site [chemical binding]; other site 640511014338 ferredoxin; Validated; Region: PRK07118 640511014339 RNA polymerase sigma factor; Provisional; Region: PRK11924 640511014340 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640511014341 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 640511014342 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 640511014343 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 640511014344 substrate binding pocket [chemical binding]; other site 640511014345 membrane-bound complex binding site; other site 640511014346 hinge residues; other site 640511014347 TIGR03118 family protein; Region: PEPCTERM_chp_1 640511014348 salicylate hydroxylase; Provisional; Region: PRK06475 640511014349 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511014350 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511014351 Helix-turn-helix domains; Region: HTH; cl00088 640511014352 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 640511014353 substrate binding pocket [chemical binding]; other site 640511014354 dimerization interface [polypeptide binding]; other site 640511014355 EamA-like transporter family; Region: EamA; cl01037 640511014356 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 640511014357 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 640511014358 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 640511014359 active site residue [active] 640511014360 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 640511014361 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 640511014362 dimer interface [polypeptide binding]; other site 640511014363 decamer (pentamer of dimers) interface [polypeptide binding]; other site 640511014364 catalytic triad [active] 640511014365 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 640511014366 active site 640511014367 tetramer interface; other site 640511014368 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 640511014369 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 640511014370 dimer interface [polypeptide binding]; other site 640511014371 active site 640511014372 heme binding site [chemical binding]; other site 640511014373 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 640511014374 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 640511014375 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 640511014376 active site 640511014377 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 640511014378 Isochorismatase family; Region: Isochorismatase; pfam00857 640511014379 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 640511014380 catalytic triad [active] 640511014381 dimer interface [polypeptide binding]; other site 640511014382 conserved cis-peptide bond; other site 640511014383 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 640511014384 DNA binding site [nucleotide binding] 640511014385 Predicted ATPase [General function prediction only]; Region: COG3903 640511014386 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640511014387 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511014388 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640511014389 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511014390 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 640511014391 DNA binding site [nucleotide binding] 640511014392 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511014393 Predicted ATPase [General function prediction only]; Region: COG3903 640511014394 Response regulator receiver domain; Region: Response_reg; pfam00072 640511014395 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511014396 active site 640511014397 phosphorylation site [posttranslational modification] 640511014398 intermolecular recognition site; other site 640511014399 dimerization interface [polypeptide binding]; other site 640511014400 response regulator FixJ; Provisional; Region: fixJ; PRK09390 640511014401 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511014402 active site 640511014403 phosphorylation site [posttranslational modification] 640511014404 intermolecular recognition site; other site 640511014405 dimerization interface [polypeptide binding]; other site 640511014406 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 640511014407 DNA binding residues [nucleotide binding] 640511014408 dimerization interface [polypeptide binding]; other site 640511014409 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 640511014410 substrate binding site [chemical binding]; other site 640511014411 activation loop (A-loop); other site 640511014412 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511014413 Predicted ATPase [General function prediction only]; Region: COG3899 640511014414 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 640511014415 GAF domain; Region: GAF; cl15785 640511014416 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 640511014417 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640511014418 putative active site [active] 640511014419 heme pocket [chemical binding]; other site 640511014420 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 640511014421 dimer interface [polypeptide binding]; other site 640511014422 phosphorylation site [posttranslational modification] 640511014423 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511014424 ATP binding site [chemical binding]; other site 640511014425 Mg2+ binding site [ion binding]; other site 640511014426 G-X-G motif; other site 640511014427 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 640511014428 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 640511014429 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 640511014430 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640511014431 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 640511014432 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 640511014433 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 640511014434 Protein of unknown function (DUF1427); Region: DUF1427; cl01771 640511014435 DoxX; Region: DoxX; cl00976 640511014436 Isochorismatase family; Region: Isochorismatase; pfam00857 640511014437 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 640511014438 catalytic triad [active] 640511014439 dimer interface [polypeptide binding]; other site 640511014440 conserved cis-peptide bond; other site 640511014441 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 640511014442 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 640511014443 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 640511014444 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511014445 Helix-turn-helix domains; Region: HTH; cl00088 640511014446 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 640511014447 putative effector binding pocket; other site 640511014448 dimerization interface [polypeptide binding]; other site 640511014449 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 640511014450 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511014451 putative substrate translocation pore; other site 640511014452 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 640511014453 GAF domain; Region: GAF; cl15785 640511014454 PAS domain S-box; Region: sensory_box; TIGR00229 640511014455 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 640511014456 putative active site [active] 640511014457 heme pocket [chemical binding]; other site 640511014458 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 640511014459 dimer interface [polypeptide binding]; other site 640511014460 phosphorylation site [posttranslational modification] 640511014461 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 640511014462 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511014463 ATP binding site [chemical binding]; other site 640511014464 G-X-G motif; other site 640511014465 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 640511014466 substrate binding pocket [chemical binding]; other site 640511014467 membrane-bound complex binding site; other site 640511014468 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 640511014469 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 640511014470 Moco binding site; other site 640511014471 metal coordination site [ion binding]; other site 640511014472 salicylyl-CoA 5-hydroxylase; Reviewed; Region: PRK08255 640511014473 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511014474 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511014475 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 640511014476 active site 640511014477 FMN binding site [chemical binding]; other site 640511014478 substrate binding site [chemical binding]; other site 640511014479 homotetramer interface [polypeptide binding]; other site 640511014480 catalytic residue [active] 640511014481 classical (c) SDRs; Region: SDR_c; cd05233 640511014482 NAD(P) binding site [chemical binding]; other site 640511014483 active site 640511014484 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640511014485 Helix-turn-helix domains; Region: HTH; cl00088 640511014486 enoyl-CoA hydratase; Provisional; Region: PRK06688 640511014487 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 640511014488 substrate binding site [chemical binding]; other site 640511014489 oxyanion hole (OAH) forming residues; other site 640511014490 trimer interface [polypeptide binding]; other site 640511014491 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 640511014492 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640511014493 active site 640511014494 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 640511014495 active site 640511014496 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 640511014497 homotrimer interaction site [polypeptide binding]; other site 640511014498 putative active site [active] 640511014499 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 640511014500 AMP-binding enzyme; Region: AMP-binding; cl15778 640511014501 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 640511014502 Dienelactone hydrolase family; Region: DLH; pfam01738 640511014503 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 640511014504 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 640511014505 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511014506 putative substrate translocation pore; other site 640511014507 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 640511014508 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511014509 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 640511014510 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511014511 metabolite-proton symporter; Region: 2A0106; TIGR00883 640511014512 putative substrate translocation pore; other site 640511014513 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 640511014514 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511014515 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 640511014516 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 640511014517 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640511014518 Coenzyme A binding pocket [chemical binding]; other site 640511014519 Flavin Reductases; Region: FlaRed; cl00801 640511014520 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 640511014521 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511014522 DNA-binding site [nucleotide binding]; DNA binding site 640511014523 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 640511014524 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511014525 homodimer interface [polypeptide binding]; other site 640511014526 catalytic residue [active] 640511014527 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 640511014528 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 640511014529 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640511014530 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 640511014531 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 640511014532 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 640511014533 multidrug efflux protein; Reviewed; Region: PRK09579 640511014534 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 640511014535 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 640511014536 putative NAD(P) binding site [chemical binding]; other site 640511014537 Domain of unknown function (DUF4337); Region: DUF4337; pfam14235 640511014538 LysE type translocator; Region: LysE; cl00565 640511014539 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 640511014540 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640511014541 YCII-related domain; Region: YCII; cl00999 640511014542 YCII-related domain; Region: YCII; cl00999 640511014543 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 640511014544 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 640511014545 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 640511014546 Dopa 4,5-dioxygenase family; Region: DOPA_dioxygen; cl01562 640511014547 High potential iron-sulfur protein; Region: HIPIP; pfam01355 640511014548 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 640511014549 putative FMN binding site [chemical binding]; other site 640511014550 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 640511014551 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 640511014552 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 640511014553 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 640511014554 N-terminal plug; other site 640511014555 ligand-binding site [chemical binding]; other site 640511014556 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 640511014557 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 640511014558 active site 640511014559 catalytic tetrad [active] 640511014560 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 640511014561 substrate binding site [chemical binding]; other site 640511014562 Domain of unknown function (DUF4285); Region: DUF4285; pfam14113 640511014563 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 640511014564 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 640511014565 glucose-6-phosphate 1-dehydrogenase; Provisional; Region: PRK12853 640511014566 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 640511014567 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 640511014568 Mannosyl oligosaccharide glucosidase; Region: Glyco_hydro_63; pfam03200 640511014569 glycogen debranching enzyme, archaeal type, putative; Region: gde_arch; TIGR01561 640511014570 Glycogen debranching enzyme N terminal; Region: GDE_N; pfam12439 640511014571 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 640511014572 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 640511014573 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 640511014574 inhibitor site; inhibition site 640511014575 active site 640511014576 dimer interface [polypeptide binding]; other site 640511014577 catalytic residue [active] 640511014578 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 640511014579 Predicted deacylase [General function prediction only]; Region: COG3608 640511014580 active site 640511014581 Zn binding site [ion binding]; other site 640511014582 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 640511014583 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 640511014584 substrate binding pocket [chemical binding]; other site 640511014585 membrane-bound complex binding site; other site 640511014586 hinge residues; other site 640511014587 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 640511014588 Helix-turn-helix domains; Region: HTH; cl00088 640511014589 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 640511014590 dimerization interface [polypeptide binding]; other site 640511014591 diaminopimelate decarboxylase; Provisional; Region: PRK11165 640511014592 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 640511014593 active site 640511014594 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 640511014595 substrate binding site [chemical binding]; other site 640511014596 catalytic residues [active] 640511014597 dimer interface [polypeptide binding]; other site 640511014598 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 640511014599 Helix-turn-helix domains; Region: HTH; cl00088 640511014600 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 640511014601 dimerization interface [polypeptide binding]; other site 640511014602 short chain dehydrogenase; Provisional; Region: PRK06180 640511014603 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 640511014604 NADP binding site [chemical binding]; other site 640511014605 active site 640511014606 steroid binding site; other site 640511014607 Rubredoxin; Region: Rubredoxin; pfam00301 640511014608 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 640511014609 iron binding site [ion binding]; other site 640511014610 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 640511014611 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 640511014612 iron-sulfur cluster [ion binding]; other site 640511014613 [2Fe-2S] cluster binding site [ion binding]; other site 640511014614 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 640511014615 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 640511014616 DXD motif; other site 640511014617 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 640511014618 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 640511014619 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640511014620 Helix-turn-helix domains; Region: HTH; cl00088 640511014621 glutathionine S-transferase; Provisional; Region: PRK10542 640511014622 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 640511014623 C-terminal domain interface [polypeptide binding]; other site 640511014624 GSH binding site (G-site) [chemical binding]; other site 640511014625 dimer interface [polypeptide binding]; other site 640511014626 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 640511014627 N-terminal domain interface [polypeptide binding]; other site 640511014628 dimer interface [polypeptide binding]; other site 640511014629 substrate binding pocket (H-site) [chemical binding]; other site 640511014630 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 640511014631 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511014632 putative substrate translocation pore; other site 640511014633 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511014634 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 640511014635 putative substrate translocation pore; other site 640511014636 short chain dehydrogenase; Provisional; Region: PRK07041 640511014637 classical (c) SDRs; Region: SDR_c; cd05233 640511014638 NAD(P) binding site [chemical binding]; other site 640511014639 active site 640511014640 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 640511014641 Helix-turn-helix domains; Region: HTH; cl00088 640511014642 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 640511014643 putative substrate binding pocket [chemical binding]; other site 640511014644 putative dimerization interface [polypeptide binding]; other site 640511014645 Protein of unknown function (DUF3224); Region: DUF3224; pfam11528 640511014646 Helix-turn-helix domains; Region: HTH; cl00088 640511014647 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 640511014648 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 640511014649 dimerization interface [polypeptide binding]; other site 640511014650 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 640511014651 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511014652 putative substrate translocation pore; other site 640511014653 Uncharacterized conserved protein [Function unknown]; Region: COG5476 640511014654 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 640511014655 MlrC C-terminus; Region: MlrC_C; pfam07171 640511014656 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640511014657 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511014658 D-galactonate transporter; Region: 2A0114; TIGR00893 640511014659 putative substrate translocation pore; other site 640511014660 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 640511014661 tartrate dehydrogenase; Provisional; Region: PRK08194 640511014662 Helix-turn-helix domains; Region: HTH; cl00088 640511014663 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 640511014664 putative effector binding pocket; other site 640511014665 putative dimerization interface [polypeptide binding]; other site 640511014666 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 640511014667 NMT1-like family; Region: NMT1_2; cl15260 640511014668 Protein of unknown function (DUF3562); Region: DUF3562; pfam12085 640511014669 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 640511014670 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640511014671 Coenzyme A binding pocket [chemical binding]; other site 640511014672 Phosphoesterase family; Region: Phosphoesterase; cl15450 640511014673 Phospholipase C [Cell envelope biogenesis, outer membrane]; Region: PlcC; COG3511 640511014674 Protein of unknown function (DUF3564); Region: DUF3564; pfam12087 640511014675 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 640511014676 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 640511014677 active site 640511014678 substrate binding site [chemical binding]; other site 640511014679 Mg2+ binding site [ion binding]; other site 640511014680 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 640511014681 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 640511014682 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 640511014683 Domain of unknown function (DUF1987); Region: DUF1987; pfam09345 640511014684 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640511014685 metal binding site [ion binding]; metal-binding site 640511014686 active site 640511014687 I-site; other site 640511014688 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640511014689 metal binding site [ion binding]; metal-binding site 640511014690 active site 640511014691 I-site; other site 640511014692 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 640511014693 Protein of unknown function (DUF962); Region: DUF962; cl01879 640511014694 Predicted permeases [General function prediction only]; Region: RarD; COG2962 640511014695 EamA-like transporter family; Region: EamA; cl01037 640511014696 probable methyltransferase; Region: TIGR03438 640511014697 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 640511014698 Acylphosphatase; Region: Acylphosphatase; cl00551 640511014699 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 640511014700 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 640511014701 putative NADP binding site [chemical binding]; other site 640511014702 putative substrate binding site [chemical binding]; other site 640511014703 active site 640511014704 hopene-associated glycosyltransferase HpnB; Region: HpnB; TIGR03469 640511014705 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 640511014706 active site 640511014707 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 640511014708 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 640511014709 substrate binding pocket [chemical binding]; other site 640511014710 substrate-Mg2+ binding site; other site 640511014711 aspartate-rich region 1; other site 640511014712 aspartate-rich region 2; other site 640511014713 LytB protein; Region: LYTB; cl00507 640511014714 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 640511014715 hopanoid biosynthesis associated radical SAM protein HpnH; Region: HpnH; TIGR03470 640511014716 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 640511014717 FeS/SAM binding site; other site 640511014718 Domain of unknown function (DUF3463); Region: DUF3463; pfam11946 640511014719 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 640511014720 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 640511014721 VacJ like lipoprotein; Region: VacJ; cl01073 640511014722 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 640511014723 Protein of unknown function (DUF3828); Region: DUF3828; pfam12883 640511014724 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 640511014725 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 640511014726 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 640511014727 Active site cavity [active] 640511014728 catalytic acid [active] 640511014729 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 640511014730 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511014731 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 640511014732 active site lid residues [active] 640511014733 substrate binding pocket [chemical binding]; other site 640511014734 catalytic residues [active] 640511014735 substrate-Mg2+ binding site; other site 640511014736 aspartate-rich region 1; other site 640511014737 aspartate-rich region 2; other site 640511014738 PAS fold; Region: PAS; pfam00989 640511014739 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 640511014740 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640511014741 metal binding site [ion binding]; metal-binding site 640511014742 active site 640511014743 I-site; other site 640511014744 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 640511014745 Chemotaxis phosphatase CheX; Region: CheX; cl15816 640511014746 Response regulator receiver domain; Region: Response_reg; pfam00072 640511014747 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511014748 active site 640511014749 phosphorylation site [posttranslational modification] 640511014750 intermolecular recognition site; other site 640511014751 dimerization interface [polypeptide binding]; other site 640511014752 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640511014753 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511014754 ATP binding site [chemical binding]; other site 640511014755 Mg2+ binding site [ion binding]; other site 640511014756 G-X-G motif; other site 640511014757 Response regulator receiver domain; Region: Response_reg; pfam00072 640511014758 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511014759 active site 640511014760 phosphorylation site [posttranslational modification] 640511014761 intermolecular recognition site; other site 640511014762 dimerization interface [polypeptide binding]; other site 640511014763 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 640511014764 RNA polymerase sigma factor; Provisional; Region: PRK12545 640511014765 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 640511014766 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3813 640511014767 Protein of unknown function (DUF1272); Region: DUF1272; pfam06906 640511014768 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 640511014769 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 640511014770 substrate binding pocket [chemical binding]; other site 640511014771 membrane-bound complex binding site; other site 640511014772 hinge residues; other site 640511014773 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 640511014774 ArsC family; Region: ArsC; pfam03960 640511014775 catalytic residues [active] 640511014776 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 640511014777 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 640511014778 P-loop; other site 640511014779 Magnesium ion binding site [ion binding]; other site 640511014780 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 640511014781 ParB-like nuclease domain; Region: ParBc; cl02129 640511014782 Initiator Replication protein; Region: Rep_3; cl03080 640511014783 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 640511014784 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 640511014785 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 640511014786 active site 640511014787 catalytic residues [active] 640511014788 Int/Topo IB signature motif; other site 640511014789 DNA binding site [nucleotide binding] 640511014790 Protein of unknown function (DUF2471); Region: DUF2471; pfam10616 640511014791 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 640511014792 non-specific DNA binding site [nucleotide binding]; other site 640511014793 salt bridge; other site 640511014794 sequence-specific DNA binding site [nucleotide binding]; other site 640511014795 Cupin domain; Region: Cupin_2; cl09118 640511014796 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 640511014797 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 640511014798 substrate-cofactor binding pocket; other site 640511014799 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511014800 catalytic residue [active] 640511014801 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 640511014802 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 640511014803 NAD(P) binding site [chemical binding]; other site 640511014804 YceI-like domain; Region: YceI; cl01001 640511014805 Helix-turn-helix domains; Region: HTH; cl00088 640511014806 Protein of unknown function (DUF1348); Region: DUF1348; pfam07080 640511014807 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 640511014808 metabolite-proton symporter; Region: 2A0106; TIGR00883 640511014809 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511014810 putative substrate translocation pore; other site 640511014811 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511014812 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640511014813 putative substrate translocation pore; other site 640511014814 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 640511014815 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 640511014816 FMN-binding pocket [chemical binding]; other site 640511014817 flavin binding motif; other site 640511014818 phosphate binding motif [ion binding]; other site 640511014819 beta-alpha-beta structure motif; other site 640511014820 NAD binding pocket [chemical binding]; other site 640511014821 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 640511014822 catalytic loop [active] 640511014823 iron binding site [ion binding]; other site 640511014824 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 640511014825 Helix-turn-helix domains; Region: HTH; cl00088 640511014826 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 640511014827 dimerization interface [polypeptide binding]; other site 640511014828 substrate binding pocket [chemical binding]; other site 640511014829 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 640511014830 iron-sulfur cluster [ion binding]; other site 640511014831 [2Fe-2S] cluster binding site [ion binding]; other site 640511014832 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 640511014833 putative alpha subunit interface [polypeptide binding]; other site 640511014834 putative active site [active] 640511014835 putative substrate binding site [chemical binding]; other site 640511014836 Fe binding site [ion binding]; other site 640511014837 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 640511014838 inter-subunit interface; other site 640511014839 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 640511014840 active site 1 [active] 640511014841 dimer interface [polypeptide binding]; other site 640511014842 hexamer interface [polypeptide binding]; other site 640511014843 active site 2 [active] 640511014844 PAS domain; Region: PAS_9; pfam13426 640511014845 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 640511014846 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 640511014847 putative active site [active] 640511014848 heme pocket [chemical binding]; other site 640511014849 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 640511014850 dimer interface [polypeptide binding]; other site 640511014851 phosphorylation site [posttranslational modification] 640511014852 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511014853 ATP binding site [chemical binding]; other site 640511014854 Mg2+ binding site [ion binding]; other site 640511014855 G-X-G motif; other site 640511014856 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 640511014857 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640511014858 active site 640511014859 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 640511014860 Amidase; Region: Amidase; cl11426 640511014861 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 640511014862 classical (c) SDRs; Region: SDR_c; cd05233 640511014863 NAD(P) binding site [chemical binding]; other site 640511014864 active site 640511014865 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 640511014866 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511014867 active site 640511014868 phosphorylation site [posttranslational modification] 640511014869 intermolecular recognition site; other site 640511014870 dimerization interface [polypeptide binding]; other site 640511014871 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 640511014872 DNA binding residues [nucleotide binding] 640511014873 dimerization interface [polypeptide binding]; other site 640511014874 Flavin Reductases; Region: FlaRed; cl00801 640511014875 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 640511014876 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 640511014877 BON domain; Region: BON; cl02771 640511014878 short chain dehydrogenase; Provisional; Region: PRK07023 640511014879 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511014880 NAD(P) binding site [chemical binding]; other site 640511014881 active site 640511014882 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640511014883 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 640511014884 conserved cys residue [active] 640511014885 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511014886 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 640511014887 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511014888 Helix-turn-helix domains; Region: HTH; cl00088 640511014889 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 640511014890 putative dimerization interface [polypeptide binding]; other site 640511014891 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 640511014892 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640511014893 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 640511014894 active site 640511014895 catalytic residues [active] 640511014896 metal binding site [ion binding]; metal-binding site 640511014897 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511014898 D-galactonate transporter; Region: 2A0114; TIGR00893 640511014899 putative substrate translocation pore; other site 640511014900 Transcriptional regulators [Transcription]; Region: GntR; COG1802 640511014901 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511014902 DNA-binding site [nucleotide binding]; DNA binding site 640511014903 FCD domain; Region: FCD; cl11656 640511014904 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 640511014905 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 640511014906 homodimer interface [polypeptide binding]; other site 640511014907 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511014908 catalytic residue [active] 640511014909 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511014910 D-galactonate transporter; Region: 2A0114; TIGR00893 640511014911 putative substrate translocation pore; other site 640511014912 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 640511014913 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 640511014914 FAD binding domain; Region: FAD_binding_4; pfam01565 640511014915 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 640511014916 sn-glycerol-3-phosphate dehydrogenase subunit C; Provisional; Region: glpC; PRK11168 640511014917 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 640511014918 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511014919 EamA-like transporter family; Region: EamA; cl01037 640511014920 EamA-like transporter family; Region: EamA; cl01037 640511014921 haloacid dehalogenase-like hydrolase family protein; Region: PLN02919 640511014922 LysE type translocator; Region: LysE; cl00565 640511014923 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 640511014924 ligand binding site [chemical binding]; other site 640511014925 flexible hinge region; other site 640511014926 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 640511014927 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640511014928 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 640511014929 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 640511014930 active site residue [active] 640511014931 Citrate transporter; Region: CitMHS; pfam03600 640511014932 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 640511014933 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 640511014934 Walker A motif; other site 640511014935 ATP binding site [chemical binding]; other site 640511014936 Walker B motif; other site 640511014937 arginine finger; other site 640511014938 Helix-turn-helix domains; Region: HTH; cl00088 640511014939 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 640511014940 H-NS histone family; Region: Histone_HNS; pfam00816 640511014941 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 640511014942 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 640511014943 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 640511014944 G1 box; other site 640511014945 putative GEF interaction site [polypeptide binding]; other site 640511014946 GTP/Mg2+ binding site [chemical binding]; other site 640511014947 Switch I region; other site 640511014948 G2 box; other site 640511014949 G3 box; other site 640511014950 Switch II region; other site 640511014951 G4 box; other site 640511014952 G5 box; other site 640511014953 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 640511014954 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 640511014955 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511014956 CoA-ligase; Region: Ligase_CoA; cl02894 640511014957 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 640511014958 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 640511014959 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640511014960 Helix-turn-helix domains; Region: HTH; cl00088 640511014961 Bacterial transcriptional regulator; Region: IclR; pfam01614 640511014962 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 640511014963 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 640511014964 active site 640511014965 catalytic tetrad [active] 640511014966 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 640511014967 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 640511014968 active site 640511014969 short chain dehydrogenase; Provisional; Region: PRK06138 640511014970 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 640511014971 NAD binding site [chemical binding]; other site 640511014972 homotetramer interface [polypeptide binding]; other site 640511014973 homodimer interface [polypeptide binding]; other site 640511014974 active site 640511014975 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 640511014976 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 640511014977 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 640511014978 CoenzymeA binding site [chemical binding]; other site 640511014979 subunit interaction site [polypeptide binding]; other site 640511014980 PHB binding site; other site 640511014981 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 640511014982 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 640511014983 dimer interface [polypeptide binding]; other site 640511014984 ligand binding site [chemical binding]; other site 640511014985 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 640511014986 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640511014987 dimer interface [polypeptide binding]; other site 640511014988 putative CheW interface [polypeptide binding]; other site 640511014989 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 640511014990 DNA-binding site [nucleotide binding]; DNA binding site 640511014991 RNA-binding motif; other site 640511014992 N-acyl-D-glucosamine 2-epimerase [Carbohydrate transport and metabolism]; Region: COG2942 640511014993 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 640511014994 dimerization interface [polypeptide binding]; other site 640511014995 putative active cleft [active] 640511014996 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 640511014997 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511014998 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 640511014999 Flavin Reductases; Region: FlaRed; cl00801 640511015000 polyhydroxyalkanoate depolymerase, intracellular; Region: PHB_depoly_PhaZ; TIGR01849 640511015001 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 640511015002 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 640511015003 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 640511015004 putative C-terminal domain interface [polypeptide binding]; other site 640511015005 putative GSH binding site (G-site) [chemical binding]; other site 640511015006 putative dimer interface [polypeptide binding]; other site 640511015007 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 640511015008 putative N-terminal domain interface [polypeptide binding]; other site 640511015009 putative dimer interface [polypeptide binding]; other site 640511015010 putative substrate binding pocket (H-site) [chemical binding]; other site 640511015011 Cache domain; Region: Cache_1; pfam02743 640511015012 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 640511015013 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640511015014 dimer interface [polypeptide binding]; other site 640511015015 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 640511015016 putative CheW interface [polypeptide binding]; other site 640511015017 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 640511015018 metal-binding site [ion binding] 640511015019 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 640511015020 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 640511015021 metal-binding site [ion binding] 640511015022 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 640511015023 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 640511015024 Uncharacterized conserved protein [Function unknown]; Region: COG5361 640511015025 Protein of unknown function (DUF1254); Region: DUF1254; cl02257 640511015026 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 640511015027 AsmA family; Region: AsmA; pfam05170 640511015028 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 640511015029 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 640511015030 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 640511015031 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 640511015032 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 640511015033 aconitate hydratase; Provisional; Region: acnA; PRK12881 640511015034 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 640511015035 substrate binding site [chemical binding]; other site 640511015036 ligand binding site [chemical binding]; other site 640511015037 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 640511015038 substrate binding site [chemical binding]; other site 640511015039 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 640511015040 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 640511015041 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 640511015042 dimer interface [polypeptide binding]; other site 640511015043 active site 640511015044 citrylCoA binding site [chemical binding]; other site 640511015045 oxalacetate/citrate binding site [chemical binding]; other site 640511015046 coenzyme A binding site [chemical binding]; other site 640511015047 catalytic triad [active] 640511015048 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 640511015049 malate dehydrogenase; Provisional; Region: PRK05442 640511015050 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 640511015051 NAD(P) binding site [chemical binding]; other site 640511015052 dimer interface [polypeptide binding]; other site 640511015053 malate binding site [chemical binding]; other site 640511015054 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 640511015055 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511015056 DNA-binding site [nucleotide binding]; DNA binding site 640511015057 UTRA domain; Region: UTRA; cl01230 640511015058 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 640511015059 Iron-sulfur protein interface; other site 640511015060 proximal quinone binding site [chemical binding]; other site 640511015061 SdhD (CybS) interface [polypeptide binding]; other site 640511015062 proximal heme binding site [chemical binding]; other site 640511015063 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 640511015064 SdhC subunit interface [polypeptide binding]; other site 640511015065 proximal heme binding site [chemical binding]; other site 640511015066 cardiolipin binding site; other site 640511015067 Iron-sulfur protein interface; other site 640511015068 proximal quinone binding site [chemical binding]; other site 640511015069 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 640511015070 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511015071 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 640511015072 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 640511015073 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 640511015074 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 640511015075 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 640511015076 dimer interface [polypeptide binding]; other site 640511015077 Citrate synthase; Region: Citrate_synt; pfam00285 640511015078 active site 640511015079 citrylCoA binding site [chemical binding]; other site 640511015080 NADH binding [chemical binding]; other site 640511015081 cationic pore residues; other site 640511015082 oxalacetate/citrate binding site [chemical binding]; other site 640511015083 coenzyme A binding site [chemical binding]; other site 640511015084 catalytic triad [active] 640511015085 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 640511015086 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 640511015087 substrate binding site [chemical binding]; other site 640511015088 ligand binding site [chemical binding]; other site 640511015089 Entericidin EcnA/B family; Region: Entericidin; cl02322 640511015090 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 640511015091 substrate binding site [chemical binding]; other site 640511015092 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 640511015093 tartrate dehydrogenase; Provisional; Region: PRK08194 640511015094 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 640511015095 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511015096 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 640511015097 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 640511015098 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 640511015099 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 640511015100 dimerization interface 3.5A [polypeptide binding]; other site 640511015101 active site 640511015102 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are monomeric; Region: PRAI; cd00405 640511015103 active site 640511015104 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 640511015105 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 640511015106 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511015107 catalytic residue [active] 640511015108 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 640511015109 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 640511015110 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 640511015111 substrate binding site [chemical binding]; other site 640511015112 active site 640511015113 catalytic residues [active] 640511015114 heterodimer interface [polypeptide binding]; other site 640511015115 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 640511015116 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 640511015117 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 640511015118 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 640511015119 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 640511015120 Sporulation related domain; Region: SPOR; cl10051 640511015121 Colicin V production protein; Region: Colicin_V; cl00567 640511015122 amidophosphoribosyltransferase; Provisional; Region: PRK09246 640511015123 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 640511015124 active site 640511015125 tetramer interface [polypeptide binding]; other site 640511015126 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 640511015127 active site 640511015128 Cupin domain; Region: Cupin_2; cl09118 640511015129 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511015130 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640511015131 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511015132 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 640511015133 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640511015134 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 640511015135 dimer interface [polypeptide binding]; other site 640511015136 phosphorylation site [posttranslational modification] 640511015137 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 640511015138 Domain of unknown function DUF21; Region: DUF21; pfam01595 640511015139 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 640511015140 Transporter associated domain; Region: CorC_HlyC; cl08393 640511015141 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 640511015142 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 640511015143 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 640511015144 active site 640511015145 catalytic site [active] 640511015146 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 640511015147 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 640511015148 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 640511015149 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 640511015150 catalytic site [active] 640511015151 active site 640511015152 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 640511015153 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 640511015154 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 640511015155 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 640511015156 active site 640511015157 catalytic site [active] 640511015158 glycogen branching enzyme; Provisional; Region: PRK05402 640511015159 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 640511015160 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 640511015161 active site 640511015162 catalytic site [active] 640511015163 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 640511015164 trehalose synthase; Region: treS_nterm; TIGR02456 640511015165 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 640511015166 active site 640511015167 catalytic site [active] 640511015168 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; cl01286 640511015169 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 640511015170 active site 640511015171 catalytic site [active] 640511015172 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 640511015173 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 640511015174 active site 640511015175 homodimer interface [polypeptide binding]; other site 640511015176 catalytic site [active] 640511015177 acceptor binding site [chemical binding]; other site 640511015178 Protein of unknown function (DUF1345); Region: DUF1345; cl01753 640511015179 Membrane bound FAD containing D-sorbitol dehydrogenase; Region: FAD-SLDH; pfam12318 640511015180 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 640511015181 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 640511015182 Cytochrome c; Region: Cytochrom_C; cl11414 640511015183 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640511015184 Cytochrome c; Region: Cytochrom_C; cl11414 640511015185 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 640511015186 active site 640511015187 metal binding site [ion binding]; metal-binding site 640511015188 RES domain; Region: RES; cl02411 640511015189 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 640511015190 Helix-turn-helix domains; Region: HTH; cl00088 640511015191 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 640511015192 dimerization interface [polypeptide binding]; other site 640511015193 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 640511015194 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 640511015195 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 640511015196 putative DNA binding site [nucleotide binding]; other site 640511015197 putative Zn2+ binding site [ion binding]; other site 640511015198 Low molecular weight phosphatase family; Region: LMWPc; cd00115 640511015199 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 640511015200 active site 640511015201 Membrane transport protein; Region: Mem_trans; cl09117 640511015202 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 640511015203 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511015204 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 640511015205 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640511015206 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511015207 putative substrate translocation pore; other site 640511015208 Helix-turn-helix domains; Region: HTH; cl00088 640511015209 TOBE domain; Region: TOBE_2; cl01440 640511015210 TOBE domain; Region: TOBE_2; cl01440 640511015211 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511015212 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 640511015213 Walker A/P-loop; other site 640511015214 ATP binding site [chemical binding]; other site 640511015215 Q-loop/lid; other site 640511015216 ABC transporter signature motif; other site 640511015217 Walker B; other site 640511015218 D-loop; other site 640511015219 H-loop/switch region; other site 640511015220 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 640511015221 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 640511015222 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 640511015223 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 640511015224 active site 640511015225 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 640511015226 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 640511015227 Protein of unknown function (DUF3563); Region: DUF3563; pfam12086 640511015228 TspO/MBR family; Region: TspO_MBR; cl01379 640511015229 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 640511015230 DNA photolyase; Region: DNA_photolyase; pfam00875 640511015231 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 640511015232 OsmC-like protein; Region: OsmC; cl00767 640511015233 Helix-turn-helix domains; Region: HTH; cl00088 640511015234 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 640511015235 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 640511015236 Phosphotransferase enzyme family; Region: APH; pfam01636 640511015237 putative active site [active] 640511015238 putative substrate binding site [chemical binding]; other site 640511015239 ATP binding site [chemical binding]; other site 640511015240 AMP nucleosidase; Provisional; Region: PRK08292 640511015241 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 640511015242 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 640511015243 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 640511015244 DNA polymerase I; Provisional; Region: PRK05755 640511015245 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 640511015246 active site 640511015247 metal binding site 1 [ion binding]; metal-binding site 640511015248 putative 5' ssDNA interaction site; other site 640511015249 metal binding site 3; metal-binding site 640511015250 metal binding site 2 [ion binding]; metal-binding site 640511015251 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 640511015252 putative DNA binding site [nucleotide binding]; other site 640511015253 putative metal binding site [ion binding]; other site 640511015254 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 640511015255 active site 640511015256 catalytic site [active] 640511015257 substrate binding site [chemical binding]; other site 640511015258 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 640511015259 active site 640511015260 DNA binding site [nucleotide binding] 640511015261 catalytic site [active] 640511015262 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 640511015263 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640511015264 Dienelactone hydrolase family; Region: DLH; pfam01738 640511015265 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 640511015266 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 640511015267 active site residue [active] 640511015268 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 640511015269 active site residue [active] 640511015270 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 640511015271 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 640511015272 [2Fe-2S] cluster binding site [ion binding]; other site 640511015273 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 640511015274 alpha subunit interface [polypeptide binding]; other site 640511015275 active site 640511015276 substrate binding site [chemical binding]; other site 640511015277 Fe binding site [ion binding]; other site 640511015278 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 640511015279 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 640511015280 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 640511015281 substrate binding pocket [chemical binding]; other site 640511015282 chain length determination region; other site 640511015283 substrate-Mg2+ binding site; other site 640511015284 catalytic residues [active] 640511015285 aspartate-rich region 1; other site 640511015286 active site lid residues [active] 640511015287 aspartate-rich region 2; other site 640511015288 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 640511015289 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 640511015290 TPP-binding site; other site 640511015291 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 640511015292 PYR/PP interface [polypeptide binding]; other site 640511015293 dimer interface [polypeptide binding]; other site 640511015294 TPP binding site [chemical binding]; other site 640511015295 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 640511015296 Type I GTP cyclohydrolase folE2; Region: GCHY-1; cl00642 640511015297 UGMP family protein; Validated; Region: PRK09604 640511015298 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 640511015299 HI0933-like protein; Region: HI0933_like; pfam03486 640511015300 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511015301 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 640511015302 GatB domain; Region: GatB_Yqey; cl11497 640511015303 DNA primase; Validated; Region: dnaG; PRK05667 640511015304 CHC2 zinc finger; Region: zf-CHC2; cl15369 640511015305 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 640511015306 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 640511015307 active site 640511015308 metal binding site [ion binding]; metal-binding site 640511015309 interdomain interaction site; other site 640511015310 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 640511015311 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 640511015312 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 640511015313 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 640511015314 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 640511015315 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640511015316 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 640511015317 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 640511015318 DNA binding residues [nucleotide binding] 640511015319 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 640511015320 eyelet of channel; other site 640511015321 trimer interface [polypeptide binding]; other site 640511015322 DDE superfamily endonuclease; Region: DDE_4; cl15789 640511015323 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 640511015324 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 640511015325 ligand binding site [chemical binding]; other site 640511015326 flexible hinge region; other site 640511015327 Helix-turn-helix domains; Region: HTH; cl00088 640511015328 acyl-CoA synthetase; Validated; Region: PRK08162 640511015329 AMP-binding enzyme; Region: AMP-binding; cl15778 640511015330 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 640511015331 LysE type translocator; Region: LysE; cl00565 640511015332 H-NS histone family; Region: Histone_HNS; pfam00816 640511015333 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 640511015334 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 640511015335 heterodimer interface [polypeptide binding]; other site 640511015336 active site 640511015337 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 640511015338 heterodimer interface [polypeptide binding]; other site 640511015339 multimer interface [polypeptide binding]; other site 640511015340 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 640511015341 active site 640511015342 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 640511015343 Helix-turn-helix domains; Region: HTH; cl00088 640511015344 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 640511015345 putative dimerization interface [polypeptide binding]; other site 640511015346 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 640511015347 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 640511015348 dimer interface [polypeptide binding]; other site 640511015349 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 640511015350 active site 640511015351 Fe binding site [ion binding]; other site 640511015352 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640511015353 Helix-turn-helix domains; Region: HTH; cl00088 640511015354 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 640511015355 dimerization interface [polypeptide binding]; other site 640511015356 Domain of unknown function (DUF1338); Region: DUF1338; cl02226 640511015357 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 640511015358 FAD binding domain; Region: FAD_binding_4; pfam01565 640511015359 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 640511015360 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 640511015361 non-specific DNA binding site [nucleotide binding]; other site 640511015362 salt bridge; other site 640511015363 sequence-specific DNA binding site [nucleotide binding]; other site 640511015364 Cupin domain; Region: Cupin_2; cl09118 640511015365 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 640511015366 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 640511015367 tetramer interface [polypeptide binding]; other site 640511015368 active site 640511015369 Mg2+/Mn2+ binding site [ion binding]; other site 640511015370 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640511015371 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640511015372 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 640511015373 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 640511015374 active site 640511015375 catalytic residues [active] 640511015376 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 640511015377 putative dimerization interface [polypeptide binding]; other site 640511015378 putative ligand binding site [chemical binding]; other site 640511015379 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640511015380 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511015381 L-rhamnose isomerase (RhaA); Region: RhaA; cl09945 640511015382 D-xylose ABC transporter, substrate-binding protein; Region: xylF; TIGR02634 640511015383 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 640511015384 putative ligand binding site [chemical binding]; other site 640511015385 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 640511015386 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 640511015387 Walker A/P-loop; other site 640511015388 ATP binding site [chemical binding]; other site 640511015389 Q-loop/lid; other site 640511015390 ABC transporter signature motif; other site 640511015391 Walker B; other site 640511015392 D-loop; other site 640511015393 H-loop/switch region; other site 640511015394 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 640511015395 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 640511015396 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 640511015397 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 640511015398 TM-ABC transporter signature motif; other site 640511015399 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 640511015400 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 640511015401 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640511015402 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640511015403 4-hydroxybenzoyl-CoA reductase, gamma subunit; Region: 4hydroxCoAred; TIGR03193 640511015404 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 640511015405 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 640511015406 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640511015407 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 640511015408 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 640511015409 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 640511015410 Protein of unknown function (DUF1656); Region: DUF1656; cl11658 640511015411 Fusaric acid resistance protein family; Region: FUSC; pfam04632 640511015412 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 640511015413 Helix-turn-helix domains; Region: HTH; cl00088 640511015414 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 640511015415 dimer interface [polypeptide binding]; other site 640511015416 phosphorylation site [posttranslational modification] 640511015417 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511015418 ATP binding site [chemical binding]; other site 640511015419 Mg2+ binding site [ion binding]; other site 640511015420 G-X-G motif; other site 640511015421 Response regulator receiver domain; Region: Response_reg; pfam00072 640511015422 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511015423 active site 640511015424 phosphorylation site [posttranslational modification] 640511015425 intermolecular recognition site; other site 640511015426 dimerization interface [polypeptide binding]; other site 640511015427 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]; Region: RAD55; COG0467 640511015428 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511015429 Walker A motif; other site 640511015430 ATP binding site [chemical binding]; other site 640511015431 Walker B motif; other site 640511015432 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511015433 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511015434 Walker A motif; other site 640511015435 Walker A motif; other site 640511015436 ATP binding site [chemical binding]; other site 640511015437 Walker B motif; other site 640511015438 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 640511015439 Probable cobalt transporter subunit (CbtA); Region: CbtA; cl02266 640511015440 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 640511015441 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 640511015442 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 640511015443 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 640511015444 heme-binding site [chemical binding]; other site 640511015445 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 640511015446 FAD binding pocket [chemical binding]; other site 640511015447 FAD binding motif [chemical binding]; other site 640511015448 phosphate binding motif [ion binding]; other site 640511015449 beta-alpha-beta structure motif; other site 640511015450 NAD binding pocket [chemical binding]; other site 640511015451 Heme binding pocket [chemical binding]; other site 640511015452 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 640511015453 GAF domain; Region: GAF; cl15785 640511015454 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 640511015455 Walker A motif; other site 640511015456 ATP binding site [chemical binding]; other site 640511015457 Walker B motif; other site 640511015458 arginine finger; other site 640511015459 Uncharacterized conserved protein [Function unknown]; Region: COG3777 640511015460 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 640511015461 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 640511015462 active site 2 [active] 640511015463 active site 1 [active] 640511015464 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 640511015465 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640511015466 active site 640511015467 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 640511015468 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640511015469 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 640511015470 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 640511015471 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 640511015472 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 640511015473 inhibitor binding site; inhibition site 640511015474 active site 640511015475 D-galactonate transporter; Region: 2A0114; TIGR00893 640511015476 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511015477 putative substrate translocation pore; other site 640511015478 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511015479 Helix-turn-helix domains; Region: HTH; cl00088 640511015480 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 640511015481 putative effector binding pocket; other site 640511015482 dimerization interface [polypeptide binding]; other site 640511015483 hypothetical protein; Provisional; Region: PRK13560 640511015484 PAS domain S-box; Region: sensory_box; TIGR00229 640511015485 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 640511015486 putative active site [active] 640511015487 heme pocket [chemical binding]; other site 640511015488 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640511015489 metal binding site [ion binding]; metal-binding site 640511015490 active site 640511015491 I-site; other site 640511015492 benzoate transport; Region: 2A0115; TIGR00895 640511015493 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511015494 putative substrate translocation pore; other site 640511015495 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511015496 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511015497 Helix-turn-helix domains; Region: HTH; cl00088 640511015498 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 640511015499 putative dimerization interface [polypeptide binding]; other site 640511015500 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 640511015501 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640511015502 tetrameric interface [polypeptide binding]; other site 640511015503 NAD binding site [chemical binding]; other site 640511015504 catalytic residues [active] 640511015505 FAD dependent oxidoreductase; Region: DAO; pfam01266 640511015506 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511015507 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 640511015508 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 640511015509 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511015510 homodimer interface [polypeptide binding]; other site 640511015511 catalytic residue [active] 640511015512 Bacterial protein of unknown function (DUF898); Region: DUF898; cl01738 640511015513 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 640511015514 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 640511015515 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 640511015516 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 640511015517 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640511015518 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 640511015519 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 640511015520 DNA binding residues [nucleotide binding] 640511015521 Uncharacterized conserved protein [Function unknown]; Region: COG5476 640511015522 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 640511015523 MlrC C-terminus; Region: MlrC_C; pfam07171 640511015524 dihydroxyacetone kinase; Provisional; Region: PRK14479 640511015525 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 640511015526 DAK2 domain; Region: Dak2; cl03685 640511015527 conjugative coupling factor TraD, TOL family; Region: conj_TOL_TraD; TIGR03754 640511015528 Predicted permease; Region: DUF318; pfam03773 640511015529 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 640511015530 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 640511015531 active site residue [active] 640511015532 selenophosphate synthetase; Provisional; Region: PRK00943 640511015533 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 640511015534 dimerization interface [polypeptide binding]; other site 640511015535 putative ATP binding site [chemical binding]; other site 640511015536 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 640511015537 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 640511015538 molybdopterin cofactor binding site; other site 640511015539 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 640511015540 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 640511015541 molybdopterin cofactor binding site; other site 640511015542 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 640511015543 4Fe-4S binding domain; Region: Fer4; cl02805 640511015544 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 640511015545 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 640511015546 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 640511015547 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 640511015548 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 640511015549 selenocysteine synthase; Provisional; Region: PRK04311 640511015550 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 640511015551 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 640511015552 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640511015553 catalytic residue [active] 640511015554 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 640511015555 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 640511015556 G1 box; other site 640511015557 putative GEF interaction site [polypeptide binding]; other site 640511015558 GTP/Mg2+ binding site [chemical binding]; other site 640511015559 Switch I region; other site 640511015560 G2 box; other site 640511015561 G3 box; other site 640511015562 Switch II region; other site 640511015563 G4 box; other site 640511015564 G5 box; other site 640511015565 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 640511015566 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 640511015567 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 640511015568 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 640511015569 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 640511015570 active site 640511015571 Int/Topo IB signature motif; other site 640511015572 Protein of unknown function DUF91; Region: DUF91; cl00709 640511015573 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 640511015574 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511015575 putative substrate translocation pore; other site 640511015576 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 640511015577 Amidase; Region: Amidase; cl11426 640511015578 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 640511015579 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 640511015580 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640511015581 Uncharacterized conserved protein [Function unknown]; Region: COG3777 640511015582 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 640511015583 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 640511015584 active site 2 [active] 640511015585 active site 1 [active] 640511015586 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 640511015587 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 640511015588 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 640511015589 Ligand binding site [chemical binding]; other site 640511015590 Electron transfer flavoprotein domain; Region: ETF; pfam01012 640511015591 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 640511015592 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 640511015593 active site 640511015594 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511015595 Helix-turn-helix domains; Region: HTH; cl00088 640511015596 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 640511015597 putative dimerization interface [polypeptide binding]; other site 640511015598 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 640511015599 trimer interface [polypeptide binding]; other site 640511015600 eyelet of channel; other site 640511015601 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511015602 D-galactonate transporter; Region: 2A0114; TIGR00893 640511015603 putative substrate translocation pore; other site 640511015604 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 640511015605 Helix-turn-helix domain; Region: HTH_18; pfam12833 640511015606 Catalytic domain of Helicobacter pylori peptidoglycan deacetylase (HpPgdA) and similar proteins; Region: CE4_HpPgdA_like; cd10938 640511015607 active site 640511015608 catalytic site [active] 640511015609 Zn binding site [ion binding]; other site 640511015610 tetramer interface [polypeptide binding]; other site 640511015611 Uncharacterized conserved protein [Function unknown]; Region: COG5476 640511015612 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 640511015613 MlrC C-terminus; Region: MlrC_C; pfam07171 640511015614 2-oxoacid dehydrogenase subunit E1; Provisional; Region: PRK13012 640511015615 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 640511015616 dimer interface [polypeptide binding]; other site 640511015617 TPP-binding site [chemical binding]; other site 640511015618 Helix-turn-helix domains; Region: HTH; cl00088 640511015619 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640511015620 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 640511015621 putative active site [active] 640511015622 putative FMN binding site [chemical binding]; other site 640511015623 putative substrate binding site [chemical binding]; other site 640511015624 putative catalytic residue [active] 640511015625 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 640511015626 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 640511015627 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 640511015628 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 640511015629 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 640511015630 putative molybdopterin cofactor binding site [chemical binding]; other site 640511015631 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 640511015632 putative molybdopterin cofactor binding site; other site 640511015633 formate dehydrogenase; Provisional; Region: PRK07574 640511015634 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511015635 Catalytic domain of Protein Kinases; Region: PKc; cd00180 640511015636 active site 640511015637 ATP binding site [chemical binding]; other site 640511015638 substrate binding site [chemical binding]; other site 640511015639 activation loop (A-loop); other site 640511015640 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511015641 Predicted ATPase [General function prediction only]; Region: COG3899 640511015642 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 640511015643 GAF domain; Region: GAF; cl15785 640511015644 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 640511015645 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 640511015646 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 640511015647 dimer interface [polypeptide binding]; other site 640511015648 phosphorylation site [posttranslational modification] 640511015649 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511015650 ATP binding site [chemical binding]; other site 640511015651 Mg2+ binding site [ion binding]; other site 640511015652 G-X-G motif; other site 640511015653 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 640511015654 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511015655 active site 640511015656 phosphorylation site [posttranslational modification] 640511015657 intermolecular recognition site; other site 640511015658 dimerization interface [polypeptide binding]; other site 640511015659 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 640511015660 DNA binding residues [nucleotide binding] 640511015661 dimerization interface [polypeptide binding]; other site 640511015662 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 640511015663 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 640511015664 NADP binding site [chemical binding]; other site 640511015665 active site 640511015666 steroid binding site; other site 640511015667 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511015668 metabolite-proton symporter; Region: 2A0106; TIGR00883 640511015669 putative substrate translocation pore; other site 640511015670 sensory histidine kinase AtoS; Provisional; Region: PRK11360 640511015671 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511015672 ATP binding site [chemical binding]; other site 640511015673 Mg2+ binding site [ion binding]; other site 640511015674 G-X-G motif; other site 640511015675 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 640511015676 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 640511015677 active site 640511015678 catalytic tetrad [active] 640511015679 High-affinity nickel-transport protein; Region: NicO; cl00964 640511015680 Domain of unknown function (DUF4331); Region: DUF4331; pfam14224 640511015681 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511015682 Response regulator receiver domain; Region: Response_reg; pfam00072 640511015683 active site 640511015684 phosphorylation site [posttranslational modification] 640511015685 intermolecular recognition site; other site 640511015686 dimerization interface [polypeptide binding]; other site 640511015687 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 640511015688 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511015689 active site 640511015690 phosphorylation site [posttranslational modification] 640511015691 intermolecular recognition site; other site 640511015692 dimerization interface [polypeptide binding]; other site 640511015693 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 640511015694 DNA binding residues [nucleotide binding] 640511015695 dimerization interface [polypeptide binding]; other site 640511015696 short chain dehydrogenase; Provisional; Region: PRK12937 640511015697 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 640511015698 NADP binding site [chemical binding]; other site 640511015699 homodimer interface [polypeptide binding]; other site 640511015700 active site 640511015701 substrate binding site [chemical binding]; other site 640511015702 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640511015703 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511015704 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 640511015705 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 640511015706 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640511015707 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 640511015708 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 640511015709 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 640511015710 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 640511015711 substrate binding pocket [chemical binding]; other site 640511015712 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 640511015713 Protein of unknown function (DUF1348); Region: DUF1348; pfam07080 640511015714 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 640511015715 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 640511015716 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511015717 Response regulator receiver domain; Region: Response_reg; pfam00072 640511015718 active site 640511015719 phosphorylation site [posttranslational modification] 640511015720 intermolecular recognition site; other site 640511015721 dimerization interface [polypeptide binding]; other site 640511015722 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 640511015723 PAS domain; Region: PAS_9; pfam13426 640511015724 putative active site [active] 640511015725 heme pocket [chemical binding]; other site 640511015726 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 640511015727 PAS fold; Region: PAS_3; pfam08447 640511015728 putative active site [active] 640511015729 heme pocket [chemical binding]; other site 640511015730 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 640511015731 putative active site [active] 640511015732 heme pocket [chemical binding]; other site 640511015733 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 640511015734 dimer interface [polypeptide binding]; other site 640511015735 phosphorylation site [posttranslational modification] 640511015736 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511015737 ATP binding site [chemical binding]; other site 640511015738 Mg2+ binding site [ion binding]; other site 640511015739 G-X-G motif; other site 640511015740 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 640511015741 Uncharacterized protein, linocin/CFP29 homolog [Function unknown]; Region: COG1659 640511015742 Encapsulating protein for peroxidase; Region: Linocin_M18; cl12047 640511015743 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 640511015744 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511015745 active site 640511015746 phosphorylation site [posttranslational modification] 640511015747 intermolecular recognition site; other site 640511015748 dimerization interface [polypeptide binding]; other site 640511015749 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 640511015750 DNA binding site [nucleotide binding] 640511015751 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 640511015752 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 640511015753 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 640511015754 dimer interface [polypeptide binding]; other site 640511015755 phosphorylation site [posttranslational modification] 640511015756 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511015757 ATP binding site [chemical binding]; other site 640511015758 Mg2+ binding site [ion binding]; other site 640511015759 G-X-G motif; other site 640511015760 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640511015761 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 640511015762 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 640511015763 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 640511015764 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 640511015765 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640511015766 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 640511015767 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640511015768 Coenzyme A binding pocket [chemical binding]; other site 640511015769 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 640511015770 active site 640511015771 NTP binding site [chemical binding]; other site 640511015772 metal binding triad [ion binding]; metal-binding site 640511015773 antibiotic binding site [chemical binding]; other site 640511015774 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 640511015775 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 640511015776 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 640511015777 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640511015778 Coenzyme A binding pocket [chemical binding]; other site 640511015779 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640511015780 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 640511015781 active site 640511015782 metal binding site [ion binding]; metal-binding site 640511015783 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 640511015784 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640511015785 Coenzyme A binding pocket [chemical binding]; other site 640511015786 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 640511015787 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 640511015788 non-specific DNA binding site [nucleotide binding]; other site 640511015789 salt bridge; other site 640511015790 sequence-specific DNA binding site [nucleotide binding]; other site 640511015791 Cupin domain; Region: Cupin_2; cl09118 640511015792 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 640511015793 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 640511015794 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 640511015795 Gram-negative bacterial tonB protein; Region: TonB; cl10048 640511015796 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 640511015797 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 640511015798 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 640511015799 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 640511015800 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 640511015801 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 640511015802 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511015803 dimer interface [polypeptide binding]; other site 640511015804 conserved gate region; other site 640511015805 putative PBP binding loops; other site 640511015806 ABC-ATPase subunit interface; other site 640511015807 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 640511015808 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 640511015809 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511015810 dimer interface [polypeptide binding]; other site 640511015811 conserved gate region; other site 640511015812 putative PBP binding loops; other site 640511015813 ABC-ATPase subunit interface; other site 640511015814 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 640511015815 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 640511015816 Walker A/P-loop; other site 640511015817 ATP binding site [chemical binding]; other site 640511015818 Q-loop/lid; other site 640511015819 ABC transporter signature motif; other site 640511015820 Walker B; other site 640511015821 D-loop; other site 640511015822 H-loop/switch region; other site 640511015823 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640511015824 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 640511015825 Walker A/P-loop; other site 640511015826 ATP binding site [chemical binding]; other site 640511015827 Q-loop/lid; other site 640511015828 ABC transporter signature motif; other site 640511015829 Walker B; other site 640511015830 D-loop; other site 640511015831 H-loop/switch region; other site 640511015832 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640511015833 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 640511015834 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 640511015835 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 640511015836 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 640511015837 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 640511015838 putative acetyltransferase YhhY; Provisional; Region: PRK10140 640511015839 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 640511015840 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 640511015841 Protein export membrane protein; Region: SecD_SecF; cl14618 640511015842 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG3571 640511015843 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 640511015844 Protein of unknown function (DUF770); Region: DUF770; cl01402 640511015845 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 640511015846 Protein of unknown function (DUF877); Region: DUF877; pfam05943 640511015847 Protein of unknown function (DUF796); Region: DUF796; cl01226 640511015848 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 640511015849 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 640511015850 Bacterial protein of unknown function (DUF879); Region: DUF879; cl15462 640511015851 Protein of unknown function (DUF1305); Region: DUF1305; cl01404 640511015852 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 640511015853 Clp amino terminal domain; Region: Clp_N; pfam02861 640511015854 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 640511015855 Walker A motif; other site 640511015856 ATP binding site [chemical binding]; other site 640511015857 Walker B motif; other site 640511015858 arginine finger; other site 640511015859 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 640511015860 Walker A motif; other site 640511015861 ATP binding site [chemical binding]; other site 640511015862 Walker B motif; other site 640511015863 arginine finger; other site 640511015864 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 640511015865 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 640511015866 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 640511015867 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 640511015868 baseplate hub subunit and tail lysozyme; Provisional; Region: 5; PHA02596 640511015869 Gp5 C-terminal repeat (3 copies); Region: Gp5_C; pfam06715 640511015870 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 640511015871 Domain of unknown function (DUF4280); Region: DUF4280; pfam14107 640511015872 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 640511015873 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 640511015874 substrate binding pocket [chemical binding]; other site 640511015875 membrane-bound complex binding site; other site 640511015876 hinge residues; other site 640511015877 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 640511015878 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 640511015879 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 640511015880 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522; cl01406 640511015881 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 640511015882 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 640511015883 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 640511015884 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 640511015885 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 640511015886 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 640511015887 active site 640511015888 Zn binding site [ion binding]; other site 640511015889 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 640511015890 active site 640511015891 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 640511015892 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 640511015893 S-adenosylmethionine binding site [chemical binding]; other site 640511015894 Peptidase family M48; Region: Peptidase_M48; cl12018 640511015895 LemA family; Region: LemA; cl00742 640511015896 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 640511015897 putative active site pocket [active] 640511015898 dimerization interface [polypeptide binding]; other site 640511015899 putative catalytic residue [active] 640511015900 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 640511015901 nudix motif; other site 640511015902 Putative papain-like cysteine peptidase (DUF1796); Region: DUF1796; pfam08795 640511015903 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 640511015904 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 640511015905 ligand binding site [chemical binding]; other site 640511015906 flexible hinge region; other site 640511015907 Helix-turn-helix domains; Region: HTH; cl00088 640511015908 FecR protein; Region: FecR; pfam04773 640511015909 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 640511015910 CHASE2 domain; Region: CHASE2; cl01732 640511015911 cyclase homology domain; Region: CHD; cd07302 640511015912 nucleotidyl binding site; other site 640511015913 metal binding site [ion binding]; metal-binding site 640511015914 dimer interface [polypeptide binding]; other site 640511015915 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 640511015916 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 640511015917 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640511015918 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 640511015919 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 640511015920 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 640511015921 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 640511015922 S-adenosylmethionine binding site [chemical binding]; other site 640511015923 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 640511015924 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and...; Region: ABC_KpsT_Wzt; cd03220 640511015925 Walker A/P-loop; other site 640511015926 ATP binding site [chemical binding]; other site 640511015927 Q-loop/lid; other site 640511015928 ABC transporter signature motif; other site 640511015929 Walker B; other site 640511015930 D-loop; other site 640511015931 H-loop/switch region; other site 640511015932 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 640511015933 putative carbohydrate binding site [chemical binding]; other site 640511015934 ABC-2 type transporter; Region: ABC2_membrane; cl11417 640511015935 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 640511015936 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640511015937 type I secretion system ABC transporter, PrtD family; Region: type_I_sec_PrtD; TIGR01842 640511015938 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 640511015939 This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain. They export...; Region: ABCC_Protease_Secretion; cd03246 640511015940 Walker A/P-loop; other site 640511015941 ATP binding site [chemical binding]; other site 640511015942 Q-loop/lid; other site 640511015943 ABC transporter signature motif; other site 640511015944 Walker B; other site 640511015945 D-loop; other site 640511015946 H-loop/switch region; other site 640511015947 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 640511015948 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 640511015949 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 640511015950 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 640511015951 OpgC protein; Region: OpgC_C; cl00792 640511015952 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 640511015953 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 640511015954 ligand binding site [chemical binding]; other site 640511015955 flexible hinge region; other site 640511015956 Helix-turn-helix domains; Region: HTH; cl00088 640511015957 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 640511015958 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 640511015959 putative DNA binding site [nucleotide binding]; other site 640511015960 putative homodimer interface [polypeptide binding]; other site 640511015961 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 640511015962 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 640511015963 binding surface 640511015964 TPR repeat; Region: TPR_11; pfam13414 640511015965 TPR motif; other site 640511015966 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511015967 Helix-turn-helix domains; Region: HTH; cl00088 640511015968 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 640511015969 putative effector binding pocket; other site 640511015970 dimerization interface [polypeptide binding]; other site 640511015971 Protein of unknown function (DUF1348); Region: DUF1348; pfam07080 640511015972 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 640511015973 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 640511015974 phosphate binding site [ion binding]; other site 640511015975 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 640511015976 Ligand Binding Site [chemical binding]; other site 640511015977 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 640511015978 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511015979 Walker A/P-loop; other site 640511015980 ATP binding site [chemical binding]; other site 640511015981 Q-loop/lid; other site 640511015982 ABC transporter signature motif; other site 640511015983 Walker B; other site 640511015984 D-loop; other site 640511015985 H-loop/switch region; other site 640511015986 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 640511015987 TM-ABC transporter signature motif; other site 640511015988 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 640511015989 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 640511015990 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 640511015991 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 640511015992 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640511015993 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 640511015994 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640511015995 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 640511015996 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 640511015997 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 640511015998 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640511015999 Predicted permease [General function prediction only]; Region: COG2985 640511016000 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 640511016001 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 640511016002 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 640511016003 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 640511016004 PTS system glucose-specific transporter subunits IIBC; Provisional; Region: PRK11089 640511016005 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 640511016006 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 640511016007 active site turn [active] 640511016008 phosphorylation site [posttranslational modification] 640511016009 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 640511016010 active site turn [active] 640511016011 phosphorylation site [posttranslational modification] 640511016012 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cl00162 640511016013 HPr interaction site; other site 640511016014 glycerol kinase (GK) interaction site [polypeptide binding]; other site 640511016015 active site 640511016016 phosphorylation site [posttranslational modification] 640511016017 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 640511016018 dimerization domain swap beta strand [polypeptide binding]; other site 640511016019 regulatory protein interface [polypeptide binding]; other site 640511016020 active site 640511016021 regulatory phosphorylation site [posttranslational modification]; other site 640511016022 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 640511016023 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 640511016024 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 640511016025 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 640511016026 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 640511016027 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 640511016028 Ribbon-helix-helix domain; Region: RHH_4; cl01775 640511016029 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 640511016030 intracellular protease, PfpI family; Region: PfpI; TIGR01382 640511016031 conserved cys residue [active] 640511016032 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640511016033 Helix-turn-helix domains; Region: HTH; cl00088 640511016034 putative 3-hydroxyphenylpropionic transporter MhpT; Provisional; Region: PRK11551 640511016035 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511016036 putative substrate translocation pore; other site 640511016037 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 640511016038 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640511016039 Helix-turn-helix domains; Region: HTH; cl00088 640511016040 p-hydroxycinnamoyl CoA hydratase/lyase; Validated; Region: PRK09120 640511016041 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 640511016042 substrate binding site [chemical binding]; other site 640511016043 oxyanion hole (OAH) forming residues; other site 640511016044 trimer interface [polypeptide binding]; other site 640511016045 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640511016046 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 640511016047 NAD(P) binding site [chemical binding]; other site 640511016048 catalytic residues [active] 640511016049 feruloyl-CoA synthase; Reviewed; Region: PRK08180 640511016050 AMP-binding enzyme; Region: AMP-binding; cl15778 640511016051 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 640511016052 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 640511016053 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640511016054 active site 640511016055 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 640511016056 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511016057 NAD(P) binding site [chemical binding]; other site 640511016058 active site 640511016059 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 640511016060 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511016061 active site 640511016062 CCC1-related family of proteins; Region: CCC1_like; cl00278 640511016063 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 640511016064 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 640511016065 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 640511016066 putative active site [active] 640511016067 heme pocket [chemical binding]; other site 640511016068 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 640511016069 dimer interface [polypeptide binding]; other site 640511016070 phosphorylation site [posttranslational modification] 640511016071 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511016072 ATP binding site [chemical binding]; other site 640511016073 G-X-G motif; other site 640511016074 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 640511016075 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511016076 active site 640511016077 phosphorylation site [posttranslational modification] 640511016078 intermolecular recognition site; other site 640511016079 dimerization interface [polypeptide binding]; other site 640511016080 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 640511016081 DNA binding residues [nucleotide binding] 640511016082 dimerization interface [polypeptide binding]; other site 640511016083 Response regulator receiver domain; Region: Response_reg; pfam00072 640511016084 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511016085 active site 640511016086 phosphorylation site [posttranslational modification] 640511016087 intermolecular recognition site; other site 640511016088 dimerization interface [polypeptide binding]; other site 640511016089 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 640511016090 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 640511016091 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 640511016092 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 640511016093 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640511016094 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 640511016095 Paraquat-inducible protein A; Region: PqiA; pfam04403 640511016096 Paraquat-inducible protein A; Region: PqiA; pfam04403 640511016097 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 640511016098 mce related protein; Region: MCE; pfam02470 640511016099 mce related protein; Region: MCE; pfam02470 640511016100 mce related protein; Region: MCE; pfam02470 640511016101 Protein of unknown function (DUF330); Region: DUF330; cl01135 640511016102 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 640511016103 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 640511016104 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 640511016105 acetate kinase; Region: ackA; TIGR00016 640511016106 Acetokinase family; Region: Acetate_kinase; cl01029 640511016107 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07533 640511016108 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 640511016109 NAD binding site [chemical binding]; other site 640511016110 homotetramer interface [polypeptide binding]; other site 640511016111 homodimer interface [polypeptide binding]; other site 640511016112 substrate binding site [chemical binding]; other site 640511016113 active site 640511016114 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 640511016115 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 640511016116 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 640511016117 Sulfate transporter family; Region: Sulfate_transp; cl15842 640511016118 Sulfate transporter family; Region: Sulfate_transp; cl15842 640511016119 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 640511016120 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 640511016121 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 640511016122 active site 640511016123 metal binding site [ion binding]; metal-binding site 640511016124 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 640511016125 active site 640511016126 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 640511016127 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 640511016128 Trp docking motif [polypeptide binding]; other site 640511016129 active site 640511016130 Cytochrome c; Region: Cytochrom_C; cl11414 640511016131 Cytochrome c; Region: Cytochrom_C; cl11414 640511016132 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 640511016133 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 640511016134 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 640511016135 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 640511016136 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 640511016137 phosphoglycolate phosphatase; Provisional; Region: PRK13222 640511016138 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 640511016139 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 640511016140 motif II; other site 640511016141 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 640511016142 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 640511016143 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 640511016144 motif II; other site 640511016145 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 640511016146 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 640511016147 Gram-negative bacterial tonB protein; Region: TonB; cl10048 640511016148 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 640511016149 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 640511016150 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 640511016151 structural tetrad; other site 640511016152 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 640511016153 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; cl09173 640511016154 Cytochrome c; Region: Cytochrom_C; cl11414 640511016155 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640511016156 Cytochrome c; Region: Cytochrom_C; cl11414 640511016157 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 640511016158 putative catalytic site [active] 640511016159 putative metal binding site [ion binding]; other site 640511016160 putative phosphate binding site [ion binding]; other site 640511016161 Catalytic domain, repeat 1, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_1; cd09140 640511016162 Phospholipase D delta; Region: PLN03008 640511016163 putative active site [active] 640511016164 catalytic site [active] 640511016165 Catalytic domain, repeat 2, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_2; cd09143 640511016166 putative active site [active] 640511016167 catalytic site [active] 640511016168 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 640511016169 Protein of unknown function (DUF4242); Region: DUF4242; pfam14026 640511016170 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 640511016171 Predicted ATPase [General function prediction only]; Region: COG3899 640511016172 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511016173 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 640511016174 hydrophobic ligand binding site; other site 640511016175 Cupin domain; Region: Cupin_2; cl09118 640511016176 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 640511016177 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 640511016178 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 640511016179 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640511016180 putative ligand binding site [chemical binding]; other site 640511016181 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 640511016182 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 640511016183 TM-ABC transporter signature motif; other site 640511016184 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 640511016185 TM-ABC transporter signature motif; other site 640511016186 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 640511016187 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 640511016188 Walker A/P-loop; other site 640511016189 ATP binding site [chemical binding]; other site 640511016190 Q-loop/lid; other site 640511016191 ABC transporter signature motif; other site 640511016192 Walker B; other site 640511016193 D-loop; other site 640511016194 H-loop/switch region; other site 640511016195 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 640511016196 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 640511016197 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640511016198 putative ligand binding site [chemical binding]; other site 640511016199 D-xylulose kinases, Escherichia coli xylulokinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 640511016200 N- and C-terminal domain interface [polypeptide binding]; other site 640511016201 D-xylulose kinase; Region: XylB; TIGR01312 640511016202 active site 640511016203 catalytic site [active] 640511016204 metal binding site [ion binding]; metal-binding site 640511016205 xylulose binding site [chemical binding]; other site 640511016206 putative ATP binding site [chemical binding]; other site 640511016207 homodimer interface [polypeptide binding]; other site 640511016208 Cupin domain; Region: Cupin_2; cl09118 640511016209 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511016210 Helix-turn-helix domain; Region: HTH_18; pfam12833 640511016211 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511016212 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 640511016213 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511016214 Walker A/P-loop; other site 640511016215 ATP binding site [chemical binding]; other site 640511016216 Q-loop/lid; other site 640511016217 ABC transporter signature motif; other site 640511016218 Walker B; other site 640511016219 D-loop; other site 640511016220 H-loop/switch region; other site 640511016221 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 640511016222 Sorbitol dehydrogenase; Region: sorbitol_DH; cd05285 640511016223 inhibitor binding site; inhibition site 640511016224 catalytic Zn binding site [ion binding]; other site 640511016225 structural Zn binding site [ion binding]; other site 640511016226 NADP binding site [chemical binding]; other site 640511016227 tetramer interface [polypeptide binding]; other site 640511016228 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511016229 dimer interface [polypeptide binding]; other site 640511016230 conserved gate region; other site 640511016231 putative PBP binding loops; other site 640511016232 ABC-ATPase subunit interface; other site 640511016233 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 640511016234 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 640511016235 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 640511016236 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 640511016237 DNA-binding transcriptional regulator GlcC; Provisional; Region: PRK09990 640511016238 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511016239 DNA-binding site [nucleotide binding]; DNA binding site 640511016240 FCD domain; Region: FCD; cl11656 640511016241 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 640511016242 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511016243 putative substrate translocation pore; other site 640511016244 D-lactate dehydrogenase; Provisional; Region: PRK11183 640511016245 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 640511016246 Copper resistance protein D; Region: CopD; cl00563 640511016247 Bacterial Ig-like domain; Region: Big_5; cl01012 640511016248 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 640511016249 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 640511016250 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 640511016251 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 640511016252 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 640511016253 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 640511016254 Trp docking motif [polypeptide binding]; other site 640511016255 putative active site [active] 640511016256 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 640511016257 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 640511016258 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 640511016259 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 640511016260 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511016261 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 640511016262 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511016263 NAD(P) binding site [chemical binding]; other site 640511016264 active site 640511016265 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 640511016266 classical (c) SDRs; Region: SDR_c; cd05233 640511016267 NAD(P) binding site [chemical binding]; other site 640511016268 active site 640511016269 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511016270 Helix-turn-helix domains; Region: HTH; cl00088 640511016271 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 640511016272 dimerization interface [polypeptide binding]; other site 640511016273 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 640511016274 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511016275 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 640511016276 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 640511016277 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 640511016278 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 640511016279 shikimate binding site; other site 640511016280 NAD(P) binding site [chemical binding]; other site 640511016281 Helix-turn-helix domains; Region: HTH; cl00088 640511016282 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 640511016283 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 640511016284 putative C-terminal domain interface [polypeptide binding]; other site 640511016285 putative GSH binding site (G-site) [chemical binding]; other site 640511016286 putative dimer interface [polypeptide binding]; other site 640511016287 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 640511016288 putative N-terminal domain interface [polypeptide binding]; other site 640511016289 putative dimer interface [polypeptide binding]; other site 640511016290 putative substrate binding pocket (H-site) [chemical binding]; other site 640511016291 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640511016292 Helix-turn-helix domains; Region: HTH; cl00088 640511016293 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 640511016294 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511016295 NAD(P) binding site [chemical binding]; other site 640511016296 active site 640511016297 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 640511016298 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511016299 DNA-binding site [nucleotide binding]; DNA binding site 640511016300 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 640511016301 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511016302 homodimer interface [polypeptide binding]; other site 640511016303 catalytic residue [active] 640511016304 MSMEG_0572 family protein; Region: MSMEG_0572_fam; TIGR04044 640511016305 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 640511016306 Predicted amidohydrolase [General function prediction only]; Region: COG0388 640511016307 putative active site [active] 640511016308 catalytic triad [active] 640511016309 putative dimer interface [polypeptide binding]; other site 640511016310 radical SAM protein, MSMEG_0568 family; Region: rSAM_MSMEG_0568; TIGR04043 640511016311 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 640511016312 FeS/SAM binding site; other site 640511016313 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 640511016314 AIR synthase-related protein, sll0787 family; Region: AIR_rel_sll0787; TIGR04049 640511016315 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 640511016316 dimerization interface [polypeptide binding]; other site 640511016317 putative ATP binding site [chemical binding]; other site 640511016318 glycosyltransferase, MSMEG_0565 family; Region: MSMEG_0565_glyc; TIGR04047 640511016319 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 640511016320 MSMEG_0570 family protein; Region: MSMEG_0570_fam; TIGR04042 640511016321 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 640511016322 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511016323 biosynthesis cluster domain; Region: biosyn_clust_1; cl14822 640511016324 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 640511016325 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 640511016326 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 640511016327 B12 binding site [chemical binding]; other site 640511016328 cobalt ligand [ion binding]; other site 640511016329 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640511016330 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 640511016331 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640511016332 conserved cys residue [active] 640511016333 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511016334 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511016335 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 640511016336 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 640511016337 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640511016338 putative acyltransferase; Provisional; Region: PRK05790 640511016339 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 640511016340 dimer interface [polypeptide binding]; other site 640511016341 active site 640511016342 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 640511016343 putative active site pocket [active] 640511016344 dimerization interface [polypeptide binding]; other site 640511016345 putative catalytic residue [active] 640511016346 Helix-turn-helix domains; Region: HTH; cl00088 640511016347 LysR family transcriptional regulator; Provisional; Region: PRK14997 640511016348 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 640511016349 putative effector binding pocket; other site 640511016350 putative dimerization interface [polypeptide binding]; other site 640511016351 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640511016352 Helix-turn-helix domains; Region: HTH; cl00088 640511016353 Bacterial transcriptional regulator; Region: IclR; pfam01614 640511016354 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 640511016355 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 640511016356 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 640511016357 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511016358 dimer interface [polypeptide binding]; other site 640511016359 conserved gate region; other site 640511016360 putative PBP binding loops; other site 640511016361 ABC-ATPase subunit interface; other site 640511016362 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511016363 dimer interface [polypeptide binding]; other site 640511016364 conserved gate region; other site 640511016365 putative PBP binding loops; other site 640511016366 ABC-ATPase subunit interface; other site 640511016367 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 640511016368 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 640511016369 Walker A/P-loop; other site 640511016370 ATP binding site [chemical binding]; other site 640511016371 Q-loop/lid; other site 640511016372 ABC transporter signature motif; other site 640511016373 Walker B; other site 640511016374 D-loop; other site 640511016375 H-loop/switch region; other site 640511016376 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640511016377 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 640511016378 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 640511016379 Walker A/P-loop; other site 640511016380 ATP binding site [chemical binding]; other site 640511016381 Q-loop/lid; other site 640511016382 ABC transporter signature motif; other site 640511016383 Walker B; other site 640511016384 D-loop; other site 640511016385 H-loop/switch region; other site 640511016386 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640511016387 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 640511016388 active site 640511016389 dimethyl sulfone monooxygenase SfnG; Region: LLM_DMSO2_sfnG; TIGR04021 640511016390 dimer interface [polypeptide binding]; other site 640511016391 non-prolyl cis peptide bond; other site 640511016392 insertion regions; other site 640511016393 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640511016394 active site 640511016395 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 640511016396 active site residue [active] 640511016397 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 640511016398 active site residue [active] 640511016399 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 640511016400 active site residue [active] 640511016401 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 640511016402 active site residue [active] 640511016403 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 640511016404 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 640511016405 active site 640511016406 non-prolyl cis peptide bond; other site 640511016407 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 640511016408 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 640511016409 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 640511016410 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 640511016411 Walker A/P-loop; other site 640511016412 ATP binding site [chemical binding]; other site 640511016413 Q-loop/lid; other site 640511016414 ABC transporter signature motif; other site 640511016415 Walker B; other site 640511016416 D-loop; other site 640511016417 H-loop/switch region; other site 640511016418 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 640511016419 NMT1-like family; Region: NMT1_2; cl15260 640511016420 Cysteine dioxygenase type I; Region: CDO_I; cl15835 640511016421 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 640511016422 active site residue [active] 640511016423 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 640511016424 active site residue [active] 640511016425 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 640511016426 active site residue [active] 640511016427 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 640511016428 active site residue [active] 640511016429 NMT1-like family; Region: NMT1_2; cl15260 640511016430 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 640511016431 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 640511016432 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 640511016433 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 640511016434 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511016435 dimer interface [polypeptide binding]; other site 640511016436 conserved gate region; other site 640511016437 putative PBP binding loops; other site 640511016438 ABC-ATPase subunit interface; other site 640511016439 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511016440 dimer interface [polypeptide binding]; other site 640511016441 conserved gate region; other site 640511016442 putative PBP binding loops; other site 640511016443 ABC-ATPase subunit interface; other site 640511016444 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 640511016445 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 640511016446 Walker A/P-loop; other site 640511016447 ATP binding site [chemical binding]; other site 640511016448 Q-loop/lid; other site 640511016449 ABC transporter signature motif; other site 640511016450 Walker B; other site 640511016451 D-loop; other site 640511016452 H-loop/switch region; other site 640511016453 TOBE domain; Region: TOBE_2; cl01440 640511016454 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 640511016455 oligomerisation interface [polypeptide binding]; other site 640511016456 mobile loop; other site 640511016457 roof hairpin; other site 640511016458 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 640511016459 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 640511016460 ring oligomerisation interface [polypeptide binding]; other site 640511016461 ATP/Mg binding site [chemical binding]; other site 640511016462 stacking interactions; other site 640511016463 hinge regions; other site 640511016464 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 640511016465 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 640511016466 putative dimer interface [polypeptide binding]; other site 640511016467 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 640511016468 putative dimer interface [polypeptide binding]; other site 640511016469 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 640511016470 putative dimer interface [polypeptide binding]; other site 640511016471 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 640511016472 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 640511016473 Walker A/P-loop; other site 640511016474 ATP binding site [chemical binding]; other site 640511016475 Q-loop/lid; other site 640511016476 ABC transporter signature motif; other site 640511016477 Walker B; other site 640511016478 D-loop; other site 640511016479 H-loop/switch region; other site 640511016480 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 640511016481 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 640511016482 Walker A/P-loop; other site 640511016483 ATP binding site [chemical binding]; other site 640511016484 Q-loop/lid; other site 640511016485 ABC transporter signature motif; other site 640511016486 Walker B; other site 640511016487 D-loop; other site 640511016488 H-loop/switch region; other site 640511016489 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640511016490 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 640511016491 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 640511016492 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511016493 dimer interface [polypeptide binding]; other site 640511016494 conserved gate region; other site 640511016495 putative PBP binding loops; other site 640511016496 ABC-ATPase subunit interface; other site 640511016497 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 640511016498 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511016499 dimer interface [polypeptide binding]; other site 640511016500 conserved gate region; other site 640511016501 putative PBP binding loops; other site 640511016502 ABC-ATPase subunit interface; other site 640511016503 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 640511016504 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 640511016505 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 640511016506 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 640511016507 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511016508 dimer interface [polypeptide binding]; other site 640511016509 conserved gate region; other site 640511016510 putative PBP binding loops; other site 640511016511 ABC-ATPase subunit interface; other site 640511016512 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511016513 dimer interface [polypeptide binding]; other site 640511016514 conserved gate region; other site 640511016515 putative PBP binding loops; other site 640511016516 ABC-ATPase subunit interface; other site 640511016517 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 640511016518 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 640511016519 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 640511016520 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511016521 Walker A/P-loop; other site 640511016522 ATP binding site [chemical binding]; other site 640511016523 Q-loop/lid; other site 640511016524 ABC transporter signature motif; other site 640511016525 Walker B; other site 640511016526 D-loop; other site 640511016527 H-loop/switch region; other site 640511016528 TOBE domain; Region: TOBE_2; cl01440 640511016529 Putative catalytic domain of uncharacterized prokaryotic polysaccharide deacetylases similar to bacterial PuuE allantoinases; Region: CE4_PuuE_like; cd10979 640511016530 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 640511016531 putative active site [active] 640511016532 putative catalytic site [active] 640511016533 Transcriptional regulators [Transcription]; Region: GntR; COG1802 640511016534 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511016535 DNA-binding site [nucleotide binding]; DNA binding site 640511016536 FCD domain; Region: FCD; cl11656 640511016537 Flavin Reductases; Region: FlaRed; cl00801 640511016538 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 640511016539 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 640511016540 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 640511016541 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 640511016542 active site 640511016543 non-prolyl cis peptide bond; other site 640511016544 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 640511016545 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 640511016546 Flavin binding site [chemical binding]; other site 640511016547 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 640511016548 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 640511016549 Walker A/P-loop; other site 640511016550 ATP binding site [chemical binding]; other site 640511016551 Q-loop/lid; other site 640511016552 ABC transporter signature motif; other site 640511016553 Walker B; other site 640511016554 D-loop; other site 640511016555 H-loop/switch region; other site 640511016556 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 640511016557 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 640511016558 TM-ABC transporter signature motif; other site 640511016559 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 640511016560 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 640511016561 Flavin binding site [chemical binding]; other site 640511016562 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 640511016563 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640511016564 putative ligand binding site [chemical binding]; other site 640511016565 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 640511016566 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 640511016567 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 640511016568 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640511016569 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 640511016570 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 640511016571 Cupin domain; Region: Cupin_2; cl09118 640511016572 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 640511016573 FAD binding pocket [chemical binding]; other site 640511016574 FAD binding motif [chemical binding]; other site 640511016575 phosphate binding motif [ion binding]; other site 640511016576 beta-alpha-beta structure motif; other site 640511016577 NAD binding pocket [chemical binding]; other site 640511016578 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 640511016579 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 640511016580 Helix-turn-helix domains; Region: HTH; cl00088 640511016581 Helix-turn-helix domains; Region: HTH; cl00088 640511016582 Integrase core domain; Region: rve; cl01316 640511016583 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511016584 Helix-turn-helix domains; Region: HTH; cl00088 640511016585 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 640511016586 dimerization interface [polypeptide binding]; other site 640511016587 metabolite-proton symporter; Region: 2A0106; TIGR00883 640511016588 choline dehydrogenase; Validated; Region: PRK02106 640511016589 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511016590 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 640511016591 enoyl-CoA hydratase; Provisional; Region: PRK06688 640511016592 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 640511016593 substrate binding site [chemical binding]; other site 640511016594 oxyanion hole (OAH) forming residues; other site 640511016595 trimer interface [polypeptide binding]; other site 640511016596 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 640511016597 AMP-binding enzyme; Region: AMP-binding; cl15778 640511016598 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 640511016599 4-hydroxybenzoyl-CoA reductase, gamma subunit; Region: 4hydroxCoAred; TIGR03193 640511016600 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 640511016601 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 640511016602 FAD binding domain in molybdopterin dehydrogenase; Region: FAD_binding_5; pfam00941 640511016603 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 640511016604 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 640511016605 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 640511016606 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640511016607 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 640511016608 putative hydrophobic ligand binding site [chemical binding]; other site 640511016609 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 640511016610 Flavoprotein; Region: Flavoprotein; cl08021 640511016611 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 640511016612 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511016613 Helix-turn-helix domains; Region: HTH; cl00088 640511016614 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 640511016615 dimerization interface [polypeptide binding]; other site 640511016616 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640511016617 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 640511016618 NAD(P) binding site [chemical binding]; other site 640511016619 catalytic residues [active] 640511016620 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 640511016621 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 640511016622 XdhC Rossmann domain; Region: XdhC_C; pfam13478 640511016623 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 640511016624 Helix-turn-helix domains; Region: HTH; cl00088 640511016625 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 640511016626 dimerization interface [polypeptide binding]; other site 640511016627 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 640511016628 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 640511016629 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 640511016630 active site 640511016631 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511016632 metabolite-proton symporter; Region: 2A0106; TIGR00883 640511016633 putative substrate translocation pore; other site 640511016634 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]; Region: COG3970 640511016635 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 640511016636 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 640511016637 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 640511016638 Cupin domain; Region: Cupin_2; cl09118 640511016639 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511016640 (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 640511016641 dimer interaction site [polypeptide binding]; other site 640511016642 substrate-binding tunnel; other site 640511016643 active site 640511016644 catalytic site [active] 640511016645 substrate binding site [chemical binding]; other site 640511016646 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 640511016647 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640511016648 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 640511016649 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640511016650 active site 640511016651 (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 640511016652 dimer interaction site [polypeptide binding]; other site 640511016653 substrate-binding tunnel; other site 640511016654 active site 640511016655 catalytic site [active] 640511016656 substrate binding site [chemical binding]; other site 640511016657 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 640511016658 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 640511016659 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 640511016660 DctM-like transporters; Region: DctM; pfam06808 640511016661 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 640511016662 enoyl-CoA hydratase-isomerase; Provisional; Region: PRK09674 640511016663 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 640511016664 substrate binding site [chemical binding]; other site 640511016665 oxyanion hole (OAH) forming residues; other site 640511016666 trimer interface [polypeptide binding]; other site 640511016667 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 640511016668 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640511016669 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK06263 640511016670 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511016671 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 640511016672 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 640511016673 Transposase; Region: DEDD_Tnp_IS110; pfam01548 640511016674 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 640511016675 lytic murein transglycosylase; Provisional; Region: PRK11619 640511016676 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 640511016677 N-acetyl-D-glucosamine binding site [chemical binding]; other site 640511016678 catalytic residue [active] 640511016679 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 640511016680 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 640511016681 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 640511016682 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511016683 ATP binding site [chemical binding]; other site 640511016684 Mg2+ binding site [ion binding]; other site 640511016685 G-X-G motif; other site 640511016686 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 640511016687 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511016688 active site 640511016689 phosphorylation site [posttranslational modification] 640511016690 intermolecular recognition site; other site 640511016691 dimerization interface [polypeptide binding]; other site 640511016692 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 640511016693 DNA binding site [nucleotide binding] 640511016694 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 640511016695 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511016696 FAD dependent oxidoreductase; Region: DAO; pfam01266 640511016697 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 640511016698 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 640511016699 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 640511016700 FAD dependent oxidoreductase; Region: DAO; pfam01266 640511016701 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511016702 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 640511016703 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511016704 dimer interface [polypeptide binding]; other site 640511016705 conserved gate region; other site 640511016706 putative PBP binding loops; other site 640511016707 ABC-ATPase subunit interface; other site 640511016708 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511016709 putative PBP binding loops; other site 640511016710 dimer interface [polypeptide binding]; other site 640511016711 ABC-ATPase subunit interface; other site 640511016712 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 640511016713 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511016714 Walker A/P-loop; other site 640511016715 ATP binding site [chemical binding]; other site 640511016716 Q-loop/lid; other site 640511016717 ABC transporter signature motif; other site 640511016718 Walker B; other site 640511016719 D-loop; other site 640511016720 H-loop/switch region; other site 640511016721 TOBE domain; Region: TOBE_2; cl01440 640511016722 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 640511016723 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 640511016724 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 640511016725 Helix-turn-helix domains; Region: HTH; cl00088 640511016726 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 640511016727 dimerization interface [polypeptide binding]; other site 640511016728 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511016729 Helix-turn-helix domains; Region: HTH; cl00088 640511016730 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 640511016731 dimerization interface [polypeptide binding]; other site 640511016732 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 640511016733 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511016734 putative substrate translocation pore; other site 640511016735 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511016736 FAD dependent oxidoreductase; Region: DAO; pfam01266 640511016737 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 640511016738 DDE domain; Region: DDE_Tnp_IS240; pfam13610 640511016739 Integrase core domain; Region: rve; cl01316 640511016740 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 640511016741 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 640511016742 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640511016743 dimer interface [polypeptide binding]; other site 640511016744 putative CheW interface [polypeptide binding]; other site 640511016745 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 640511016746 trimer interface [polypeptide binding]; other site 640511016747 eyelet of channel; other site 640511016748 3-(3-hydroxyphenyl)propionate hydroxylase; Validated; Region: mhpA; PRK06183 640511016749 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511016750 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511016751 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 640511016752 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 640511016753 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 640511016754 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 640511016755 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 640511016756 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 640511016757 Subunit B of Class III Extradiol ring-cleavage dioxygenases; Region: Extradiol_Dioxygenase_3B_like; cl00599 640511016758 active site 640511016759 metal binding site [ion binding]; metal-binding site 640511016760 benzoate transport; Region: 2A0115; TIGR00895 640511016761 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511016762 putative substrate translocation pore; other site 640511016763 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511016764 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511016765 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 640511016766 NAD(P) binding site [chemical binding]; other site 640511016767 active site 640511016768 3-(3-hydroxyphenyl)propionate hydroxylase; Validated; Region: mhpA; PRK06183 640511016769 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511016770 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511016771 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 640511016772 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 640511016773 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640511016774 Helix-turn-helix domains; Region: HTH; cl00088 640511016775 Bacterial transcriptional regulator; Region: IclR; pfam01614 640511016776 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 640511016777 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640511016778 putative active site [active] 640511016779 putative metal binding site [ion binding]; other site 640511016780 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 640511016781 3-(3-hydroxyphenyl)propionate hydroxylase; Validated; Region: mhpA; PRK06183 640511016782 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511016783 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511016784 metabolite-proton symporter; Region: 2A0106; TIGR00883 640511016785 putative substrate translocation pore; other site 640511016786 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 640511016787 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 640511016788 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511016789 putative substrate translocation pore; other site 640511016790 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 640511016791 active site 640511016792 catalytic residues [active] 640511016793 metal binding site [ion binding]; metal-binding site 640511016794 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 640511016795 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 640511016796 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 640511016797 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511016798 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 640511016799 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640511016800 putative active site [active] 640511016801 putative metal binding site [ion binding]; other site 640511016802 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640511016803 Helix-turn-helix domains; Region: HTH; cl00088 640511016804 Bacterial transcriptional regulator; Region: IclR; pfam01614 640511016805 DDE domain; Region: DDE_Tnp_IS240; pfam13610 640511016806 Integrase core domain; Region: rve; cl01316 640511016807 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511016808 DNA-binding site [nucleotide binding]; DNA binding site 640511016809 FCD domain; Region: FCD; cl11656 640511016810 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 640511016811 Transposase; Region: DEDD_Tnp_IS110; pfam01548 640511016812 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 640511016813 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 640511016814 Transposase; Region: DEDD_Tnp_IS110; pfam01548 640511016815 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 640511016816 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 640511016817 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 640511016818 active site 640511016819 non-prolyl cis peptide bond; other site 640511016820 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 640511016821 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640511016822 active site 640511016823 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 640511016824 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 640511016825 Flavin binding site [chemical binding]; other site 640511016826 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511016827 dimer interface [polypeptide binding]; other site 640511016828 conserved gate region; other site 640511016829 ABC-ATPase subunit interface; other site 640511016830 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 640511016831 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 640511016832 Walker A/P-loop; other site 640511016833 ATP binding site [chemical binding]; other site 640511016834 Q-loop/lid; other site 640511016835 ABC transporter signature motif; other site 640511016836 Walker B; other site 640511016837 D-loop; other site 640511016838 H-loop/switch region; other site 640511016839 NIL domain; Region: NIL; cl09633 640511016840 NMT1-like family; Region: NMT1_2; cl15260 640511016841 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 640511016842 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 640511016843 dimer interface [polypeptide binding]; other site 640511016844 active site 640511016845 non-prolyl cis peptide bond; other site 640511016846 insertion regions; other site 640511016847 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 640511016848 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 640511016849 Cysteine dioxygenase type I; Region: CDO_I; cl15835 640511016850 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 640511016851 active site residue [active] 640511016852 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 640511016853 active site residue [active] 640511016854 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 640511016855 active site residue [active] 640511016856 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 640511016857 active site residue [active] 640511016858 Helix-turn-helix domains; Region: HTH; cl00088 640511016859 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 640511016860 dimerization interface [polypeptide binding]; other site 640511016861 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 640511016862 substrate binding pocket [chemical binding]; other site 640511016863 membrane-bound complex binding site; other site 640511016864 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 640511016865 active site 640511016866 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 640511016867 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 640511016868 dimer interface [polypeptide binding]; other site 640511016869 active site 640511016870 non-prolyl cis peptide bond; other site 640511016871 insertion regions; other site 640511016872 NMT1-like family; Region: NMT1_2; cl15260 640511016873 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 640511016874 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 640511016875 Walker A/P-loop; other site 640511016876 ATP binding site [chemical binding]; other site 640511016877 Q-loop/lid; other site 640511016878 ABC transporter signature motif; other site 640511016879 Walker B; other site 640511016880 D-loop; other site 640511016881 H-loop/switch region; other site 640511016882 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 640511016883 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 640511016884 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 640511016885 NMT1-like family; Region: NMT1_2; cl15260 640511016886 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 640511016887 putative FMN binding site [chemical binding]; other site 640511016888 OsmC-like protein; Region: OsmC; cl00767 640511016889 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 640511016890 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640511016891 active site 640511016892 dimethyl sulfone monooxygenase SfnG; Region: LLM_DMSO2_sfnG; TIGR04021 640511016893 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 640511016894 active site 640511016895 dimer interface [polypeptide binding]; other site 640511016896 non-prolyl cis peptide bond; other site 640511016897 insertion regions; other site 640511016898 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 640511016899 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 640511016900 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 640511016901 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 640511016902 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 640511016903 active site 640511016904 catalytic tetrad [active] 640511016905 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 640511016906 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 640511016907 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 640511016908 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 640511016909 Walker A/P-loop; other site 640511016910 ATP binding site [chemical binding]; other site 640511016911 Q-loop/lid; other site 640511016912 ABC transporter signature motif; other site 640511016913 Walker B; other site 640511016914 D-loop; other site 640511016915 H-loop/switch region; other site 640511016916 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640511016917 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 640511016918 Walker A/P-loop; other site 640511016919 ATP binding site [chemical binding]; other site 640511016920 Q-loop/lid; other site 640511016921 ABC transporter signature motif; other site 640511016922 Walker B; other site 640511016923 D-loop; other site 640511016924 H-loop/switch region; other site 640511016925 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640511016926 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511016927 dimer interface [polypeptide binding]; other site 640511016928 conserved gate region; other site 640511016929 putative PBP binding loops; other site 640511016930 ABC-ATPase subunit interface; other site 640511016931 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 640511016932 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511016933 dimer interface [polypeptide binding]; other site 640511016934 conserved gate region; other site 640511016935 putative PBP binding loops; other site 640511016936 ABC-ATPase subunit interface; other site 640511016937 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 640511016938 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 640511016939 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 640511016940 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 640511016941 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 640511016942 Walker A/P-loop; other site 640511016943 ATP binding site [chemical binding]; other site 640511016944 Q-loop/lid; other site 640511016945 ABC transporter signature motif; other site 640511016946 Walker B; other site 640511016947 D-loop; other site 640511016948 H-loop/switch region; other site 640511016949 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 640511016950 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 640511016951 Walker A/P-loop; other site 640511016952 ATP binding site [chemical binding]; other site 640511016953 Q-loop/lid; other site 640511016954 ABC transporter signature motif; other site 640511016955 Walker B; other site 640511016956 D-loop; other site 640511016957 H-loop/switch region; other site 640511016958 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 640511016959 TM-ABC transporter signature motif; other site 640511016960 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 640511016961 TM-ABC transporter signature motif; other site 640511016962 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 640511016963 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems; Region: PBP1_ABC_ligand_binding_like_14; cd06349 640511016964 putative ligand binding site [chemical binding]; other site 640511016965 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 640511016966 Helix-turn-helix domains; Region: HTH; cl00088 640511016967 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 640511016968 dimerization interface [polypeptide binding]; other site 640511016969 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 640511016970 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511016971 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 640511016972 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 640511016973 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 640511016974 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 640511016975 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems; Region: PBP1_ABC_ligand_binding_like_14; cd06349 640511016976 putative ligand binding site [chemical binding]; other site 640511016977 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 640511016978 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 640511016979 active site 640511016980 non-prolyl cis peptide bond; other site 640511016981 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 640511016982 oligomerisation interface [polypeptide binding]; other site 640511016983 mobile loop; other site 640511016984 roof hairpin; other site 640511016985 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 640511016986 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 640511016987 ring oligomerisation interface [polypeptide binding]; other site 640511016988 ATP/Mg binding site [chemical binding]; other site 640511016989 stacking interactions; other site 640511016990 hinge regions; other site 640511016991 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 640511016992 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 640511016993 active site 640511016994 non-prolyl cis peptide bond; other site 640511016995 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 640511016996 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 640511016997 active site 640511016998 non-prolyl cis peptide bond; other site 640511016999 Protein of unknown function (DUF3088); Region: DUF3088; pfam11287 640511017000 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 640511017001 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 640511017002 Flavin binding site [chemical binding]; other site 640511017003 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 640511017004 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 640511017005 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 640511017006 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 640511017007 dimerization interface [polypeptide binding]; other site 640511017008 substrate binding pocket [chemical binding]; other site 640511017009 TIGR03118 family protein; Region: PEPCTERM_chp_1 640511017010 Phage integrase protein; Region: DUF3701; pfam12482 640511017011 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 640511017012 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 640511017013 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 640511017014 Int/Topo IB signature motif; other site 640511017015 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 640511017016 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 640511017017 Walker A/P-loop; other site 640511017018 ATP binding site [chemical binding]; other site 640511017019 Q-loop/lid; other site 640511017020 ABC transporter signature motif; other site 640511017021 Walker B; other site 640511017022 D-loop; other site 640511017023 H-loop/switch region; other site 640511017024 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 640511017025 TM-ABC transporter signature motif; other site 640511017026 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 640511017027 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640511017028 ligand binding site [chemical binding]; other site 640511017029 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640511017030 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 640511017031 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 640511017032 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640511017033 malic enzyme; Reviewed; Region: PRK12861 640511017034 Malic enzyme, N-terminal domain; Region: malic; pfam00390 640511017035 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 640511017036 putative NAD(P) binding site [chemical binding]; other site 640511017037 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 640511017038 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 640511017039 Helix-turn-helix domains; Region: HTH; cl00088 640511017040 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 640511017041 dimerization interface [polypeptide binding]; other site 640511017042 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511017043 Helix-turn-helix domains; Region: HTH; cl00088 640511017044 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 640511017045 dimerization interface [polypeptide binding]; other site 640511017046 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 640511017047 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 640511017048 dimer interface [polypeptide binding]; other site 640511017049 active site 640511017050 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 640511017051 substrate binding site [chemical binding]; other site 640511017052 catalytic residue [active] 640511017053 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 640511017054 homotrimer interaction site [polypeptide binding]; other site 640511017055 putative active site [active] 640511017056 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 640511017057 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 640511017058 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 640511017059 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 640511017060 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640511017061 catalytic residue [active] 640511017062 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640511017063 Helix-turn-helix domains; Region: HTH; cl00088 640511017064 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 640511017065 EamA-like transporter family; Region: EamA; cl01037 640511017066 EamA-like transporter family; Region: EamA; cl01037 640511017067 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640511017068 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 640511017069 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640511017070 classical (c) SDRs; Region: SDR_c; cd05233 640511017071 NAD(P) binding site [chemical binding]; other site 640511017072 active site 640511017073 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 640511017074 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 640511017075 putative metal binding site [ion binding]; other site 640511017076 putative homodimer interface [polypeptide binding]; other site 640511017077 putative homotetramer interface [polypeptide binding]; other site 640511017078 putative homodimer-homodimer interface [polypeptide binding]; other site 640511017079 putative allosteric switch controlling residues; other site 640511017080 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 640511017081 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 640511017082 substrate binding site [chemical binding]; other site 640511017083 catalytic Zn binding site [ion binding]; other site 640511017084 NAD binding site [chemical binding]; other site 640511017085 structural Zn binding site [ion binding]; other site 640511017086 dimer interface [polypeptide binding]; other site 640511017087 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 640511017088 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 640511017089 Helix-turn-helix domains; Region: HTH; cl00088 640511017090 TOMM system kinase/cyclase fusion protein; Region: TOMM_kin_cyc; TIGR03903 640511017091 cyclase homology domain; Region: CHD; cd07302 640511017092 nucleotidyl binding site; other site 640511017093 metal binding site [ion binding]; metal-binding site 640511017094 dimer interface [polypeptide binding]; other site 640511017095 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511017096 Ubiquitin-like proteins; Region: UBQ; cl00155 640511017097 EamA-like transporter family; Region: EamA; cl01037 640511017098 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 640511017099 EamA-like transporter family; Region: EamA; cl01037 640511017100 Helix-turn-helix domains; Region: HTH; cl00088 640511017101 Predicted acetyltransferase [General function prediction only]; Region: COG3153 640511017102 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640511017103 Coenzyme A binding pocket [chemical binding]; other site 640511017104 BON domain; Region: BON; cl02771 640511017105 High potential iron-sulfur protein; Region: HIPIP; pfam01355 640511017106 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 640511017107 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 640511017108 active site 640511017109 HIGH motif; other site 640511017110 dimer interface [polypeptide binding]; other site 640511017111 KMSKS motif; other site 640511017112 Dehydratase family; Region: ILVD_EDD; cl00340 640511017113 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 640511017114 octamerization interface [polypeptide binding]; other site 640511017115 diferric-oxygen binding site [ion binding]; other site 640511017116 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 640511017117 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 640511017118 E3 interaction surface; other site 640511017119 lipoyl attachment site [posttranslational modification]; other site 640511017120 e3 binding domain; Region: E3_binding; pfam02817 640511017121 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 640511017122 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 640511017123 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 640511017124 alpha subunit interface [polypeptide binding]; other site 640511017125 TPP binding site [chemical binding]; other site 640511017126 heterodimer interface [polypeptide binding]; other site 640511017127 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 640511017128 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 640511017129 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 640511017130 tetramer interface [polypeptide binding]; other site 640511017131 TPP-binding site [chemical binding]; other site 640511017132 heterodimer interface [polypeptide binding]; other site 640511017133 phosphorylation loop region [posttranslational modification] 640511017134 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640511017135 Helix-turn-helix domains; Region: HTH; cl00088 640511017136 Bacterial transcriptional regulator; Region: IclR; pfam01614 640511017137 metabolite-proton symporter; Region: 2A0106; TIGR00883 640511017138 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511017139 putative substrate translocation pore; other site 640511017140 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 640511017141 trimer interface [polypeptide binding]; other site 640511017142 active site 640511017143 dimer interface [polypeptide binding]; other site 640511017144 NIPSNAP; Region: NIPSNAP; pfam07978 640511017145 putative succinate dehydrogenase; Reviewed; Region: PRK12842 640511017146 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511017147 short chain dehydrogenase; Provisional; Region: PRK08628 640511017148 classical (c) SDRs; Region: SDR_c; cd05233 640511017149 NAD(P) binding site [chemical binding]; other site 640511017150 active site 640511017151 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 640511017152 Cupin domain; Region: Cupin_2; cl09118 640511017153 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511017154 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 640511017155 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 640511017156 catalytic loop [active] 640511017157 iron binding site [ion binding]; other site 640511017158 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 640511017159 FAD binding pocket [chemical binding]; other site 640511017160 FAD binding motif [chemical binding]; other site 640511017161 phosphate binding motif [ion binding]; other site 640511017162 beta-alpha-beta structure motif; other site 640511017163 NAD binding pocket [chemical binding]; other site 640511017164 FCD domain; Region: FCD; cl11656 640511017165 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 640511017166 alpha-glucosidase; Provisional; Region: PRK10137 640511017167 Mannosyl oligosaccharide glucosidase; Region: Glyco_hydro_63; pfam03200 640511017168 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 640511017169 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 640511017170 active site clefts [active] 640511017171 zinc binding site [ion binding]; other site 640511017172 dimer interface [polypeptide binding]; other site 640511017173 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 640511017174 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 640511017175 putative ligand binding site [chemical binding]; other site 640511017176 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 640511017177 TM-ABC transporter signature motif; other site 640511017178 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 640511017179 TM-ABC transporter signature motif; other site 640511017180 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 640511017181 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 640511017182 Walker A/P-loop; other site 640511017183 ATP binding site [chemical binding]; other site 640511017184 Q-loop/lid; other site 640511017185 ABC transporter signature motif; other site 640511017186 Walker B; other site 640511017187 D-loop; other site 640511017188 H-loop/switch region; other site 640511017189 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 640511017190 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 640511017191 Walker A/P-loop; other site 640511017192 ATP binding site [chemical binding]; other site 640511017193 Q-loop/lid; other site 640511017194 ABC transporter signature motif; other site 640511017195 Walker B; other site 640511017196 D-loop; other site 640511017197 H-loop/switch region; other site 640511017198 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; cl01922 640511017199 BNR repeat-like domain; Region: BNR_2; pfam13088 640511017200 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; cl01922 640511017201 Asp-box motif; other site 640511017202 Asp-box motif; other site 640511017203 Uncharacterized conserved protein [Function unknown]; Region: COG1912 640511017204 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 640511017205 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511017206 Helix-turn-helix domains; Region: HTH; cl00088 640511017207 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 640511017208 putative effector binding pocket; other site 640511017209 dimerization interface [polypeptide binding]; other site 640511017210 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 640511017211 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 640511017212 active site 640511017213 catalytic tetrad [active] 640511017214 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511017215 putative substrate translocation pore; other site 640511017216 transcriptional regulator; Provisional; Region: PRK10632 640511017217 Helix-turn-helix domains; Region: HTH; cl00088 640511017218 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 640511017219 putative effector binding pocket; other site 640511017220 putative dimerization interface [polypeptide binding]; other site 640511017221 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 640511017222 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640511017223 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 640511017224 Putative mono-oxygenase ydhR; Region: ydhR; cl07420 640511017225 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640511017226 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 640511017227 DNA binding residues [nucleotide binding] 640511017228 dimerization interface [polypeptide binding]; other site 640511017229 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 640511017230 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 640511017231 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 640511017232 protein binding site [polypeptide binding]; other site 640511017233 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 640511017234 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 640511017235 IS2 transposase TnpB; Reviewed; Region: PRK09409 640511017236 HTH-like domain; Region: HTH_21; pfam13276 640511017237 Integrase core domain; Region: rve; cl01316 640511017238 Integrase core domain; Region: rve_3; cl15866 640511017239 Helix-turn-helix domains; Region: HTH; cl00088 640511017240 glutathionine S-transferase; Provisional; Region: PRK10542 640511017241 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 640511017242 C-terminal domain interface [polypeptide binding]; other site 640511017243 GSH binding site (G-site) [chemical binding]; other site 640511017244 dimer interface [polypeptide binding]; other site 640511017245 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 640511017246 dimer interface [polypeptide binding]; other site 640511017247 substrate binding pocket (H-site) [chemical binding]; other site 640511017248 N-terminal domain interface [polypeptide binding]; other site 640511017249 Cupin domain; Region: Cupin_2; cl09118 640511017250 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640511017251 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511017252 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 640511017253 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 640511017254 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 640511017255 Phasin protein; Region: Phasin_2; cl11491 640511017256 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640511017257 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511017258 active site 640511017259 phosphorylation site [posttranslational modification] 640511017260 intermolecular recognition site; other site 640511017261 dimerization interface [polypeptide binding]; other site 640511017262 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 640511017263 DNA binding residues [nucleotide binding] 640511017264 dimerization interface [polypeptide binding]; other site 640511017265 Protein of unknown function (DUF3047); Region: DUF3047; pfam11249 640511017266 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 640511017267 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 640511017268 putative active site [active] 640511017269 heme pocket [chemical binding]; other site 640511017270 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 640511017271 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 640511017272 putative active site [active] 640511017273 heme pocket [chemical binding]; other site 640511017274 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 640511017275 dimer interface [polypeptide binding]; other site 640511017276 phosphorylation site [posttranslational modification] 640511017277 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511017278 ATP binding site [chemical binding]; other site 640511017279 Mg2+ binding site [ion binding]; other site 640511017280 G-X-G motif; other site 640511017281 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 640511017282 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511017283 active site 640511017284 phosphorylation site [posttranslational modification] 640511017285 intermolecular recognition site; other site 640511017286 dimerization interface [polypeptide binding]; other site 640511017287 Response regulator receiver domain; Region: Response_reg; pfam00072 640511017288 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511017289 active site 640511017290 phosphorylation site [posttranslational modification] 640511017291 intermolecular recognition site; other site 640511017292 dimerization interface [polypeptide binding]; other site 640511017293 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 640511017294 nudix motif; other site 640511017295 Predicted membrane protein [Function unknown]; Region: COG4425 640511017296 Predicted membrane protein (DUF2319); Region: DUF2319; pfam10081 640511017297 Transcriptional regulators [Transcription]; Region: FadR; COG2186 640511017298 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511017299 DNA-binding site [nucleotide binding]; DNA binding site 640511017300 FCD domain; Region: FCD; cl11656 640511017301 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 640511017302 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640511017303 putative ligand binding site [chemical binding]; other site 640511017304 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 640511017305 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 640511017306 Walker A/P-loop; other site 640511017307 ATP binding site [chemical binding]; other site 640511017308 Q-loop/lid; other site 640511017309 ABC transporter signature motif; other site 640511017310 Walker B; other site 640511017311 D-loop; other site 640511017312 H-loop/switch region; other site 640511017313 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 640511017314 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 640511017315 TM-ABC transporter signature motif; other site 640511017316 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 640511017317 TM-ABC transporter signature motif; other site 640511017318 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 640511017319 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 640511017320 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 640511017321 acetylornithine deacetylase (ArgE); Region: AcOrn-deacetyl; TIGR01892 640511017322 metal binding site [ion binding]; metal-binding site 640511017323 putative dimer interface [polypeptide binding]; other site 640511017324 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 640511017325 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 640511017326 homotrimer interaction site [polypeptide binding]; other site 640511017327 putative active site [active] 640511017328 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 640511017329 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511017330 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511017331 Helix-turn-helix domains; Region: HTH; cl00088 640511017332 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 640511017333 putative substrate binding pocket [chemical binding]; other site 640511017334 dimerization interface [polypeptide binding]; other site 640511017335 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 640511017336 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 640511017337 [2Fe-2S] cluster binding site [ion binding]; other site 640511017338 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 640511017339 putative alpha subunit interface [polypeptide binding]; other site 640511017340 putative active site [active] 640511017341 putative substrate binding site [chemical binding]; other site 640511017342 Fe binding site [ion binding]; other site 640511017343 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 640511017344 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511017345 Walker A/P-loop; other site 640511017346 ATP binding site [chemical binding]; other site 640511017347 Q-loop/lid; other site 640511017348 ABC transporter signature motif; other site 640511017349 Walker B; other site 640511017350 D-loop; other site 640511017351 H-loop/switch region; other site 640511017352 TOBE domain; Region: TOBE_2; cl01440 640511017353 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 640511017354 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511017355 dimer interface [polypeptide binding]; other site 640511017356 conserved gate region; other site 640511017357 putative PBP binding loops; other site 640511017358 ABC-ATPase subunit interface; other site 640511017359 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 640511017360 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511017361 dimer interface [polypeptide binding]; other site 640511017362 conserved gate region; other site 640511017363 putative PBP binding loops; other site 640511017364 ABC-ATPase subunit interface; other site 640511017365 SET domain; Region: SET; cl02566 640511017366 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 640511017367 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 640511017368 Predicted permeases [General function prediction only]; Region: RarD; COG2962 640511017369 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 640511017370 DEAD-like helicases superfamily; Region: DEXDc; smart00487 640511017371 ATP binding site [chemical binding]; other site 640511017372 Mg++ binding site [ion binding]; other site 640511017373 motif III; other site 640511017374 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 640511017375 nucleotide binding region [chemical binding]; other site 640511017376 ATP-binding site [chemical binding]; other site 640511017377 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 640511017378 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 640511017379 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 640511017380 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511017381 NAD(P) binding site [chemical binding]; other site 640511017382 active site 640511017383 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 640511017384 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 640511017385 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 640511017386 dimerization interface [polypeptide binding]; other site 640511017387 ligand binding site [chemical binding]; other site 640511017388 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 640511017389 TM-ABC transporter signature motif; other site 640511017390 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 640511017391 TM-ABC transporter signature motif; other site 640511017392 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 640511017393 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 640511017394 Walker A/P-loop; other site 640511017395 ATP binding site [chemical binding]; other site 640511017396 Q-loop/lid; other site 640511017397 ABC transporter signature motif; other site 640511017398 Walker B; other site 640511017399 D-loop; other site 640511017400 H-loop/switch region; other site 640511017401 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 640511017402 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 640511017403 Walker A/P-loop; other site 640511017404 ATP binding site [chemical binding]; other site 640511017405 Q-loop/lid; other site 640511017406 ABC transporter signature motif; other site 640511017407 Walker B; other site 640511017408 D-loop; other site 640511017409 H-loop/switch region; other site 640511017410 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 640511017411 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 640511017412 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511017413 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 640511017414 putative deacylase active site [active] 640511017415 Tetratricopeptide repeat; Region: TPR_12; pfam13424 640511017416 Tetratricopeptide repeat; Region: TPR_12; pfam13424 640511017417 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 640511017418 binding surface 640511017419 TPR motif; other site 640511017420 Tetratricopeptide repeat; Region: TPR_12; pfam13424 640511017421 Tetratricopeptide repeat; Region: TPR_12; pfam13424 640511017422 Beta-galactosidase; Region: Glyco_hydro_42; cl03154 640511017423 beta-galactosidase; Provisional; Region: PLN03059 640511017424 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 640511017425 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640511017426 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 640511017427 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 640511017428 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 640511017429 extended (e) SDRs; Region: SDR_e; cd08946 640511017430 NAD(P) binding site [chemical binding]; other site 640511017431 active site 640511017432 substrate binding site [chemical binding]; other site 640511017433 Protein of unknown function (DUF2945); Region: DUF2945; pfam11160 640511017434 sulfite reductase subunit beta; Provisional; Region: PRK13504 640511017435 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 640511017436 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 640511017437 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 640511017438 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 640511017439 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 640511017440 FAD binding pocket [chemical binding]; other site 640511017441 FAD binding motif [chemical binding]; other site 640511017442 catalytic residues [active] 640511017443 NAD binding pocket [chemical binding]; other site 640511017444 phosphate binding motif [ion binding]; other site 640511017445 beta-alpha-beta structure motif; other site 640511017446 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 640511017447 FOG: CBS domain [General function prediction only]; Region: COG0517 640511017448 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 640511017449 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 640511017450 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 640511017451 putative inner membrane protein; Provisional; Region: PRK11099 640511017452 Sulphur transport; Region: Sulf_transp; cl01018 640511017453 putative inner membrane protein; Provisional; Region: PRK11099 640511017454 Domain of unknown function (DUF4410); Region: DUF4410; pfam14366 640511017455 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 640511017456 ligand binding site [chemical binding]; other site 640511017457 flexible hinge region; other site 640511017458 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 640511017459 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640511017460 ATP adenylyltransferase (5',5'''-P-1,P-4-tetraphosphate phosphorylase II) [Nucleotide transport and metabolism]; Region: APA2; COG4360 640511017461 ATP adenylyltransferase; Region: ATP_transf; pfam09830 640511017462 Adenosine specific kinase; Region: Adenosine_kin; cl00796 640511017463 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 640511017464 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 640511017465 PAS domain; Region: PAS_9; pfam13426 640511017466 putative active site [active] 640511017467 heme pocket [chemical binding]; other site 640511017468 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 640511017469 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 640511017470 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 640511017471 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640511017472 dimer interface [polypeptide binding]; other site 640511017473 putative CheW interface [polypeptide binding]; other site 640511017474 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 640511017475 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 640511017476 Walker A/P-loop; other site 640511017477 ATP binding site [chemical binding]; other site 640511017478 Q-loop/lid; other site 640511017479 ABC transporter signature motif; other site 640511017480 Walker B; other site 640511017481 D-loop; other site 640511017482 H-loop/switch region; other site 640511017483 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 640511017484 Walker A/P-loop; other site 640511017485 ATP binding site [chemical binding]; other site 640511017486 Q-loop/lid; other site 640511017487 ABC transporter signature motif; other site 640511017488 Walker B; other site 640511017489 D-loop; other site 640511017490 H-loop/switch region; other site 640511017491 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 640511017492 TM-ABC transporter signature motif; other site 640511017493 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 640511017494 TM-ABC transporter signature motif; other site 640511017495 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 640511017496 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 640511017497 putative ligand binding site [chemical binding]; other site 640511017498 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 640511017499 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 640511017500 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 640511017501 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511017502 putative PBP binding loops; other site 640511017503 dimer interface [polypeptide binding]; other site 640511017504 ABC-ATPase subunit interface; other site 640511017505 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511017506 dimer interface [polypeptide binding]; other site 640511017507 conserved gate region; other site 640511017508 putative PBP binding loops; other site 640511017509 ABC-ATPase subunit interface; other site 640511017510 Catalytic domain of Bacillus cereus phosphatidylinositol-specific phospholipases C and similar proteins; Region: PI-PLCc_BcPLC_like; cd08586 640511017511 active site 640511017512 catalytic site [active] 640511017513 putative metal binding site [ion binding]; other site 640511017514 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 640511017515 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 640511017516 NAD(P) binding site [chemical binding]; other site 640511017517 homotetramer interface [polypeptide binding]; other site 640511017518 homodimer interface [polypeptide binding]; other site 640511017519 active site 640511017520 Protein of unknown function (DUF3022); Region: DUF3022; pfam11226 640511017521 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 640511017522 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 640511017523 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640511017524 dimer interface [polypeptide binding]; other site 640511017525 putative CheW interface [polypeptide binding]; other site 640511017526 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 640511017527 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 640511017528 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 640511017529 TM-ABC transporter signature motif; other site 640511017530 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 640511017531 TM-ABC transporter signature motif; other site 640511017532 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 640511017533 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 640511017534 Walker A/P-loop; other site 640511017535 ATP binding site [chemical binding]; other site 640511017536 Q-loop/lid; other site 640511017537 ABC transporter signature motif; other site 640511017538 Walker B; other site 640511017539 D-loop; other site 640511017540 H-loop/switch region; other site 640511017541 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 640511017542 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 640511017543 Walker A/P-loop; other site 640511017544 ATP binding site [chemical binding]; other site 640511017545 Q-loop/lid; other site 640511017546 ABC transporter signature motif; other site 640511017547 Walker B; other site 640511017548 D-loop; other site 640511017549 H-loop/switch region; other site 640511017550 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640511017551 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation', the process of becoming...; Region: Lipase; cl14883 640511017552 nucleophilic elbow; other site 640511017553 catalytic triad; other site 640511017554 Helix-turn-helix domains; Region: HTH; cl00088 640511017555 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 640511017556 dimerization interface [polypeptide binding]; other site 640511017557 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 640511017558 Helix-turn-helix domains; Region: HTH; cl00088 640511017559 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 640511017560 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 640511017561 N-acetyl-D-glucosamine binding site [chemical binding]; other site 640511017562 catalytic residue [active] 640511017563 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 640511017564 YCII-related domain; Region: YCII; cl00999 640511017565 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 640511017566 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 640511017567 substrate binding site [chemical binding]; other site 640511017568 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 640511017569 substrate binding site [chemical binding]; other site 640511017570 ligand binding site [chemical binding]; other site 640511017571 Protein of unknown function (DUF1326); Region: DUF1326; cl02375 640511017572 Predicted metal-binding integral membrane protein [Function unknown]; Region: COG5486 640511017573 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 640511017574 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640511017575 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640511017576 Helix-turn-helix domains; Region: HTH; cl00088 640511017577 Phosphopantetheine attachment site; Region: PP-binding; cl09936 640511017578 Uncharacterized conserved protein [Function unknown]; Region: COG3025 640511017579 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 640511017580 putative active site [active] 640511017581 putative metal binding residues [ion binding]; other site 640511017582 signature motif; other site 640511017583 putative triphosphate binding site [ion binding]; other site 640511017584 CHAD domain; Region: CHAD; cl10506 640511017585 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 640511017586 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 640511017587 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 640511017588 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511017589 Walker A/P-loop; other site 640511017590 ATP binding site [chemical binding]; other site 640511017591 Q-loop/lid; other site 640511017592 ABC transporter signature motif; other site 640511017593 Walker B; other site 640511017594 D-loop; other site 640511017595 H-loop/switch region; other site 640511017596 haemagglutination activity domain; Region: Haemagg_act; cl05436 640511017597 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511017598 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640511017599 putative substrate translocation pore; other site 640511017600 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 640511017601 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511017602 putative substrate translocation pore; other site 640511017603 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511017604 Helix-turn-helix domains; Region: HTH; cl00088 640511017605 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 640511017606 putative effector binding pocket; other site 640511017607 putative dimerization interface [polypeptide binding]; other site 640511017608 Protein of unknown function (DUF3562); Region: DUF3562; pfam12085 640511017609 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 640511017610 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 640511017611 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 640511017612 Flavin Reductases; Region: FlaRed; cl00801 640511017613 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 640511017614 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640511017615 Helix-turn-helix domains; Region: HTH; cl00088 640511017616 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 640511017617 dimerization interface [polypeptide binding]; other site 640511017618 substrate binding pocket [chemical binding]; other site 640511017619 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640511017620 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511017621 NAD(P) binding site [chemical binding]; other site 640511017622 active site 640511017623 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511017624 D-galactonate transporter; Region: 2A0114; TIGR00893 640511017625 putative substrate translocation pore; other site 640511017626 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 640511017627 TPP-binding site [chemical binding]; other site 640511017628 dimer interface [polypeptide binding]; other site 640511017629 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 640511017630 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 640511017631 PYR/PP interface [polypeptide binding]; other site 640511017632 dimer interface [polypeptide binding]; other site 640511017633 TPP binding site [chemical binding]; other site 640511017634 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 640511017635 polyhydroxyalkanoate depolymerase, intracellular; Region: PHB_depoly_PhaZ; TIGR01849 640511017636 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 640511017637 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 640511017638 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 640511017639 putative active site [active] 640511017640 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 640511017641 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 640511017642 NAD(P) binding site [chemical binding]; other site 640511017643 homotetramer interface [polypeptide binding]; other site 640511017644 homodimer interface [polypeptide binding]; other site 640511017645 active site 640511017646 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 640511017647 Ligand Binding Site [chemical binding]; other site 640511017648 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 640511017649 Ligand Binding Site [chemical binding]; other site 640511017650 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 640511017651 Ligand Binding Site [chemical binding]; other site 640511017652 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 640511017653 Ligand Binding Site [chemical binding]; other site 640511017654 Response regulator receiver domain; Region: Response_reg; pfam00072 640511017655 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511017656 active site 640511017657 phosphorylation site [posttranslational modification] 640511017658 intermolecular recognition site; other site 640511017659 dimerization interface [polypeptide binding]; other site 640511017660 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 640511017661 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 640511017662 ligand binding site [chemical binding]; other site 640511017663 flexible hinge region; other site 640511017664 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 640511017665 putative switch regulator; other site 640511017666 non-specific DNA interactions [nucleotide binding]; other site 640511017667 DNA binding site [nucleotide binding] 640511017668 sequence specific DNA binding site [nucleotide binding]; other site 640511017669 putative cAMP binding site [chemical binding]; other site 640511017670 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 640511017671 PAS domain; Region: PAS_9; pfam13426 640511017672 putative active site [active] 640511017673 heme pocket [chemical binding]; other site 640511017674 Histidine kinase; Region: HisKA_3; pfam07730 640511017675 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511017676 ATP binding site [chemical binding]; other site 640511017677 Mg2+ binding site [ion binding]; other site 640511017678 G-X-G motif; other site 640511017679 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 640511017680 Ligand Binding Site [chemical binding]; other site 640511017681 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 640511017682 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 640511017683 putative NAD(P) binding site [chemical binding]; other site 640511017684 putative substrate binding site [chemical binding]; other site 640511017685 catalytic Zn binding site [ion binding]; other site 640511017686 structural Zn binding site [ion binding]; other site 640511017687 Cytochrome c; Region: Cytochrom_C; cl11414 640511017688 Protein of unknown function (DUF3564); Region: DUF3564; pfam12087 640511017689 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 640511017690 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511017691 ATP binding site [chemical binding]; other site 640511017692 Mg2+ binding site [ion binding]; other site 640511017693 G-X-G motif; other site 640511017694 osmolarity response regulator; Provisional; Region: ompR; PRK09468 640511017695 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511017696 active site 640511017697 phosphorylation site [posttranslational modification] 640511017698 intermolecular recognition site; other site 640511017699 dimerization interface [polypeptide binding]; other site 640511017700 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 640511017701 DNA binding site [nucleotide binding] 640511017702 Response regulator receiver domain; Region: Response_reg; pfam00072 640511017703 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511017704 active site 640511017705 phosphorylation site [posttranslational modification] 640511017706 intermolecular recognition site; other site 640511017707 dimerization interface [polypeptide binding]; other site 640511017708 Catalytic domain of Protein Kinases; Region: PKc; cd00180 640511017709 active site 640511017710 ATP binding site [chemical binding]; other site 640511017711 substrate binding site [chemical binding]; other site 640511017712 activation loop (A-loop); other site 640511017713 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511017714 Predicted ATPase [General function prediction only]; Region: COG3899 640511017715 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 640511017716 GAF domain; Region: GAF; cl15785 640511017717 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 640511017718 PAS domain; Region: PAS_9; pfam13426 640511017719 putative active site [active] 640511017720 heme pocket [chemical binding]; other site 640511017721 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 640511017722 dimer interface [polypeptide binding]; other site 640511017723 phosphorylation site [posttranslational modification] 640511017724 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511017725 ATP binding site [chemical binding]; other site 640511017726 Mg2+ binding site [ion binding]; other site 640511017727 G-X-G motif; other site 640511017728 RNA polymerase sigma factor; Provisional; Region: PRK11922 640511017729 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640511017730 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 640511017731 DNA binding residues [nucleotide binding] 640511017732 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 640511017733 Domain of unknown function (DUF305); Region: DUF305; cl15795 640511017734 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 640511017735 FAD binding domain; Region: FAD_binding_4; pfam01565 640511017736 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 640511017737 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 640511017738 phosphate binding site [ion binding]; other site 640511017739 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 640511017740 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 640511017741 Altronate dehydratase [Carbohydrate transport and metabolism]; Region: UxaA; COG2721 640511017742 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511017743 D-galactonate transporter; Region: 2A0114; TIGR00893 640511017744 putative substrate translocation pore; other site 640511017745 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 640511017746 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 640511017747 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 640511017748 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 640511017749 putative NAD(P) binding site [chemical binding]; other site 640511017750 catalytic Zn binding site [ion binding]; other site 640511017751 structural Zn binding site [ion binding]; other site 640511017752 Transcriptional regulators [Transcription]; Region: FadR; COG2186 640511017753 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511017754 DNA-binding site [nucleotide binding]; DNA binding site 640511017755 FCD domain; Region: FCD; cl11656 640511017756 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 640511017757 active site 640511017758 dimer interface [polypeptide binding]; other site 640511017759 catalytic nucleophile [active] 640511017760 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 640511017761 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 640511017762 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 640511017763 Helix-turn-helix domains; Region: HTH; cl00088 640511017764 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 640511017765 dimerization interface [polypeptide binding]; other site 640511017766 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 640511017767 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 640511017768 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 640511017769 active site 640511017770 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 640511017771 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 640511017772 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 640511017773 active site 640511017774 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 640511017775 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511017776 dimer interface [polypeptide binding]; other site 640511017777 conserved gate region; other site 640511017778 putative PBP binding loops; other site 640511017779 ABC-ATPase subunit interface; other site 640511017780 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 640511017781 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 640511017782 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 640511017783 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511017784 Walker A/P-loop; other site 640511017785 ATP binding site [chemical binding]; other site 640511017786 Q-loop/lid; other site 640511017787 ABC transporter signature motif; other site 640511017788 Walker B; other site 640511017789 D-loop; other site 640511017790 H-loop/switch region; other site 640511017791 TOBE domain; Region: TOBE_2; cl01440 640511017792 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 640511017793 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511017794 dimer interface [polypeptide binding]; other site 640511017795 conserved gate region; other site 640511017796 putative PBP binding loops; other site 640511017797 ABC-ATPase subunit interface; other site 640511017798 drug efflux system protein MdtG; Provisional; Region: PRK09874 640511017799 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511017800 putative substrate translocation pore; other site 640511017801 trehalase; Provisional; Region: treF; PRK13270 640511017802 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 640511017803 Phosphoesterase family; Region: Phosphoesterase; cl15450 640511017804 K+ potassium transporter; Region: K_trans; cl15781 640511017805 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640511017806 Helix-turn-helix domains; Region: HTH; cl00088 640511017807 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 640511017808 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 640511017809 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 640511017810 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 640511017811 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 640511017812 Walker A/P-loop; other site 640511017813 ATP binding site [chemical binding]; other site 640511017814 Q-loop/lid; other site 640511017815 ABC transporter signature motif; other site 640511017816 Walker B; other site 640511017817 D-loop; other site 640511017818 H-loop/switch region; other site 640511017819 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 640511017820 ABC-2 type transporter; Region: ABC2_membrane; cl11417 640511017821 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640511017822 benzoate transporter; Region: benE; TIGR00843 640511017823 Benzoate membrane transport protein; Region: BenE; pfam03594 640511017824 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase (DHB DH)-like, classical (c) SDR; Region: DHB_DH-like_SDR_c; cd08937 640511017825 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640511017826 putative NAD(P) binding site [chemical binding]; other site 640511017827 active site 640511017828 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 640511017829 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 640511017830 catalytic loop [active] 640511017831 iron binding site [ion binding]; other site 640511017832 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 640511017833 FAD binding pocket [chemical binding]; other site 640511017834 FAD binding motif [chemical binding]; other site 640511017835 phosphate binding motif [ion binding]; other site 640511017836 beta-alpha-beta structure motif; other site 640511017837 NAD binding pocket [chemical binding]; other site 640511017838 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 640511017839 inter-subunit interface; other site 640511017840 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 640511017841 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 640511017842 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 640511017843 putative alpha subunit interface [polypeptide binding]; other site 640511017844 putative active site [active] 640511017845 putative substrate binding site [chemical binding]; other site 640511017846 Fe binding site [ion binding]; other site 640511017847 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 640511017848 Helix-turn-helix domains; Region: HTH; cl00088 640511017849 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 640511017850 dimerizarion interface [polypeptide binding]; other site 640511017851 CrgA pocket; other site 640511017852 substrate binding pocket [chemical binding]; other site 640511017853 histidine ABC transporter substrate-binding protein HisJ; Provisional; Region: PRK15437 640511017854 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 640511017855 substrate binding pocket [chemical binding]; other site 640511017856 membrane-bound complex binding site; other site 640511017857 hinge residues; other site 640511017858 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640511017859 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511017860 dimer interface [polypeptide binding]; other site 640511017861 conserved gate region; other site 640511017862 putative PBP binding loops; other site 640511017863 ABC-ATPase subunit interface; other site 640511017864 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511017865 dimer interface [polypeptide binding]; other site 640511017866 conserved gate region; other site 640511017867 putative PBP binding loops; other site 640511017868 ABC-ATPase subunit interface; other site 640511017869 histidine/lysine/arginine/ornithine transporter subunit; Provisional; Region: PRK10619 640511017870 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 640511017871 Walker A/P-loop; other site 640511017872 ATP binding site [chemical binding]; other site 640511017873 Q-loop/lid; other site 640511017874 ABC transporter signature motif; other site 640511017875 Walker B; other site 640511017876 D-loop; other site 640511017877 H-loop/switch region; other site 640511017878 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 640511017879 iron-sulfur cluster [ion binding]; other site 640511017880 [2Fe-2S] cluster binding site [ion binding]; other site 640511017881 YCII-related domain; Region: YCII; cl00999 640511017882 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 640511017883 iron-sulfur cluster [ion binding]; other site 640511017884 [2Fe-2S] cluster binding site [ion binding]; other site 640511017885 YCII-related domain; Region: YCII; cl00999 640511017886 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 640511017887 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 640511017888 dimer interface [polypeptide binding]; other site 640511017889 active site 640511017890 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 640511017891 Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes; Region: MAR; cd08177 640511017892 active site 640511017893 dimer interface [polypeptide binding]; other site 640511017894 metal binding site [ion binding]; metal-binding site 640511017895 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640511017896 Pseudomonas fluorescens 4-hydroxymuconic semialdehyde dehydrogenase-like; Region: ALDH_HMSADH_HapE; cd07115 640511017897 NAD(P) binding site [chemical binding]; other site 640511017898 catalytic residues [active] 640511017899 Cupin domain; Region: Cupin_2; cl09118 640511017900 transcriptional activator TtdR; Provisional; Region: PRK09801 640511017901 Helix-turn-helix domains; Region: HTH; cl00088 640511017902 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 640511017903 putative effector binding pocket; other site 640511017904 dimerization interface [polypeptide binding]; other site 640511017905 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511017906 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640511017907 putative substrate translocation pore; other site 640511017908 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_6; cd06233 640511017909 putative active site [active] 640511017910 Zn binding site [ion binding]; other site 640511017911 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 640511017912 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 640511017913 metal binding site [ion binding]; metal-binding site 640511017914 putative dimer interface [polypeptide binding]; other site 640511017915 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511017916 metabolite-proton symporter; Region: 2A0106; TIGR00883 640511017917 putative substrate translocation pore; other site 640511017918 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511017919 Helix-turn-helix domains; Region: HTH; cl00088 640511017920 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 640511017921 dimerization interface [polypeptide binding]; other site 640511017922 Cation efflux family; Region: Cation_efflux; cl00316 640511017923 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 640511017924 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 640511017925 Acylphosphatase; Region: Acylphosphatase; cl00551 640511017926 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 640511017927 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640511017928 tetrameric interface [polypeptide binding]; other site 640511017929 activator binding site; other site 640511017930 NADP binding site [chemical binding]; other site 640511017931 substrate binding site [chemical binding]; other site 640511017932 catalytic residues [active] 640511017933 FOG: CBS domain [General function prediction only]; Region: COG0517 640511017934 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 640511017935 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_2; cd08895 640511017936 putative hydrophobic ligand binding site [chemical binding]; other site 640511017937 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 640511017938 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 640511017939 motif II; other site 640511017940 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 640511017941 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 640511017942 dimer interface [polypeptide binding]; other site 640511017943 ADP-ribose binding site [chemical binding]; other site 640511017944 active site 640511017945 nudix motif; other site 640511017946 metal binding site [ion binding]; metal-binding site 640511017947 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 640511017948 Helix-turn-helix domains; Region: HTH; cl00088 640511017949 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 640511017950 cystine transporter subunit; Provisional; Region: PRK11260 640511017951 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 640511017952 substrate binding pocket [chemical binding]; other site 640511017953 membrane-bound complex binding site; other site 640511017954 hinge residues; other site 640511017955 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 640511017956 trehalase; Provisional; Region: treF; PRK13270 640511017957 Protein of Unknown function (DUF2784); Region: DUF2784; pfam10861 640511017958 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 640511017959 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 640511017960 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640511017961 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 640511017962 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511017963 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640511017964 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511017965 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 640511017966 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 640511017967 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 640511017968 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 640511017969 putative active site [active] 640511017970 catalytic site [active] 640511017971 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 640511017972 putative active site [active] 640511017973 catalytic site [active] 640511017974 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 640511017975 Short C-terminal domain; Region: SHOCT; cl01373 640511017976 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 640511017977 Clp amino terminal domain; Region: Clp_N; pfam02861 640511017978 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 640511017979 Walker A motif; other site 640511017980 ATP binding site [chemical binding]; other site 640511017981 Walker B motif; other site 640511017982 arginine finger; other site 640511017983 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 640511017984 Walker A motif; other site 640511017985 ATP binding site [chemical binding]; other site 640511017986 Walker B motif; other site 640511017987 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 640511017988 Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]; Region: ImpE; COG4455 640511017989 ImpE protein; Region: ImpE; pfam07024 640511017990 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 640511017991 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 640511017992 Bacterial protein of unknown function (DUF879); Region: DUF879; cl15462 640511017993 Protein of unknown function (DUF1305); Region: DUF1305; cl01404 640511017994 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 640511017995 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 640511017996 Fimbrial protein; Region: Fimbrial; cl01416 640511017997 Glycosyltransferase (GlcNAc); Region: GlcNAc; pfam11397 640511017998 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 640511017999 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 640511018000 RHS Repeat; Region: RHS_repeat; cl11982 640511018001 RHS Repeat; Region: RHS_repeat; cl11982 640511018002 RHS Repeat; Region: RHS_repeat; cl11982 640511018003 RHS protein; Region: RHS; pfam03527 640511018004 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 640511018005 PAAR motif; Region: PAAR_motif; cl15808 640511018006 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 640511018007 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 640511018008 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 640511018009 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 640511018010 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 640511018011 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 640511018012 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 640511018013 hypothetical protein; Provisional; Region: PRK08126 640511018014 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 640511018015 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640511018016 ligand binding site [chemical binding]; other site 640511018017 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522; cl01406 640511018018 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 640511018019 Type VI secretion lipoprotein; Region: T6SS-SciN; cl01405 640511018020 Protein of unknown function (DUF796); Region: DUF796; cl01226 640511018021 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 640511018022 Protein of unknown function (DUF877); Region: DUF877; pfam05943 640511018023 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640511018024 ligand binding site [chemical binding]; other site 640511018025 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 640511018026 Fimbrial protein; Region: Fimbrial; cl01416 640511018027 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 640511018028 PapC N-terminal domain; Region: PapC_N; pfam13954 640511018029 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 640511018030 PapC C-terminal domain; Region: PapC_C; pfam13953 640511018031 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 640511018032 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 640511018033 Fimbrial protein; Region: Fimbrial; cl01416 640511018034 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640511018035 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511018036 active site 640511018037 phosphorylation site [posttranslational modification] 640511018038 intermolecular recognition site; other site 640511018039 dimerization interface [polypeptide binding]; other site 640511018040 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 640511018041 DNA binding residues [nucleotide binding] 640511018042 dimerization interface [polypeptide binding]; other site 640511018043 arginine/ornithine antiporter; Region: arg_ornith_anti; TIGR03810 640511018044 arginine/ornithine antiporter; Region: arg_ornith_anti; TIGR03810 640511018045 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640511018046 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 640511018047 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 640511018048 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 640511018049 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 640511018050 ParB-like nuclease domain; Region: ParBc; cl02129 640511018051 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 640511018052 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 640511018053 P-loop; other site 640511018054 Magnesium ion binding site [ion binding]; other site 640511018055 Initiator Replication protein; Region: Rep_3; cl03080 640511018056 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 640511018057 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 640511018058 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 640511018059 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 640511018060 active site 640511018061 nucleophile elbow; other site 640511018062 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 640511018063 osmolarity response regulator; Provisional; Region: ompR; PRK09468 640511018064 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511018065 active site 640511018066 phosphorylation site [posttranslational modification] 640511018067 intermolecular recognition site; other site 640511018068 dimerization interface [polypeptide binding]; other site 640511018069 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 640511018070 DNA binding site [nucleotide binding] 640511018071 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 640511018072 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 640511018073 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511018074 ATP binding site [chemical binding]; other site 640511018075 Mg2+ binding site [ion binding]; other site 640511018076 G-X-G motif; other site 640511018077 arginine/ornithine antiporter; Region: arg_ornith_anti; TIGR03810 640511018078 Amidinotransferase; Region: Amidinotransf; cl12043 640511018079 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 640511018080 benzoate transport; Region: 2A0115; TIGR00895 640511018081 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511018082 putative substrate translocation pore; other site 640511018083 GAF domain; Region: GAF; cl15785 640511018084 GAF domain; Region: GAF_2; pfam13185 640511018085 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511018086 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 640511018087 putative substrate translocation pore; other site 640511018088 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511018089 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 640511018090 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 640511018091 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511018092 DNA-binding site [nucleotide binding]; DNA binding site 640511018093 FCD domain; Region: FCD; cl11656 640511018094 HipA N-terminal domain; Region: Couple_hipA; cl11853 640511018095 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 640511018096 HipA-like N-terminal domain; Region: HipA_N; pfam07805 640511018097 HipA-like C-terminal domain; Region: HipA_C; pfam07804 640511018098 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 640511018099 non-specific DNA binding site [nucleotide binding]; other site 640511018100 salt bridge; other site 640511018101 sequence-specific DNA binding site [nucleotide binding]; other site 640511018102 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 640511018103 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; cl01495 640511018104 BON domain; Region: BON; cl02771 640511018105 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 640511018106 trimer interface [polypeptide binding]; other site 640511018107 eyelet of channel; other site 640511018108 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640511018109 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640511018110 DNA binding site [nucleotide binding] 640511018111 domain linker motif; other site 640511018112 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 640511018113 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 640511018114 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 640511018115 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511018116 dimer interface [polypeptide binding]; other site 640511018117 conserved gate region; other site 640511018118 putative PBP binding loops; other site 640511018119 ABC-ATPase subunit interface; other site 640511018120 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 640511018121 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511018122 dimer interface [polypeptide binding]; other site 640511018123 conserved gate region; other site 640511018124 putative PBP binding loops; other site 640511018125 ABC-ATPase subunit interface; other site 640511018126 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 640511018127 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 640511018128 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 640511018129 Walker A/P-loop; other site 640511018130 ATP binding site [chemical binding]; other site 640511018131 Q-loop/lid; other site 640511018132 ABC transporter signature motif; other site 640511018133 Walker B; other site 640511018134 D-loop; other site 640511018135 H-loop/switch region; other site 640511018136 TOBE domain; Region: TOBE_2; cl01440 640511018137 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 640511018138 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 640511018139 putative active site [active] 640511018140 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640511018141 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640511018142 DNA binding site [nucleotide binding] 640511018143 domain linker motif; other site 640511018144 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 640511018145 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 640511018146 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 640511018147 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511018148 dimer interface [polypeptide binding]; other site 640511018149 conserved gate region; other site 640511018150 putative PBP binding loops; other site 640511018151 ABC-ATPase subunit interface; other site 640511018152 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 640511018153 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511018154 dimer interface [polypeptide binding]; other site 640511018155 conserved gate region; other site 640511018156 putative PBP binding loops; other site 640511018157 ABC-ATPase subunit interface; other site 640511018158 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 640511018159 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 640511018160 Walker A/P-loop; other site 640511018161 ATP binding site [chemical binding]; other site 640511018162 Q-loop/lid; other site 640511018163 ABC transporter signature motif; other site 640511018164 Walker B; other site 640511018165 D-loop; other site 640511018166 H-loop/switch region; other site 640511018167 TOBE domain; Region: TOBE_2; cl01440 640511018168 TOBE domain; Region: TOBE_2; cl01440 640511018169 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 640511018170 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 640511018171 Fibronectin type III-like domain; Region: Fn3-like; cl15273 640511018172 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 640511018173 classical (c) SDRs; Region: SDR_c; cd05233 640511018174 NAD(P) binding site [chemical binding]; other site 640511018175 active site 640511018176 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 640511018177 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640511018178 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640511018179 DNA binding site [nucleotide binding] 640511018180 domain linker motif; other site 640511018181 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 640511018182 putative dimerization interface [polypeptide binding]; other site 640511018183 putative ligand binding site [chemical binding]; other site 640511018184 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 640511018185 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511018186 putative substrate translocation pore; other site 640511018187 Dehydratase family; Region: ILVD_EDD; cl00340 640511018188 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]; Region: COG3970 640511018189 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 640511018190 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 640511018191 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640511018192 NAD(P) binding site [chemical binding]; other site 640511018193 catalytic residues [active] 640511018194 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640511018195 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640511018196 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 640511018197 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 640511018198 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 640511018199 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 640511018200 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 640511018201 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 640511018202 NADH dehydrogenase subunit M; Validated; Region: PRK08668 640511018203 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 640511018204 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 640511018205 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 640511018206 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 640511018207 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 640511018208 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 640511018209 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 640511018210 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 640511018211 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 640511018212 substrate binding pocket [chemical binding]; other site 640511018213 membrane-bound complex binding site; other site 640511018214 hinge residues; other site 640511018215 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 640511018216 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 640511018217 putative hydrophobic ligand binding site [chemical binding]; other site 640511018218 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 640511018219 dimerization interface [polypeptide binding]; other site 640511018220 putative DNA binding site [nucleotide binding]; other site 640511018221 putative Zn2+ binding site [ion binding]; other site 640511018222 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 640511018223 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640511018224 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 640511018225 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 640511018226 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 640511018227 catalytic triad [active] 640511018228 conserved cis-peptide bond; other site 640511018229 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640511018230 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640511018231 DNA binding site [nucleotide binding] 640511018232 domain linker motif; other site 640511018233 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 640511018234 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 640511018235 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 640511018236 inhibitor site; inhibition site 640511018237 active site 640511018238 dimer interface [polypeptide binding]; other site 640511018239 catalytic residue [active] 640511018240 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511018241 D-galactonate transporter; Region: 2A0114; TIGR00893 640511018242 putative substrate translocation pore; other site 640511018243 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 640511018244 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 640511018245 substrate binding site [chemical binding]; other site 640511018246 dimer interface [polypeptide binding]; other site 640511018247 ATP binding site [chemical binding]; other site 640511018248 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 640511018249 Helix-turn-helix domains; Region: HTH; cl00088 640511018250 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 640511018251 allantoate amidohydrolase; Reviewed; Region: PRK09290 640511018252 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 640511018253 active site 640511018254 metal binding site [ion binding]; metal-binding site 640511018255 dimer interface [polypeptide binding]; other site 640511018256 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 640511018257 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 640511018258 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 640511018259 homodimer interface [polypeptide binding]; other site 640511018260 active site 640511018261 FMN binding site [chemical binding]; other site 640511018262 substrate binding site [chemical binding]; other site 640511018263 4Fe-4S binding domain; Region: Fer4; cl02805 640511018264 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily, YbbW-like; solute-binding domain; Region: SLC-NCS1sbd_YbbW-like; cd11485 640511018265 Na binding site [ion binding]; other site 640511018266 putative substrate binding site [chemical binding]; other site 640511018267 phenylhydantoinase; Validated; Region: PRK08323 640511018268 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 640511018269 tetramer interface [polypeptide binding]; other site 640511018270 active site 640511018271 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640511018272 Helix-turn-helix domains; Region: HTH; cl00088 640511018273 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 640511018274 trimer interface [polypeptide binding]; other site 640511018275 putative Zn binding site [ion binding]; other site 640511018276 LysE type translocator; Region: LysE; cl00565 640511018277 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 640511018278 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 640511018279 Sulfatase; Region: Sulfatase; cl10460 640511018280 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 640511018281 Sulfatase; Region: Sulfatase; cl10460 640511018282 Domain of unknown function (DUF427); Region: DUF427; cl00998 640511018283 Domain of unknown function (DUF305); Region: DUF305; cl15795 640511018284 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 640511018285 putative ADP-binding pocket [chemical binding]; other site 640511018286 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 640511018287 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 640511018288 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 640511018289 Trp docking motif [polypeptide binding]; other site 640511018290 putative active site [active] 640511018291 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 640511018292 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511018293 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 640511018294 Walker A/P-loop; other site 640511018295 ATP binding site [chemical binding]; other site 640511018296 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 640511018297 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 640511018298 dimanganese center [ion binding]; other site 640511018299 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 640511018300 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 640511018301 heme-binding site [chemical binding]; other site 640511018302 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 640511018303 FAD binding pocket [chemical binding]; other site 640511018304 FAD binding motif [chemical binding]; other site 640511018305 phosphate binding motif [ion binding]; other site 640511018306 beta-alpha-beta structure motif; other site 640511018307 NAD binding pocket [chemical binding]; other site 640511018308 Heme binding pocket [chemical binding]; other site 640511018309 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 640511018310 Tannase and feruloyl esterase; Region: Tannase; pfam07519 640511018311 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 640511018312 trimer interface [polypeptide binding]; other site 640511018313 eyelet of channel; other site 640511018314 Stress responsive A/B Barrel Domain; Region: Dabb; cl15807 640511018315 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 640511018316 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 640511018317 putative molybdopterin cofactor binding site [chemical binding]; other site 640511018318 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 640511018319 putative molybdopterin cofactor binding site; other site 640511018320 succinate dehydrogenase iron-sulfur subunit; Provisional; Region: PRK12575 640511018321 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 640511018322 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 640511018323 dimerization interface [polypeptide binding]; other site 640511018324 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511018325 Helix-turn-helix domains; Region: HTH; cl00088 640511018326 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 640511018327 putative dimerization interface [polypeptide binding]; other site 640511018328 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 640511018329 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 640511018330 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 640511018331 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 640511018332 protein binding site [polypeptide binding]; other site 640511018333 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 640511018334 protein binding site [polypeptide binding]; other site 640511018335 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640511018336 DNA binding site [nucleotide binding] 640511018337 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 640511018338 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640511018339 putative ligand binding site [chemical binding]; other site 640511018340 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 640511018341 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 640511018342 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 640511018343 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511018344 dimer interface [polypeptide binding]; other site 640511018345 conserved gate region; other site 640511018346 putative PBP binding loops; other site 640511018347 ABC-ATPase subunit interface; other site 640511018348 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 640511018349 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511018350 dimer interface [polypeptide binding]; other site 640511018351 conserved gate region; other site 640511018352 putative PBP binding loops; other site 640511018353 ABC-ATPase subunit interface; other site 640511018354 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 640511018355 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 640511018356 Walker A/P-loop; other site 640511018357 ATP binding site [chemical binding]; other site 640511018358 Q-loop/lid; other site 640511018359 ABC transporter signature motif; other site 640511018360 Walker B; other site 640511018361 D-loop; other site 640511018362 H-loop/switch region; other site 640511018363 TOBE domain; Region: TOBE_2; cl01440 640511018364 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 640511018365 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 640511018366 Walker A/P-loop; other site 640511018367 ATP binding site [chemical binding]; other site 640511018368 Q-loop/lid; other site 640511018369 ABC transporter signature motif; other site 640511018370 Walker B; other site 640511018371 D-loop; other site 640511018372 H-loop/switch region; other site 640511018373 DAK2 domain; Region: Dak2; cl03685 640511018374 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 640511018375 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 640511018376 OsmC-like protein; Region: OsmC; cl00767 640511018377 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 640511018378 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 640511018379 putative NAD(P) binding site [chemical binding]; other site 640511018380 Protein of unknown function (DUF3788); Region: DUF3788; pfam12663 640511018381 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 640511018382 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 640511018383 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 640511018384 putative NAD(P) binding site [chemical binding]; other site 640511018385 Uncharacterized conserved protein [Function unknown]; Region: COG2128 640511018386 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 640511018387 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 640511018388 dimer interface [polypeptide binding]; other site 640511018389 FMN binding site [chemical binding]; other site 640511018390 Cupin domain; Region: Cupin_2; cl09118 640511018391 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640511018392 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511018393 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 640511018394 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511018395 DNA-binding site [nucleotide binding]; DNA binding site 640511018396 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 640511018397 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511018398 homodimer interface [polypeptide binding]; other site 640511018399 catalytic residue [active] 640511018400 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 640511018401 mycofactocin system transcriptional regulator; Region: mycofact_TetR; TIGR03968 640511018402 Helix-turn-helix domains; Region: HTH; cl00088 640511018403 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 640511018404 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 640511018405 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 640511018406 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 640511018407 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640511018408 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640511018409 Helix-turn-helix domains; Region: HTH; cl00088 640511018410 N-terminal domain of 2,4,5-trihydroxytoluene (THT) oxygenase; Region: THT_Oxygenase_N; cd07267 640511018411 3,4-dihydroxyphenylacetate 2,3-dioxygenase; Region: HpaD; TIGR02295 640511018412 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 640511018413 putative active site [active] 640511018414 putative metal binding site [ion binding]; other site 640511018415 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 640511018416 AMP-binding domain protein; Validated; Region: PRK07529 640511018417 AMP-binding enzyme; Region: AMP-binding; cl15778 640511018418 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 640511018419 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 640511018420 molybdopterin cofactor binding site; other site 640511018421 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 640511018422 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 640511018423 molybdopterin cofactor binding site; other site 640511018424 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 640511018425 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 640511018426 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 640511018427 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 640511018428 active site 640511018429 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 640511018430 active site 640511018431 Zn binding site [ion binding]; other site 640511018432 AMP-binding enzyme; Region: AMP-binding; cl15778 640511018433 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 640511018434 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 640511018435 NAD binding site [chemical binding]; other site 640511018436 catalytic Zn binding site [ion binding]; other site 640511018437 structural Zn binding site [ion binding]; other site 640511018438 Putative ParB-like nuclease; Region: ParBc_2; pfam08857 640511018439 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 640511018440 Phasin protein; Region: Phasin_2; cl11491 640511018441 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 640511018442 dinuclear metal binding motif [ion binding]; other site 640511018443 Protein of unknown function (DUF4242); Region: DUF4242; pfam14026 640511018444 SAM (Sterile alpha motif ); Region: SAM_superfamily; cl15755 640511018445 cyclase homology domain; Region: CHD; cd07302 640511018446 nucleotidyl binding site; other site 640511018447 metal binding site [ion binding]; metal-binding site 640511018448 dimer interface [polypeptide binding]; other site 640511018449 Predicted ATPase [General function prediction only]; Region: COG3899 640511018450 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511018451 Tetratricopeptide repeat; Region: TPR_12; pfam13424 640511018452 haemagglutination activity domain; Region: Haemagg_act; cl05436 640511018453 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 640511018454 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 640511018455 THF binding site; other site 640511018456 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 640511018457 substrate binding site [chemical binding]; other site 640511018458 THF binding site; other site 640511018459 zinc-binding site [ion binding]; other site 640511018460 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 640511018461 catalytic residues [active] 640511018462 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 640511018463 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 640511018464 DNA-binding interface [nucleotide binding]; DNA binding site 640511018465 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 640511018466 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 640511018467 NAD binding site [chemical binding]; other site 640511018468 putative substrate binding site 2 [chemical binding]; other site 640511018469 putative substrate binding site 1 [chemical binding]; other site 640511018470 active site 640511018471 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 640511018472 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 640511018473 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 640511018474 putative active site [active] 640511018475 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 640511018476 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 640511018477 active site 640511018478 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 640511018479 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 640511018480 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 640511018481 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 640511018482 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 640511018483 putative active site [active] 640511018484 D,D-heptose 1,7-bisphosphate phosphatase; Region: GmhB_yaeD; TIGR00213 640511018485 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 640511018486 active site 640511018487 motif I; other site 640511018488 motif II; other site 640511018489 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 640511018490 D-inositol-3-phosphate glycosyltransferase; Region: mycothiol_MshA; TIGR03449 640511018491 putative ADP-binding pocket [chemical binding]; other site 640511018492 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 640511018493 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 640511018494 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511018495 Walker A/P-loop; other site 640511018496 ATP binding site [chemical binding]; other site 640511018497 Q-loop/lid; other site 640511018498 ABC transporter signature motif; other site 640511018499 Walker B; other site 640511018500 Protein of unknown function (DUF1822); Region: DUF1822; pfam08852 640511018501 D-loop; other site 640511018502 H-loop/switch region; other site 640511018503 Response regulator receiver domain; Region: Response_reg; pfam00072 640511018504 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511018505 active site 640511018506 phosphorylation site [posttranslational modification] 640511018507 intermolecular recognition site; other site 640511018508 dimerization interface [polypeptide binding]; other site 640511018509 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 640511018510 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 640511018511 Probable Catalytic site; other site 640511018512 metal-binding site 640511018513 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 640511018514 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 640511018515 Phophatidylserine decarboxylase; Region: PSDC; pfam12588 640511018516 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 640511018517 CheB methylesterase; Region: CheB_methylest; pfam01339 640511018518 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 640511018519 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 640511018520 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 640511018521 S-adenosylmethionine binding site [chemical binding]; other site 640511018522 PAS fold; Region: PAS; pfam00989 640511018523 PAS domain; Region: PAS_10; pfam13596 640511018524 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 640511018525 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 640511018526 putative active site [active] 640511018527 heme pocket [chemical binding]; other site 640511018528 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 640511018529 dimer interface [polypeptide binding]; other site 640511018530 phosphorylation site [posttranslational modification] 640511018531 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511018532 ATP binding site [chemical binding]; other site 640511018533 Mg2+ binding site [ion binding]; other site 640511018534 G-X-G motif; other site 640511018535 Response regulator receiver domain; Region: Response_reg; pfam00072 640511018536 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511018537 active site 640511018538 phosphorylation site [posttranslational modification] 640511018539 intermolecular recognition site; other site 640511018540 dimerization interface [polypeptide binding]; other site 640511018541 CheB methylesterase; Region: CheB_methylest; pfam01339 640511018542 CheB methylesterase; Region: CheB_methylest; pfam01339 640511018543 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 640511018544 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 640511018545 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 640511018546 PAS domain; Region: PAS_10; pfam13596 640511018547 GAF domain; Region: GAF; cl15785 640511018548 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 640511018549 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640511018550 putative ADP-binding pocket [chemical binding]; other site 640511018551 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 640511018552 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 640511018553 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 640511018554 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 640511018555 homodimer interface [polypeptide binding]; other site 640511018556 NAD binding pocket [chemical binding]; other site 640511018557 ATP binding pocket [chemical binding]; other site 640511018558 Mg binding site [ion binding]; other site 640511018559 active-site loop [active] 640511018560 Competence-damaged protein; Region: CinA; cl00666 640511018561 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 640511018562 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 640511018563 S-adenosylmethionine binding site [chemical binding]; other site 640511018564 Erythromycin esterase homolog [General function prediction only]; Region: COG2312 640511018565 Erythromycin esterase; Region: Erythro_esteras; pfam05139 640511018566 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 640511018567 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 640511018568 OsmC-like protein; Region: OsmC; cl00767 640511018569 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 640511018570 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 640511018571 substrate binding pocket [chemical binding]; other site 640511018572 membrane-bound complex binding site; other site 640511018573 hinge residues; other site 640511018574 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511018575 DNA-binding site [nucleotide binding]; DNA binding site 640511018576 Transcriptional regulators [Transcription]; Region: GntR; COG1802 640511018577 FCD domain; Region: FCD; cl11656 640511018578 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 640511018579 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 640511018580 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 640511018581 MatE; Region: MatE; cl10513 640511018582 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 640511018583 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511018584 UDP-galactopyranose mutase; Region: GLF; pfam03275 640511018585 Protein of unknown function (DUF707); Region: DUF707; pfam05212 640511018586 Alpha 1,4-glycosyltransferase conserved region; Region: Gb3_synth; pfam04572 640511018587 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 640511018588 active site 640511018589 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511018590 D-galactonate transporter; Region: 2A0114; TIGR00893 640511018591 putative substrate translocation pore; other site 640511018592 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511018593 D-galactonate transporter; Region: 2A0114; TIGR00893 640511018594 putative substrate translocation pore; other site 640511018595 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 640511018596 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 640511018597 active site 640511018598 tetramer interface [polypeptide binding]; other site 640511018599 Transcriptional regulators [Transcription]; Region: GntR; COG1802 640511018600 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640511018601 DNA-binding site [nucleotide binding]; DNA binding site 640511018602 FCD domain; Region: FCD; cl11656 640511018603 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 640511018604 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511018605 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 640511018606 trehalose synthase; Region: treS_nterm; TIGR02456 640511018607 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 640511018608 active site 640511018609 catalytic site [active] 640511018610 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 640511018611 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 640511018612 active site 640511018613 catalytic site [active] 640511018614 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 640511018615 atypical (a) SDRs, subgroup 7; Region: SDR_a7; cd05262 640511018616 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 640511018617 putative NAD(P) binding site [chemical binding]; other site 640511018618 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 640511018619 active site 640511018620 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 640511018621 putative catalytic site [active] 640511018622 putative metal binding site [ion binding]; other site 640511018623 putative phosphate binding site [ion binding]; other site 640511018624 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 640511018625 putative catalytic site [active] 640511018626 putative phosphate binding site [ion binding]; other site 640511018627 putative metal binding site [ion binding]; other site 640511018628 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 640511018629 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 640511018630 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl15384 640511018631 RecT family; Region: RecT; cl04285 640511018632 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 640511018633 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511018634 Helix-turn-helix domains; Region: HTH; cl00088 640511018635 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 640511018636 dimerization interface [polypeptide binding]; other site 640511018637 Haemolytic domain; Region: Haemolytic; cl00506 640511018638 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 640511018639 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 640511018640 Active Sites [active] 640511018641 Uncharacterized small protein (DUF2158); Region: DUF2158; cl02293 640511018642 ParB-like nuclease domain; Region: ParBc; cl02129 640511018643 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 640511018644 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 640511018645 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5410 640511018646 Terminase-like family; Region: Terminase_6; pfam03237 640511018647 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 640511018648 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3567; cl12082 640511018649 Protein of unknown function (DUF1073); Region: DUF1073; pfam06381 640511018650 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 640511018651 Uncharacterized protein conserved in bacteria (DUF2213); Region: DUF2213; cl15403 640511018652 Encapsulating protein for peroxidase; Region: Linocin_M18; cl12047 640511018653 Uncharacterized protein conserved in bacteria (DUF2184); Region: DUF2184; pfam09950 640511018654 Protein of unknown function (DUF4054); Region: DUF4054; pfam13262 640511018655 Protein of unknown function (DUF3383); Region: DUF3383; pfam11863 640511018656 Protein of unknown function (DUF3277); Region: DUF3277; pfam11681 640511018657 Protein of unknown function (DUF2669); Region: DUF2669; pfam10876 640511018658 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 640511018659 Phage-related protein [Function unknown]; Region: COG5412 640511018660 Baseplate J-like protein; Region: Baseplate_J; cl01294 640511018661 Protein of unknown function (DUF2612); Region: DUF2612; pfam11041 640511018662 Chitin/cellulose binding domain. Putative carbohydrate binding domain found in many different glycosyl hydrolase enzymes. May occur in tandem arrangements; Region: ChtBD3; cl00046 640511018663 Domain of unknown function (DUF4376); Region: DUF4376; pfam14301 640511018664 Peptidase M15; Region: Peptidase_M15_3; cl01194 640511018665 Phage holin family 2; Region: Phage_holin_2; pfam04550 640511018666 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 640511018667 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 640511018668 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 640511018669 NAD(P) binding site [chemical binding]; other site 640511018670 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511018671 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 640511018672 NAD(P) binding site [chemical binding]; other site 640511018673 active site 640511018674 LysR family transcriptional regulator; Provisional; Region: PRK14997 640511018675 Helix-turn-helix domains; Region: HTH; cl00088 640511018676 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 640511018677 putative effector binding pocket; other site 640511018678 dimerization interface [polypeptide binding]; other site 640511018679 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 640511018680 integrase; Provisional; Region: PRK09692 640511018681 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 640511018682 active site 640511018683 Int/Topo IB signature motif; other site 640511018684 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4705 640511018685 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 640511018686 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 640511018687 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 640511018688 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 640511018689 Glycosyl hydrolase catalytic core; Region: Glyco_hydro_cc; pfam11790 640511018690 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 640511018691 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 640511018692 Cu(I) binding site [ion binding]; other site 640511018693 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 640511018694 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 640511018695 putative sugar binding sites [chemical binding]; other site 640511018696 Q-X-W motif; other site 640511018697 kelch-like protein; Provisional; Region: PHA03098 640511018698 Galactose oxidase, central domain; Region: Kelch_3; cl02701 640511018699 C-terminal Early set domain associated with the catalytic domain of galactose oxidase; Region: E_set_GO_C; cd02851 640511018700 Cytochrome c; Region: Cytochrom_C; cl11414 640511018701 tyrosine kinase; Provisional; Region: PRK11519 640511018702 Chain length determinant protein; Region: Wzz; cl15801 640511018703 Chain length determinant protein; Region: Wzz; cl15801 640511018704 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 640511018705 P loop; other site 640511018706 Nucleotide binding site [chemical binding]; other site 640511018707 DTAP/Switch II; other site 640511018708 Switch I; other site 640511018709 Bacterial sugar transferase; Region: Bac_transf; cl00939 640511018710 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 640511018711 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640511018712 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 640511018713 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 640511018714 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 640511018715 putative active site [active] 640511018716 putative metal binding site [ion binding]; other site 640511018717 tyrosine kinase; Provisional; Region: PRK11519 640511018718 Chain length determinant protein; Region: Wzz; cl15801 640511018719 Chain length determinant protein; Region: Wzz; cl15801 640511018720 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 640511018721 P loop; other site 640511018722 Nucleotide binding site [chemical binding]; other site 640511018723 DTAP/Switch II; other site 640511018724 Switch I; other site 640511018725 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 640511018726 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 640511018727 N-terminal plug; other site 640511018728 ligand-binding site [chemical binding]; other site 640511018729 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 640511018730 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511018731 Walker A/P-loop; other site 640511018732 ATP binding site [chemical binding]; other site 640511018733 Q-loop/lid; other site 640511018734 ABC transporter signature motif; other site 640511018735 Walker B; other site 640511018736 D-loop; other site 640511018737 H-loop/switch region; other site 640511018738 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 640511018739 TM-ABC transporter signature motif; other site 640511018740 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_4; cd06312 640511018741 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640511018742 putative ligand binding site [chemical binding]; other site 640511018743 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 640511018744 putative uracil binding site [chemical binding]; other site 640511018745 putative active site [active] 640511018746 Protein of unknown function, DUF488; Region: DUF488; cl01246 640511018747 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511018748 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640511018749 putative substrate translocation pore; other site 640511018750 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511018751 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 640511018752 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 640511018753 substrate binding pocket [chemical binding]; other site 640511018754 membrane-bound complex binding site; other site 640511018755 hinge residues; other site 640511018756 NMT1-like family; Region: NMT1_2; cl15260 640511018757 bacterial SoxC is a member of the sulfite oxidase (SO) family of molybdopterin binding domains. SoxC is involved in oxidation of sulfur compounds during chemolithothrophic growth. Together with SoxD, a small c-type heme containing subunit, it forms a...; Region: bact_SoxC_Moco; cd02113 640511018758 Moco binding site; other site 640511018759 metal coordination site [ion binding]; other site 640511018760 dimerization interface [polypeptide binding]; other site 640511018761 Cytochrome c; Region: Cytochrom_C; cl11414 640511018762 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640511018763 Helix-turn-helix domains; Region: HTH; cl00088 640511018764 phenol 2-monooxygenase; Provisional; Region: PRK08294 640511018765 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511018766 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 640511018767 dimer interface [polypeptide binding]; other site 640511018768 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 640511018769 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 640511018770 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 640511018771 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511018772 putative substrate translocation pore; other site 640511018773 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 640511018774 Protein of unknown function (DUF2783); Region: DUF2783; pfam10932 640511018775 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 640511018776 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511018777 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511018778 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 640511018779 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 640511018780 NAD(P) binding site [chemical binding]; other site 640511018781 Streptogramin lyase [Defense mechanisms]; Region: Vgb; COG4257 640511018782 Protein of unknown function (DUF1810); Region: DUF1810; cl02370 640511018783 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511018784 NAD(P) binding site [chemical binding]; other site 640511018785 active site 640511018786 NnrS protein; Region: NnrS; cl01258 640511018787 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 640511018788 active site 640511018789 barstar interaction site; other site 640511018790 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 640511018791 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640511018792 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 640511018793 active site 640511018794 FMN binding site [chemical binding]; other site 640511018795 substrate binding site [chemical binding]; other site 640511018796 homotetramer interface [polypeptide binding]; other site 640511018797 catalytic residue [active] 640511018798 LysE type translocator; Region: LysE; cl00565 640511018799 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511018800 Helix-turn-helix domains; Region: HTH; cl00088 640511018801 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 640511018802 dimerization interface [polypeptide binding]; other site 640511018803 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511018804 Helix-turn-helix domains; Region: HTH; cl00088 640511018805 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 640511018806 putative effector binding pocket; other site 640511018807 dimerization interface [polypeptide binding]; other site 640511018808 classical (c) SDRs; Region: SDR_c; cd05233 640511018809 NAD(P) binding site [chemical binding]; other site 640511018810 active site 640511018811 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511018812 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 640511018813 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 640511018814 NADP binding site [chemical binding]; other site 640511018815 active site 640511018816 steroid binding site; other site 640511018817 Cupin domain; Region: Cupin_2; cl09118 640511018818 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640511018819 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511018820 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 640511018821 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 640511018822 PhoU domain; Region: PhoU; pfam01895 640511018823 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 640511018824 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 640511018825 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640511018826 dimer interface [polypeptide binding]; other site 640511018827 conserved gate region; other site 640511018828 putative PBP binding loops; other site 640511018829 ABC-ATPase subunit interface; other site 640511018830 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 640511018831 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511018832 Walker A/P-loop; other site 640511018833 ATP binding site [chemical binding]; other site 640511018834 Q-loop/lid; other site 640511018835 ABC transporter signature motif; other site 640511018836 Walker B; other site 640511018837 D-loop; other site 640511018838 H-loop/switch region; other site 640511018839 TOBE domain; Region: TOBE_2; cl01440 640511018840 2-aminoethylphosphonate ABC transporter substrate-binding protein; Provisional; Region: PRK15046 640511018841 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 640511018842 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640511018843 Streptomyces putative phosphonoformaldehyde dehydrogenase PhpJ-like; Region: ALDH_PhpJ; cd07146 640511018844 NAD(P) binding site [chemical binding]; other site 640511018845 catalytic residues [active] 640511018846 Sulfatase; Region: Sulfatase; cl10460 640511018847 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 640511018848 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 640511018849 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 640511018850 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640511018851 catalytic residue [active] 640511018852 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 640511018853 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 640511018854 Helix-turn-helix domains; Region: HTH; cl00088 640511018855 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 640511018856 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 640511018857 Helix-turn-helix domains; Region: HTH; cl00088 640511018858 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 640511018859 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511018860 FAD dependent oxidoreductase; Region: DAO; pfam01266 640511018861 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 640511018862 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 640511018863 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 640511018864 BON domain; Region: BON; cl02771 640511018865 Helix-turn-helix domains; Region: HTH; cl00088 640511018866 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 640511018867 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 640511018868 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640511018869 catalytic residue [active] 640511018870 SAM (Sterile alpha motif ); Region: SAM_superfamily; cd09487 640511018871 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 640511018872 cyclase homology domain; Region: CHD; cd07302 640511018873 nucleotidyl binding site; other site 640511018874 metal binding site [ion binding]; metal-binding site 640511018875 dimer interface [polypeptide binding]; other site 640511018876 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511018877 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 640511018878 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 640511018879 binding surface 640511018880 TPR motif; other site 640511018881 Indigoidine synthase A like protein; Region: Indigoidine_A; cl00983 640511018882 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 640511018883 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 640511018884 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640511018885 catalytic residue [active] 640511018886 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 640511018887 FMN binding site [chemical binding]; other site 640511018888 active site 640511018889 substrate binding site [chemical binding]; other site 640511018890 catalytic residue [active] 640511018891 Helix-turn-helix domains; Region: HTH; cl00088 640511018892 LysR family transcriptional regulator; Provisional; Region: PRK14997 640511018893 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 640511018894 putative effector binding pocket; other site 640511018895 putative dimerization interface [polypeptide binding]; other site 640511018896 Nitrogen regulatory protein P-II; Region: P-II; cl00412 640511018897 Nitrogen regulatory protein P-II; Region: P-II; smart00938 640511018898 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 640511018899 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 640511018900 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 640511018901 Walker A motif; other site 640511018902 ATP binding site [chemical binding]; other site 640511018903 Walker B motif; other site 640511018904 arginine finger; other site 640511018905 Helix-turn-helix domains; Region: HTH; cl00088 640511018906 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 640511018907 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 640511018908 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 640511018909 tetramer interface [polypeptide binding]; other site 640511018910 TPP-binding site [chemical binding]; other site 640511018911 heterodimer interface [polypeptide binding]; other site 640511018912 phosphorylation loop region [posttranslational modification] 640511018913 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 640511018914 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 640511018915 alpha subunit interface [polypeptide binding]; other site 640511018916 TPP binding site [chemical binding]; other site 640511018917 heterodimer interface [polypeptide binding]; other site 640511018918 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 640511018919 acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional; Region: PRK14875 640511018920 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 640511018921 E3 interaction surface; other site 640511018922 lipoyl attachment site [posttranslational modification]; other site 640511018923 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 640511018924 lipoyl synthase; Provisional; Region: PRK12928 640511018925 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 640511018926 FeS/SAM binding site; other site 640511018927 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 640511018928 cell density-dependent motility repressor; Provisional; Region: PRK10082 640511018929 Helix-turn-helix domains; Region: HTH; cl00088 640511018930 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 640511018931 dimerization interface [polypeptide binding]; other site 640511018932 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 640511018933 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 640511018934 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 640511018935 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 640511018936 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 640511018937 Aspartase; Region: Aspartase; cd01357 640511018938 active sites [active] 640511018939 tetramer interface [polypeptide binding]; other site 640511018940 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 640511018941 active site 640511018942 homotetramer interface [polypeptide binding]; other site 640511018943 homodimer interface [polypeptide binding]; other site 640511018944 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 640511018945 PAS domain; Region: PAS_9; pfam13426 640511018946 putative active site [active] 640511018947 heme pocket [chemical binding]; other site 640511018948 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 640511018949 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 640511018950 putative active site [active] 640511018951 heme pocket [chemical binding]; other site 640511018952 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640511018953 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 640511018954 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 640511018955 dimer interface [polypeptide binding]; other site 640511018956 phosphorylation site [posttranslational modification] 640511018957 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511018958 ATP binding site [chemical binding]; other site 640511018959 Mg2+ binding site [ion binding]; other site 640511018960 G-X-G motif; other site 640511018961 Response regulator receiver domain; Region: Response_reg; pfam00072 640511018962 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511018963 active site 640511018964 phosphorylation site [posttranslational modification] 640511018965 intermolecular recognition site; other site 640511018966 dimerization interface [polypeptide binding]; other site 640511018967 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 640511018968 Sulfate transporter family; Region: Sulfate_transp; cl15842 640511018969 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 640511018970 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 640511018971 ligand binding site [chemical binding]; other site 640511018972 flexible hinge region; other site 640511018973 SAM (Sterile alpha motif ); Region: SAM_superfamily; cd09487 640511018974 cyclase homology domain; Region: CHD; cd07302 640511018975 nucleotidyl binding site; other site 640511018976 metal binding site [ion binding]; metal-binding site 640511018977 dimer interface [polypeptide binding]; other site 640511018978 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511018979 Predicted ATPase [General function prediction only]; Region: COG3899 640511018980 Tetratricopeptide repeat; Region: TPR_12; pfam13424 640511018981 Protein of unknown function (DUF2681); Region: DUF2681; pfam10883 640511018982 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 640511018983 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640511018984 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 640511018985 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 640511018986 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 640511018987 acyl-CoA synthetase; Validated; Region: PRK09192 640511018988 AMP-binding enzyme; Region: AMP-binding; cl15778 640511018989 Fatty acid desaturase; Region: FA_desaturase; pfam00487 640511018990 phosphoenolpyruvate synthase; Validated; Region: PRK06241 640511018991 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 640511018992 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 640511018993 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 640511018994 active site 640511018995 NTP binding site [chemical binding]; other site 640511018996 metal binding triad [ion binding]; metal-binding site 640511018997 antibiotic binding site [chemical binding]; other site 640511018998 Pseudomonas fluorescens MupV-like, extended (e) SDRs; Region: MupV_like_SDR_e; cd05263 640511018999 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 640511019000 putative NAD(P) binding site [chemical binding]; other site 640511019001 active site 640511019002 putative substrate binding site [chemical binding]; other site 640511019003 Phosphopantetheine attachment site; Region: PP-binding; cl09936 640511019004 Coenzyme Q (ubiquinone) biosynthesis protein Coq4; Region: Coq4; cl02093 640511019005 Predicted archaeal sugar kinases [General function prediction only]; Region: COG1907 640511019006 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 640511019007 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 640511019008 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 640511019009 FeS/SAM binding site; other site 640511019010 tryptophanase/L-cysteine desulfhydrase, PLP-dependent; Provisional; Region: tnaA; PRK13238 640511019011 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 640511019012 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640511019013 catalytic residue [active] 640511019014 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 640511019015 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 640511019016 TMP-binding site; other site 640511019017 ATP-binding site [chemical binding]; other site 640511019018 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 640511019019 Helix-turn-helix domains; Region: HTH; cl00088 640511019020 AsnC family; Region: AsnC_trans_reg; pfam01037 640511019021 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 640511019022 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 640511019023 dimer interface [polypeptide binding]; other site 640511019024 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 640511019025 active site 640511019026 Fe binding site [ion binding]; other site 640511019027 aromatic amino acid transporter; Provisional; Region: PRK10238 640511019028 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 640511019029 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 640511019030 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511019031 homodimer interface [polypeptide binding]; other site 640511019032 catalytic residue [active] 640511019033 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 640511019034 active site 640511019035 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 640511019036 putative diguanylate cyclase; Provisional; Region: PRK09776 640511019037 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 640511019038 dimer interface [polypeptide binding]; other site 640511019039 phosphorylation site [posttranslational modification] 640511019040 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511019041 ATP binding site [chemical binding]; other site 640511019042 Mg2+ binding site [ion binding]; other site 640511019043 G-X-G motif; other site 640511019044 Response regulator receiver domain; Region: Response_reg; pfam00072 640511019045 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511019046 active site 640511019047 phosphorylation site [posttranslational modification] 640511019048 intermolecular recognition site; other site 640511019049 dimerization interface [polypeptide binding]; other site 640511019050 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511019051 Helix-turn-helix domains; Region: HTH; cl00088 640511019052 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 640511019053 putative dimerization interface [polypeptide binding]; other site 640511019054 tricarballylate dehydrogenase; Validated; Region: PRK08274 640511019055 tricarballylate utilization protein B; Provisional; Region: PRK15033 640511019056 citrate-proton symporter; Provisional; Region: PRK15075 640511019057 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511019058 putative substrate translocation pore; other site 640511019059 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640511019060 Helix-turn-helix domains; Region: HTH; cl00088 640511019061 putative lipoprotein/autotransporter domain-containing protein; Provisional; Region: PRK14849 640511019062 AIDA autotransporter-like protein ShdA; Provisional; Region: PRK15319 640511019063 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 640511019064 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 640511019065 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 640511019066 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 640511019067 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 640511019068 AMP-binding enzyme; Region: AMP-binding; cl15778 640511019069 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 640511019070 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 640511019071 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511019072 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 640511019073 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 640511019074 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 640511019075 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 640511019076 dimer interface [polypeptide binding]; other site 640511019077 active site 640511019078 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 640511019079 NAD(P) binding site [chemical binding]; other site 640511019080 catalytic residues [active] 640511019081 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 640511019082 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 640511019083 FAD binding pocket [chemical binding]; other site 640511019084 FAD binding motif [chemical binding]; other site 640511019085 phosphate binding motif [ion binding]; other site 640511019086 beta-alpha-beta structure motif; other site 640511019087 NAD(p) ribose binding residues [chemical binding]; other site 640511019088 NAD binding pocket [chemical binding]; other site 640511019089 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 640511019090 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 640511019091 catalytic loop [active] 640511019092 iron binding site [ion binding]; other site 640511019093 Domain of unknown function DUF59; Region: DUF59; cl00941 640511019094 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 640511019095 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 640511019096 Phenylacetic acid degradation B; Region: PaaB; cl01371 640511019097 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 640511019098 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 640511019099 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR2; cd08268 640511019100 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 640511019101 putative NAD(P) binding site [chemical binding]; other site 640511019102 hypothetical protein; Provisional; Region: PRK07877 640511019103 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 640511019104 FMN binding site [chemical binding]; other site 640511019105 dimer interface [polypeptide binding]; other site 640511019106 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 640511019107 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640511019108 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511019109 active site 640511019110 phosphorylation site [posttranslational modification] 640511019111 intermolecular recognition site; other site 640511019112 dimerization interface [polypeptide binding]; other site 640511019113 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 640511019114 DNA binding residues [nucleotide binding] 640511019115 dimerization interface [polypeptide binding]; other site 640511019116 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 640511019117 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511019118 active site 640511019119 FOG: CBS domain [General function prediction only]; Region: COG0517 640511019120 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 640511019121 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 640511019122 Ligand Binding Site [chemical binding]; other site 640511019123 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 640511019124 active site 640511019125 FOG: CBS domain [General function prediction only]; Region: COG0517 640511019126 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 640511019127 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 640511019128 Surface antigen; Region: Bac_surface_Ag; cl03097 640511019129 PAS domain S-box; Region: sensory_box; TIGR00229 640511019130 PAS domain; Region: PAS_9; pfam13426 640511019131 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640511019132 metal binding site [ion binding]; metal-binding site 640511019133 active site 640511019134 I-site; other site 640511019135 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 640511019136 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 640511019137 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 640511019138 Sulphur transport; Region: Sulf_transp; cl01018 640511019139 Predicted transporter component [General function prediction only]; Region: COG2391 640511019140 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 640511019141 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 640511019142 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 640511019143 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 640511019144 PAS fold; Region: PAS_4; pfam08448 640511019145 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 640511019146 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 640511019147 Walker A motif; other site 640511019148 ATP binding site [chemical binding]; other site 640511019149 Walker B motif; other site 640511019150 arginine finger; other site 640511019151 Helix-turn-helix domains; Region: HTH; cl00088 640511019152 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 640511019153 Response regulator receiver domain; Region: Response_reg; pfam00072 640511019154 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511019155 active site 640511019156 phosphorylation site [posttranslational modification] 640511019157 intermolecular recognition site; other site 640511019158 dimerization interface [polypeptide binding]; other site 640511019159 PAS domain S-box; Region: sensory_box; TIGR00229 640511019160 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 640511019161 Histidine kinase; Region: HisKA_3; pfam07730 640511019162 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511019163 ATP binding site [chemical binding]; other site 640511019164 Mg2+ binding site [ion binding]; other site 640511019165 G-X-G motif; other site 640511019166 TMAO reductase sytem sensor TorS; Region: TMAO_torS; TIGR02956 640511019167 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 640511019168 sensory histidine kinase AtoS; Provisional; Region: PRK11360 640511019169 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 640511019170 dimer interface [polypeptide binding]; other site 640511019171 phosphorylation site [posttranslational modification] 640511019172 Archaeal/eukaryotic core primase: Large subunit, PriL; Region: PriL; cl11970 640511019173 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511019174 ATP binding site [chemical binding]; other site 640511019175 Mg2+ binding site [ion binding]; other site 640511019176 G-X-G motif; other site 640511019177 Response regulator receiver domain; Region: Response_reg; pfam00072 640511019178 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511019179 active site 640511019180 phosphorylation site [posttranslational modification] 640511019181 intermolecular recognition site; other site 640511019182 dimerization interface [polypeptide binding]; other site 640511019183 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 640511019184 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 640511019185 Homospermidine synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG5310 640511019186 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 640511019187 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511019188 FAD dependent oxidoreductase; Region: DAO; pfam01266 640511019189 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 640511019190 putative dimer interface [polypeptide binding]; other site 640511019191 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 640511019192 putative dimer interface [polypeptide binding]; other site 640511019193 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 640511019194 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 640511019195 putative dimer interface [polypeptide binding]; other site 640511019196 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 640511019197 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 640511019198 NAD binding site [chemical binding]; other site 640511019199 catalytic Zn binding site [ion binding]; other site 640511019200 structural Zn binding site [ion binding]; other site 640511019201 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 640511019202 Cytochrome c; Region: Cytochrom_C; cl11414 640511019203 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 640511019204 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 640511019205 D-pathway; other site 640511019206 Putative ubiquinol binding site [chemical binding]; other site 640511019207 Low-spin heme (heme b) binding site [chemical binding]; other site 640511019208 Putative water exit pathway; other site 640511019209 Binuclear center (heme o3/CuB) [ion binding]; other site 640511019210 K-pathway; other site 640511019211 Putative proton exit pathway; other site 640511019212 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 640511019213 Subunit I/III interface [polypeptide binding]; other site 640511019214 PRTRC system protein D; Region: PRTRC_D; TIGR03739 640511019215 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 640511019216 CHC2 zinc finger; Region: zf-CHC2; cl15369 640511019217 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 640511019218 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 640511019219 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 640511019220 dimer interface [polypeptide binding]; other site 640511019221 ssDNA binding site [nucleotide binding]; other site 640511019222 tetramer (dimer of dimers) interface [polypeptide binding]; other site 640511019223 Restriction endonuclease; Region: Mrr_cat; cl00516 640511019224 RNA polymerase sigma factor WhiG; Reviewed; Region: PRK06288 640511019225 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 640511019226 Flagellar transcriptional activator (FlhC); Region: FlhC; cl05036 640511019227 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 640511019228 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 640511019229 Type II/IV secretion system protein; Region: T2SE; pfam00437 640511019230 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511019231 Walker A motif; other site 640511019232 ATP binding site [chemical binding]; other site 640511019233 Walker B motif; other site 640511019234 type IVB pilus formation outer membrane protein, R64 PilN family; Region: pilus_B_mal_scr; TIGR02520 640511019235 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 640511019236 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 640511019237 N-acetyl-D-glucosamine binding site [chemical binding]; other site 640511019238 catalytic residue [active] 640511019239 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 640511019240 VirB7 interaction site; other site 640511019241 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 640511019242 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 640511019243 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 640511019244 VirB7 interaction site; other site 640511019245 VirB8 protein; Region: VirB8; cl01500 640511019246 Initiator Replication protein; Region: Rep_3; cl03080 640511019247 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 640511019248 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 640511019249 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 640511019250 P-loop; other site 640511019251 Magnesium ion binding site [ion binding]; other site 640511019252 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 640511019253 Magnesium ion binding site [ion binding]; other site 640511019254 ParB-like partition proteins; Region: parB_part; TIGR00180 640511019255 ParB-like nuclease domain; Region: ParBc; cl02129 640511019256 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 640511019257 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640511019258 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511019259 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 640511019260 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 640511019261 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 640511019262 IucA / IucC family; Region: IucA_IucC; pfam04183 640511019263 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 640511019264 siderophore ferric iron reductase, AHA_1954 family; Region: sidero_Fe_reduc; TIGR03950 640511019265 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 640511019266 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 640511019267 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 640511019268 [2Fe-2S] cluster binding site [ion binding]; other site 640511019269 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 640511019270 alpha subunit interface [polypeptide binding]; other site 640511019271 active site 640511019272 substrate binding site [chemical binding]; other site 640511019273 Fe binding site [ion binding]; other site 640511019274 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 640511019275 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 640511019276 Helix-turn-helix domains; Region: HTH; cl00088 640511019277 Integrase core domain; Region: rve_3; cl15866 640511019278 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 640511019279 AMP-binding enzyme; Region: AMP-binding; cl15778 640511019280 Phosphopantetheine attachment site; Region: PP-binding; cl09936 640511019281 peptide synthase; Provisional; Region: PRK12316 640511019282 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 640511019283 AMP-binding enzyme; Region: AMP-binding; cl15778 640511019284 AMP-binding enzyme; Region: AMP-binding; cl15778 640511019285 Phosphopantetheine attachment site; Region: PP-binding; cl09936 640511019286 MatE; Region: MatE; cl10513 640511019287 MatE; Region: MatE; cl10513 640511019288 Helix-turn-helix domains; Region: HTH; cl00088 640511019289 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 640511019290 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 640511019291 Transposase; Region: DEDD_Tnp_IS110; pfam01548 640511019292 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 640511019293 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 640511019294 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 640511019295 dinuclear metal binding motif [ion binding]; other site 640511019296 Toluene-4-monooxygenase system protein B (TmoB); Region: TmoB; pfam06234 640511019297 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 640511019298 [2Fe-2S] cluster binding site [ion binding]; other site 640511019299 MmoB/DmpM family; Region: MmoB_DmpM; pfam02406 640511019300 Transposase domain (DUF772); Region: DUF772; pfam05598 640511019301 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 640511019302 Aromatic and Alkene Monooxygenase Hydroxylase, subunit B, ferritin-like diiron-binding domain; Region: AAMH_B; cd01058 640511019303 dimerization interface [polypeptide binding]; other site 640511019304 Helix-turn-helix domains; Region: HTH; cl00088 640511019305 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 640511019306 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 640511019307 catalytic residues [active] 640511019308 catalytic nucleophile [active] 640511019309 Recombinase; Region: Recombinase; pfam07508 640511019310 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 640511019311 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 640511019312 Walker A motif; other site 640511019313 ATP binding site [chemical binding]; other site 640511019314 Walker B motif; other site 640511019315 arginine finger; other site 640511019316 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 640511019317 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 640511019318 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 640511019319 transposase/IS protein; Provisional; Region: PRK09183 640511019320 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 640511019321 Walker A motif; other site 640511019322 ATP binding site [chemical binding]; other site 640511019323 Glycosyl hydrolase family 12; Region: Glyco_hydro_12; cl03302 640511019324 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 640511019325 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 640511019326 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 640511019327 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 640511019328 indole acetimide hydrolase; Validated; Region: PRK07488 640511019329 Amidase; Region: Amidase; cl11426 640511019330 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511019331 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 640511019332 multidrug efflux protein; Reviewed; Region: PRK09579 640511019333 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 640511019334 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 640511019335 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 640511019336 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640511019337 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically 'activated' sulfate form important for the assimilation of...; Region: APSK; cd02027 640511019338 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 640511019339 ligand-binding site [chemical binding]; other site 640511019340 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 640511019341 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 640511019342 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 640511019343 Nodulation protein S (NodS); Region: NodS; pfam05401 640511019344 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 640511019345 S-adenosylmethionine binding site [chemical binding]; other site 640511019346 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 640511019347 Stf0 sulphotransferase; Region: Sulphotransf; cl01835 640511019348 ABC-2 type transporter; Region: ABC2_membrane; cl11417 640511019349 nodulation ABC transporter NodI; Provisional; Region: PRK13537 640511019350 The ABCA subfamily mediates the transport of a variety of lipid compounds. Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency; Region: ABC_subfamily_A; cd03263 640511019351 Walker A/P-loop; other site 640511019352 ATP binding site [chemical binding]; other site 640511019353 Q-loop/lid; other site 640511019354 ABC transporter signature motif; other site 640511019355 Walker B; other site 640511019356 D-loop; other site 640511019357 H-loop/switch region; other site 640511019358 chitooligosaccharide synthase NodC; Region: nodulat_NodC; TIGR04242 640511019359 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 640511019360 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 640511019361 DXD motif; other site 640511019362 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 640511019363 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 640511019364 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511019365 Helix-turn-helix domains; Region: HTH; cl00088 640511019366 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 640511019367 putative substrate binding pocket [chemical binding]; other site 640511019368 putative dimerization interface [polypeptide binding]; other site 640511019369 ATP-grasp domain; Region: ATP-grasp_4; cl03087 640511019370 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511019371 Helix-turn-helix domains; Region: HTH; cl00088 640511019372 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 640511019373 dimerization interface [polypeptide binding]; other site 640511019374 Nif-specific regulatory protein; Region: nifA; TIGR01817 640511019375 GAF domain; Region: GAF; cl15785 640511019376 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 640511019377 Walker A motif; other site 640511019378 ATP binding site [chemical binding]; other site 640511019379 Walker B motif; other site 640511019380 arginine finger; other site 640511019381 Helix-turn-helix domains; Region: HTH; cl00088 640511019382 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 640511019383 Nitrogenase_NifE_I: a subgroup of the NifE subunit of the NifEN complex: NifE forms an alpha2beta2 tetramer with NifN. NifE and NifN are structurally homologous to nitrogenase MoFe protein alpha and beta subunits respectively. NifEN participates in the...; Region: Nitrogenase_NifE_I; cd01968 640511019384 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 640511019385 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 640511019386 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 640511019387 Rop-like; Region: Rop-like; cl02247 640511019388 ferredoxin III, nif-specific; Region: fdxN_nitrog; TIGR02936 640511019389 NifQ; Region: NifQ; pfam04891 640511019390 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 640511019391 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 640511019392 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 640511019393 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 640511019394 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 640511019395 Walker A motif; other site 640511019396 ATP binding site [chemical binding]; other site 640511019397 Walker B motif; other site 640511019398 arginine finger; other site 640511019399 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 640511019400 Winged helix-turn helix; Region: HTH_29; pfam13551 640511019401 Helix-turn-helix domains; Region: HTH; cl00088 640511019402 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 640511019403 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 640511019404 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511019405 oxidoreductase; Provisional; Region: PRK10015 640511019406 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 640511019407 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 640511019408 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 640511019409 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 640511019410 Ligand binding site [chemical binding]; other site 640511019411 Electron transfer flavoprotein domain; Region: ETF; pfam01012 640511019412 Nitrogen fixation protein NifW; Region: NifW; cl03935 640511019413 homocitrate synthase NifV; Region: nifV_homocitr; TIGR02660 640511019414 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 640511019415 active site 640511019416 catalytic residues [active] 640511019417 metal binding site [ion binding]; metal-binding site 640511019418 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 640511019419 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 640511019420 FeS/SAM binding site; other site 640511019421 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 640511019422 hypothetical protein; Provisional; Region: PRK13795 640511019423 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 640511019424 NifZ domain; Region: NifZ; pfam04319 640511019425 NifT/FixU protein; Region: NifT; cl02351 640511019426 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 640511019427 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 640511019428 inhibitor-cofactor binding pocket; inhibition site 640511019429 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511019430 catalytic residue [active] 640511019431 Transposase domain (DUF772); Region: DUF772; pfam05598 640511019432 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 640511019433 Helix-turn-helix domains; Region: HTH; cl00088 640511019434 Winged helix-turn helix; Region: HTH_29; pfam13551 640511019435 Helix-turn-helix domains; Region: HTH; cl00088 640511019436 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 640511019437 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 640511019438 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 640511019439 nitrogenase reductase; Reviewed; Region: nifH; PRK13234 640511019440 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 640511019441 Nucleotide-binding sites [chemical binding]; other site 640511019442 Walker A motif; other site 640511019443 Switch I region of nucleotide binding site; other site 640511019444 Fe4S4 binding sites [ion binding]; other site 640511019445 Switch II region of nucleotide binding site; other site 640511019446 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 640511019447 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 640511019448 MoFe protein alpha/beta subunit interactions; other site 640511019449 Alpha subunit P cluster binding residues; other site 640511019450 FeMoco binding residues [chemical binding]; other site 640511019451 MoFe protein alpha subunit/Fe protein contacts; other site 640511019452 MoFe protein dimer/ dimer interactions; other site 640511019453 nitrogenase molybdenum-iron protein beta chain; Region: nifK; TIGR01286 640511019454 Domain of unknown function (DUF3364); Region: DUF3364; pfam11844 640511019455 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 640511019456 MoFe protein beta/alpha subunit interactions; other site 640511019457 Beta subunit P cluster binding residues; other site 640511019458 MoFe protein beta subunit/Fe protein contacts; other site 640511019459 MoFe protein dimer/ dimer interactions; other site 640511019460 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 640511019461 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 640511019462 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 640511019463 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 640511019464 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 640511019465 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 640511019466 D-pathway; other site 640511019467 Putative ubiquinol binding site [chemical binding]; other site 640511019468 Low-spin heme (heme b) binding site [chemical binding]; other site 640511019469 Putative water exit pathway; other site 640511019470 Binuclear center (heme o3/CuB) [ion binding]; other site 640511019471 K-pathway; other site 640511019472 Putative proton exit pathway; other site 640511019473 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 640511019474 Subunit I/III interface [polypeptide binding]; other site 640511019475 Subunit III/IV interface [polypeptide binding]; other site 640511019476 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 640511019477 Peptidase M15; Region: Peptidase_M15_3; cl01194 640511019478 Response regulator receiver domain; Region: Response_reg; pfam00072 640511019479 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511019480 active site 640511019481 phosphorylation site [posttranslational modification] 640511019482 intermolecular recognition site; other site 640511019483 dimerization interface [polypeptide binding]; other site 640511019484 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 640511019485 PAS domain S-box; Region: sensory_box; TIGR00229 640511019486 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 640511019487 Histidine kinase; Region: HisKA_3; pfam07730 640511019488 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511019489 ATP binding site [chemical binding]; other site 640511019490 Mg2+ binding site [ion binding]; other site 640511019491 G-X-G motif; other site 640511019492 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640511019493 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511019494 active site 640511019495 phosphorylation site [posttranslational modification] 640511019496 intermolecular recognition site; other site 640511019497 dimerization interface [polypeptide binding]; other site 640511019498 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 640511019499 DNA binding residues [nucleotide binding] 640511019500 dimerization interface [polypeptide binding]; other site 640511019501 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 640511019502 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 640511019503 active site 640511019504 catalytic tetrad [active] 640511019505 aspartate aminotransferase; Provisional; Region: PRK05764 640511019506 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 640511019507 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511019508 homodimer interface [polypeptide binding]; other site 640511019509 catalytic residue [active] 640511019510 hypothetical protein; Provisional; Region: PRK07206 640511019511 ATP-grasp domain; Region: ATP-grasp_4; cl03087 640511019512 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 640511019513 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511019514 Transposase domain (DUF772); Region: DUF772; pfam05598 640511019515 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 640511019516 DDE superfamily endonuclease; Region: DDE_4; cl15789 640511019517 transposase/IS protein; Provisional; Region: PRK09183 640511019518 transposase/IS protein; Provisional; Region: PRK09183 640511019519 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511019520 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 640511019521 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 640511019522 DNA-binding interface [nucleotide binding]; DNA binding site 640511019523 Integrase core domain; Region: rve; cl01316 640511019524 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 640511019525 putative transposase OrfB; Reviewed; Region: PHA02517 640511019526 HTH-like domain; Region: HTH_21; pfam13276 640511019527 Integrase core domain; Region: rve; cl01316 640511019528 Integrase core domain; Region: rve_3; cl15866 640511019529 Helix-turn-helix domains; Region: HTH; cl00088 640511019530 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511019531 citrate-proton symporter; Provisional; Region: PRK15075 640511019532 putative substrate translocation pore; other site 640511019533 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 640511019534 amidohydrolase; Region: amidohydrolases; TIGR01891 640511019535 putative metal binding site [ion binding]; other site 640511019536 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 640511019537 trimer interface [polypeptide binding]; other site 640511019538 eyelet of channel; other site 640511019539 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640511019540 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511019541 metabolite-proton symporter; Region: 2A0106; TIGR00883 640511019542 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511019543 putative substrate translocation pore; other site 640511019544 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 640511019545 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 640511019546 active site 640511019547 non-prolyl cis peptide bond; other site 640511019548 Flavin Reductases; Region: FlaRed; cl00801 640511019549 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 640511019550 Helix-turn-helix domains; Region: HTH; cl00088 640511019551 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 640511019552 putative dimerization interface [polypeptide binding]; other site 640511019553 Cupin domain; Region: Cupin_2; cl09118 640511019554 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640511019555 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 640511019556 tetramerization interface [polypeptide binding]; other site 640511019557 NAD(P) binding site [chemical binding]; other site 640511019558 catalytic residues [active] 640511019559 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 640511019560 Uncharacterized protein conserved in bacteria (DUF2186); Region: DUF2186; pfam09952 640511019561 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314; cl02193 640511019562 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 640511019563 Integrase core domain; Region: rve; cl01316 640511019564 putative lipoprotein/autotransporter domain-containing protein; Provisional; Region: PRK14849 640511019565 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 640511019566 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 640511019567 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 640511019568 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 640511019569 N-acetyl-D-glucosamine binding site [chemical binding]; other site 640511019570 catalytic residue [active] 640511019571 Helix-turn-helix domains; Region: HTH; cl00088 640511019572 Winged helix-turn helix; Region: HTH_29; pfam13551 640511019573 Helix-turn-helix domains; Region: HTH; cl00088 640511019574 Helix-turn-helix domains; Region: HTH; cl00088 640511019575 Winged helix-turn helix; Region: HTH_29; pfam13551 640511019576 Helix-turn-helix domains; Region: HTH; cl00088 640511019577 Integrase core domain; Region: rve; cl01316 640511019578 Transposase; Region: DEDD_Tnp_IS110; pfam01548 640511019579 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 640511019580 Helix-turn-helix domains; Region: HTH; cl00088 640511019581 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4782 640511019582 Cupin domain; Region: Cupin_2; cl09118 640511019583 Cupin domain; Region: Cupin_2; cl09118 640511019584 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 640511019585 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 640511019586 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640511019587 catalytic residue [active] 640511019588 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511019589 metabolite-proton symporter; Region: 2A0106; TIGR00883 640511019590 putative substrate translocation pore; other site 640511019591 hypothetical protein; Provisional; Region: PRK07079 640511019592 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_2; cd05679 640511019593 metal binding site [ion binding]; metal-binding site 640511019594 putative dimer interface [polypeptide binding]; other site 640511019595 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640511019596 Helix-turn-helix domains; Region: HTH; cl00088 640511019597 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 640511019598 dimerization interface [polypeptide binding]; other site 640511019599 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 640511019600 trimer interface [polypeptide binding]; other site 640511019601 eyelet of channel; other site 640511019602 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 640511019603 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 640511019604 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 640511019605 dimerization interface [polypeptide binding]; other site 640511019606 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 640511019607 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640511019608 dimer interface [polypeptide binding]; other site 640511019609 putative CheW interface [polypeptide binding]; other site 640511019610 kynureninase; Region: kynureninase; TIGR01814 640511019611 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 640511019612 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640511019613 catalytic residue [active] 640511019614 aspartate carbamoyltransferase; Provisional; Region: PRK11891 640511019615 transcriptional regulator EutR; Provisional; Region: PRK10130 640511019616 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 640511019617 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 640511019618 catalytic loop [active] 640511019619 iron binding site [ion binding]; other site 640511019620 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 640511019621 FAD binding pocket [chemical binding]; other site 640511019622 FAD binding motif [chemical binding]; other site 640511019623 phosphate binding motif [ion binding]; other site 640511019624 beta-alpha-beta structure motif; other site 640511019625 NAD binding pocket [chemical binding]; other site 640511019626 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 640511019627 inter-subunit interface; other site 640511019628 anthranilate 1,2-dioxygenase, large subunit; Region: anthran_1_2_A; TIGR03228 640511019629 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 640511019630 iron-sulfur cluster [ion binding]; other site 640511019631 [2Fe-2S] cluster binding site [ion binding]; other site 640511019632 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 640511019633 putative alpha subunit interface [polypeptide binding]; other site 640511019634 putative active site [active] 640511019635 putative substrate binding site [chemical binding]; other site 640511019636 Fe binding site [ion binding]; other site 640511019637 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 640511019638 Transposase; Region: DEDD_Tnp_IS110; pfam01548 640511019639 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 640511019640 Helix-turn-helix domains; Region: HTH; cl00088 640511019641 HTH-like domain; Region: HTH_21; pfam13276 640511019642 Catalytic domain of Protein Kinases; Region: PKc; cd00180 640511019643 active site 640511019644 ATP binding site [chemical binding]; other site 640511019645 substrate binding site [chemical binding]; other site 640511019646 activation loop (A-loop); other site 640511019647 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511019648 Predicted ATPase [General function prediction only]; Region: COG3899 640511019649 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 640511019650 GAF domain; Region: GAF; cl15785 640511019651 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 640511019652 PAS domain; Region: PAS_9; pfam13426 640511019653 putative active site [active] 640511019654 heme pocket [chemical binding]; other site 640511019655 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 640511019656 Histidine kinase; Region: HisKA_3; pfam07730 640511019657 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 640511019658 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 640511019659 Transposase; Region: DEDD_Tnp_IS110; pfam01548 640511019660 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 640511019661 Chorismate mutase type II; Region: CM_2; cl00693 640511019662 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 640511019663 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 640511019664 Walker A motif; other site 640511019665 ATP binding site [chemical binding]; other site 640511019666 Walker B motif; other site 640511019667 arginine finger; other site 640511019668 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 640511019669 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 640511019670 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 640511019671 Pectate lyase; Region: Pec_lyase_C; cl01593 640511019672 Transposase; Region: DEDD_Tnp_IS110; pfam01548 640511019673 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 640511019674 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 640511019675 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 640511019676 Walker A/P-loop; other site 640511019677 ATP binding site [chemical binding]; other site 640511019678 Q-loop/lid; other site 640511019679 ABC transporter signature motif; other site 640511019680 Walker B; other site 640511019681 D-loop; other site 640511019682 H-loop/switch region; other site 640511019683 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 640511019684 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 640511019685 Walker A/P-loop; other site 640511019686 ATP binding site [chemical binding]; other site 640511019687 Q-loop/lid; other site 640511019688 ABC transporter signature motif; other site 640511019689 Walker B; other site 640511019690 D-loop; other site 640511019691 H-loop/switch region; other site 640511019692 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 640511019693 TM-ABC transporter signature motif; other site 640511019694 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 640511019695 TM-ABC transporter signature motif; other site 640511019696 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 640511019697 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 640511019698 Transposase; Region: DEDD_Tnp_IS110; pfam01548 640511019699 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 640511019700 DDE superfamily endonuclease; Region: DDE_4; cl15789 640511019701 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 640511019702 DDE superfamily endonuclease; Region: DDE_4; cl15789 640511019703 DDE superfamily endonuclease; Region: DDE_4; cl15789 640511019704 Transposase; Region: DEDD_Tnp_IS110; pfam01548 640511019705 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 640511019706 Ribosome inactivating protein; Region: RIP; pfam00161 640511019707 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 640511019708 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 640511019709 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511019710 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640511019711 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 640511019712 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 640511019713 Walker A/P-loop; other site 640511019714 ATP binding site [chemical binding]; other site 640511019715 Q-loop/lid; other site 640511019716 ABC transporter signature motif; other site 640511019717 Walker B; other site 640511019718 D-loop; other site 640511019719 H-loop/switch region; other site 640511019720 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640511019721 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 640511019722 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 640511019723 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 640511019724 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 640511019725 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640511019726 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 640511019727 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 640511019728 DNA binding residues [nucleotide binding] 640511019729 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 640511019730 trimer interface [polypeptide binding]; other site 640511019731 eyelet of channel; other site 640511019732 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 640511019733 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 640511019734 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 640511019735 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640511019736 catalytic residue [active] 640511019737 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 640511019738 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511019739 Helix-turn-helix domains; Region: HTH; cl00088 640511019740 HTH-like domain; Region: HTH_21; pfam13276 640511019741 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 640511019742 Integrase core domain; Region: rve; cl01316 640511019743 Integrase core domain; Region: rve_3; cl15866 640511019744 Protein of unknown function (DUF3892); Region: DUF3892; pfam13031 640511019745 Helix-turn-helix domains; Region: HTH; cl00088 640511019746 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 640511019747 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 640511019748 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 640511019749 Integrase core domain; Region: rve; cl01316 640511019750 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 640511019751 Transposase domain (DUF772); Region: DUF772; pfam05598 640511019752 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 640511019753 DDE superfamily endonuclease; Region: DDE_4; cl15789 640511019754 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640511019755 classical (c) SDRs; Region: SDR_c; cd05233 640511019756 NAD(P) binding site [chemical binding]; other site 640511019757 active site 640511019758 DDE superfamily endonuclease; Region: DDE_4; cl15789 640511019759 DDE superfamily endonuclease; Region: DDE_4; cl15789 640511019760 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 640511019761 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 640511019762 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 640511019763 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511019764 putative substrate translocation pore; other site 640511019765 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 640511019766 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640511019767 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 640511019768 active site 640511019769 catalytic residues [active] 640511019770 metal binding site [ion binding]; metal-binding site 640511019771 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640511019772 Helix-turn-helix domains; Region: HTH; cl00088 640511019773 Bacterial transcriptional regulator; Region: IclR; pfam01614 640511019774 DDE superfamily endonuclease; Region: DDE_4; cl15789 640511019775 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 640511019776 DDE superfamily endonuclease; Region: DDE_4; cl15789 640511019777 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 640511019778 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 640511019779 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511019780 active site 640511019781 phosphorylation site [posttranslational modification] 640511019782 intermolecular recognition site; other site 640511019783 dimerization interface [polypeptide binding]; other site 640511019784 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 640511019785 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511019786 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640511019787 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640511019788 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511019789 active site 640511019790 phosphorylation site [posttranslational modification] 640511019791 intermolecular recognition site; other site 640511019792 dimerization interface [polypeptide binding]; other site 640511019793 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 640511019794 DNA binding residues [nucleotide binding] 640511019795 dimerization interface [polypeptide binding]; other site 640511019796 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 640511019797 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640511019798 Cupin domain; Region: Cupin_2; cl09118 640511019799 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 640511019800 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 640511019801 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640511019802 ATP binding site [chemical binding]; other site 640511019803 Mg2+ binding site [ion binding]; other site 640511019804 G-X-G motif; other site 640511019805 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 640511019806 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640511019807 active site 640511019808 phosphorylation site [posttranslational modification] 640511019809 intermolecular recognition site; other site 640511019810 dimerization interface [polypeptide binding]; other site 640511019811 Phage integrase protein; Region: DUF3701; pfam12482 640511019812 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 640511019813 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 640511019814 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 640511019815 Int/Topo IB signature motif; other site 640511019816 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 640511019817 SET domain; Region: SET; cl02566 640511019818 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 640511019819 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 640511019820 PAS fold; Region: PAS_3; pfam08447 640511019821 putative active site [active] 640511019822 heme pocket [chemical binding]; other site 640511019823 formyl-coenzyme A transferase; Provisional; Region: PRK05398 640511019824 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640511019825 putative oxalyl-CoA decarboxylase; Validated; Region: PRK09259 640511019826 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 640511019827 PYR/PP interface [polypeptide binding]; other site 640511019828 dimer interface [polypeptide binding]; other site 640511019829 TPP binding site [chemical binding]; other site 640511019830 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 640511019831 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 640511019832 TPP-binding site; other site 640511019833 dimer interface [polypeptide binding]; other site 640511019834 oxalate/formate antiporter; Region: oxa_formateAnti; TIGR04259 640511019835 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640511019836 putative substrate translocation pore; other site 640511019837 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 640511019838 active site 640511019839 DNA binding site [nucleotide binding] 640511019840 Int/Topo IB signature motif; other site 640511019841 Phasin protein; Region: Phasin_2; cl11491 640511019842 Domain of unknown function, B. Theta Gene description (DUF3876); Region: DUF3876; pfam12992 640511019843 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 640511019844 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511019845 AAA domain; Region: AAA_21; pfam13304 640511019846 Walker A/P-loop; other site 640511019847 ATP binding site [chemical binding]; other site 640511019848 ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The...; Region: ABC_ATPase; cd00267 640511019849 Walker B; other site 640511019850 D-loop; other site 640511019851 H-loop/switch region; other site 640511019852 Hypothetical protein (DUF2513); Region: DUF2513; pfam10711 640511019853 PemK-like protein; Region: PemK; cl00995 640511019854 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 640511019855 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 640511019856 active site 640511019857 DNA binding site [nucleotide binding] 640511019858 Int/Topo IB signature motif; other site 640511019859 Methyltransferase domain; Region: Methyltransf_31; pfam13847 640511019860 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 640511019861 S-adenosylmethionine binding site [chemical binding]; other site 640511019862 Predicted integral membrane protein (DUF2282); Region: DUF2282; cl02366 640511019863 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 640511019864 Bacterial Ig-like domain; Region: Big_5; cl01012 640511019865 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 640511019866 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 640511019867 Cu(I) binding site [ion binding]; other site 640511019868 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 640511019869 catalytic residues [active] 640511019870 Cytochrome c; Region: Cytochrom_C; cl11414 640511019871 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 640511019872 catalytic residues [active] 640511019873 High potential iron-sulfur protein; Region: HIPIP; pfam01355 640511019874 multicopper oxidase; Provisional; Region: PRK10965 640511019875 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 640511019876 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 640511019877 Nitrogen regulatory protein P-II; Region: P-II; cl00412 640511019878 Nitrogen regulatory protein P-II; Region: P-II; smart00938 640511019879 Protein of unknown function with PCYCGC motif; Region: PCYCGC; pfam13798 640511019880 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 640511019881 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 640511019882 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 640511019883 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 640511019884 DsbD alpha interface [polypeptide binding]; other site 640511019885 catalytic residues [active] 640511019886 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 640511019887 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 640511019888 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 640511019889 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 640511019890 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 640511019891 Outer membrane efflux protein; Region: OEP; pfam02321 640511019892 Outer membrane efflux protein; Region: OEP; pfam02321 640511019893 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 640511019894 DDE superfamily endonuclease; Region: DDE_4; cl15789 640511019895 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 640511019896 DDE superfamily endonuclease; Region: DDE_4; cl15789 640511019897 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 640511019898 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 640511019899 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511019900 Walker A/P-loop; other site 640511019901 ATP binding site [chemical binding]; other site 640511019902 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 640511019903 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 640511019904 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 640511019905 active site 640511019906 metal binding site [ion binding]; metal-binding site 640511019907 RIM-binding protein of the cytomatrix active zone; Region: Cast; pfam10174 640511019908 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 640511019909 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 640511019910 Family description; Region: UvrD_C_2; cl15862 640511019911 Domain of unknown function (DUF4400); Region: DUF4400; cl14023 640511019912 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 640511019913 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511019914 Walker A motif; other site 640511019915 ATP binding site [chemical binding]; other site 640511019916 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511019917 Walker B motif; other site 640511019918 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 640511019919 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 640511019920 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314; cl02193 640511019921 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 640511019922 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 640511019923 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640511019924 Walker A/P-loop; other site 640511019925 ATP binding site [chemical binding]; other site 640511019926 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 640511019927 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 640511019928 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 640511019929 ATP binding site [chemical binding]; other site 640511019930 Walker A motif; other site 640511019931 hexamer interface [polypeptide binding]; other site 640511019932 Walker B motif; other site 640511019933 H-NS histone family; Region: Histone_HNS; pfam00816 640511019934 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 640511019935 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 640511019936 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 640511019937 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 640511019938 Walker A motif; other site 640511019939 ATP binding site [chemical binding]; other site 640511019940 Walker B motif; other site 640511019941 arginine finger; other site 640511019942 Protein of unknown function (DUF3717); Region: DUF3717; pfam12512 640511019943 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 640511019944 PRTRC system ThiF family protein; Region: PRTRC_ThiF; TIGR03736 640511019945 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 640511019946 ATP binding site [chemical binding]; other site 640511019947 substrate interface [chemical binding]; other site 640511019948 PRTRC system protein A; Region: PRTRC_A; TIGR03735 640511019949 Domain of unknown function (DUF2016); Region: DUF2016; pfam09436 640511019950 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 640511019951 Prokaryotic E2 family D; Region: Prok-E2_D; cl14019 640511019952 PRTRC system protein F; Region: PRTRC_F; TIGR03742 640511019953 Alpha-helical domain 2; Region: alpha-hel2; pfam14456 640511019954 Prokaryotic Ubiquitin; Region: Prok_Ub; cl14020 640511019955 PRTRC system protein E; Region: PRTRC_E; TIGR03741 640511019956 ParB-like nuclease domain; Region: ParBc; cl02129 640511019957 PRTRC system ParB family protein; Region: PRTRC_parB; TIGR03734 640511019958 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 640511019959 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 640511019960 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 640511019961 nucleotide binding region [chemical binding]; other site 640511019962 ATP-binding site [chemical binding]; other site 640511019963 Protein of unknown function (DUF1173); Region: DUF1173; pfam06666 640511019964 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 640511019965 PLD-like domain; Region: PLDc_2; pfam13091 640511019966 putative active site [active] 640511019967 catalytic site [active] 640511019968 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl15384 640511019969 Phage integrase, N-terminal; Region: Integrase_l_N; pfam12834