-- dump date 20120504_135736 -- class Genbank::misc_feature -- table misc_feature_note -- id note 640510000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 640510000002 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 640510000003 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 640510000004 Walker A motif; other site 640510000005 ATP binding site [chemical binding]; other site 640510000006 Walker B motif; other site 640510000007 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510000008 arginine finger; other site 640510000009 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 640510000010 DnaA box-binding interface [nucleotide binding]; other site 640510000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 640510000012 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 640510000013 putative DNA binding surface [nucleotide binding]; other site 640510000014 dimer interface [polypeptide binding]; other site 640510000015 beta-clamp/clamp loader binding surface; other site 640510000016 beta-clamp/translesion DNA polymerase binding surface; other site 640510000017 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 640510000018 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510000019 ATP binding site [chemical binding]; other site 640510000020 Mg2+ binding site [ion binding]; other site 640510000021 G-X-G motif; other site 640510000022 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 640510000023 anchoring element; other site 640510000024 dimer interface [polypeptide binding]; other site 640510000025 ATP binding site [chemical binding]; other site 640510000026 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 640510000027 active site 640510000028 putative metal-binding site [ion binding]; other site 640510000029 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 640510000030 Beta protein; Region: Beta_protein; pfam14350 640510000031 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 640510000032 putative active site [active] 640510000033 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 640510000034 amidase catalytic site [active] 640510000035 Zn binding residues [ion binding]; other site 640510000036 substrate binding site [chemical binding]; other site 640510000037 PAAR motif; Region: PAAR_motif; cl15808 640510000038 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 640510000039 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 640510000040 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 640510000041 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 640510000042 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 640510000043 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 640510000044 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 640510000045 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640510000046 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510000047 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 640510000048 ethanolamine permease; Region: 2A0305; TIGR00908 640510000049 Spore germination protein; Region: Spore_permease; cl15802 640510000050 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 640510000051 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 640510000052 Ethanolamine ammonia-lyase light chain (EutC); Region: EutC; cl01762 640510000053 Protein of unknown function (DUF779); Region: DUF779; cl01432 640510000054 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 640510000055 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640510000056 NAD(P) binding site [chemical binding]; other site 640510000057 catalytic residues [active] 640510000058 transcriptional regulator EutR; Provisional; Region: PRK10130 640510000059 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510000060 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 640510000061 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 640510000062 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 640510000063 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 640510000064 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 640510000065 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 640510000066 DNA binding residues [nucleotide binding] 640510000067 dimer interface [polypeptide binding]; other site 640510000068 putative metal binding site [ion binding]; other site 640510000069 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 640510000070 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 640510000071 ATP binding site [chemical binding]; other site 640510000072 Mg++ binding site [ion binding]; other site 640510000073 motif III; other site 640510000074 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 640510000075 nucleotide binding region [chemical binding]; other site 640510000076 ATP-binding site [chemical binding]; other site 640510000077 DbpA RNA binding domain; Region: DbpA; pfam03880 640510000078 putative aminotransferase; Provisional; Region: PRK12414 640510000079 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 640510000080 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510000081 homodimer interface [polypeptide binding]; other site 640510000082 catalytic residue [active] 640510000083 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 640510000084 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 640510000085 substrate binding pocket [chemical binding]; other site 640510000086 membrane-bound complex binding site; other site 640510000087 hinge residues; other site 640510000088 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 640510000089 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 640510000090 active site residue [active] 640510000091 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 640510000092 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 640510000093 dimer interface [polypeptide binding]; other site 640510000094 decamer (pentamer of dimers) interface [polypeptide binding]; other site 640510000095 catalytic triad [active] 640510000096 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 640510000097 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 640510000098 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 640510000099 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 640510000100 N-terminal plug; other site 640510000101 ligand-binding site [chemical binding]; other site 640510000102 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 640510000103 CoenzymeA binding site [chemical binding]; other site 640510000104 subunit interaction site [polypeptide binding]; other site 640510000105 PHB binding site; other site 640510000106 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 640510000107 active site 640510000108 nucleophile elbow; other site 640510000109 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 640510000110 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510000111 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 640510000112 Phosphoenolpyruvate carboxykinase; Region: PEPCK; pfam00821 640510000113 active site 640510000114 substrate-binding site [chemical binding]; other site 640510000115 metal-binding site [ion binding] 640510000116 GTP binding site [chemical binding]; other site 640510000117 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510000118 Helix-turn-helix domains; Region: HTH; cl00088 640510000119 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 640510000120 putative effector binding pocket; other site 640510000121 dimerization interface [polypeptide binding]; other site 640510000122 DNA topoisomerase III; Validated; Region: PRK08173 640510000123 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 640510000124 active site 640510000125 putative interdomain interaction site [polypeptide binding]; other site 640510000126 putative metal-binding site [ion binding]; other site 640510000127 putative nucleotide binding site [chemical binding]; other site 640510000128 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 640510000129 domain I; other site 640510000130 DNA binding groove [nucleotide binding] 640510000131 phosphate binding site [ion binding]; other site 640510000132 domain II; other site 640510000133 domain III; other site 640510000134 nucleotide binding site [chemical binding]; other site 640510000135 catalytic site [active] 640510000136 domain IV; other site 640510000137 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 640510000138 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 640510000139 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 640510000140 catalytic residues [active] 640510000141 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 640510000142 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 640510000143 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 640510000144 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 640510000145 active site 640510000146 catalytic residues [active] 640510000147 metal binding site [ion binding]; metal-binding site 640510000148 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 640510000149 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 640510000150 putative active site [active] 640510000151 substrate binding site [chemical binding]; other site 640510000152 putative cosubstrate binding site; other site 640510000153 catalytic site [active] 640510000154 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 640510000155 substrate binding site [chemical binding]; other site 640510000156 LysE type translocator; Region: LysE; cl00565 640510000157 Peptidase family M48; Region: Peptidase_M48; cl12018 640510000158 16S rRNA methyltransferase B; Provisional; Region: PRK10901 640510000159 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 640510000160 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 640510000161 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 640510000162 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 640510000163 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 640510000164 dimerization interface [polypeptide binding]; other site 640510000165 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 640510000166 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 640510000167 dimer interface [polypeptide binding]; other site 640510000168 phosphorylation site [posttranslational modification] 640510000169 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510000170 ATP binding site [chemical binding]; other site 640510000171 Mg2+ binding site [ion binding]; other site 640510000172 G-X-G motif; other site 640510000173 Response regulator receiver domain; Region: Response_reg; pfam00072 640510000174 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510000175 active site 640510000176 phosphorylation site [posttranslational modification] 640510000177 intermolecular recognition site; other site 640510000178 dimerization interface [polypeptide binding]; other site 640510000179 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 640510000180 Helix-turn-helix domains; Region: HTH; cl00088 640510000181 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 640510000182 Ligand Binding Site [chemical binding]; other site 640510000183 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 640510000184 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 640510000185 FeS/SAM binding site; other site 640510000186 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 640510000187 active site 640510000188 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 640510000189 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 640510000190 Sel1 repeat; Region: Sel1; cl02723 640510000191 Sel1 repeat; Region: Sel1; cl02723 640510000192 Sel1 repeat; Region: Sel1; cl02723 640510000193 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 640510000194 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 640510000195 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 640510000196 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 640510000197 rod shape-determining protein MreD; Region: MreD; cl01087 640510000198 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 640510000199 rod shape-determining protein MreC; Region: MreC; pfam04085 640510000200 rod shape-determining protein MreB; Provisional; Region: PRK13927 640510000201 Cell division protein FtsA; Region: FtsA; cl11496 640510000202 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 640510000203 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 640510000204 Amidase; Region: Amidase; cl11426 640510000205 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 640510000206 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 640510000207 GatB domain; Region: GatB_Yqey; cl11497 640510000208 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 640510000209 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 640510000210 putative active site [active] 640510000211 putative catalytic site [active] 640510000212 putative DNA binding site [nucleotide binding]; other site 640510000213 putative phosphate binding site [ion binding]; other site 640510000214 metal binding site A [ion binding]; metal-binding site 640510000215 putative AP binding site [nucleotide binding]; other site 640510000216 putative metal binding site B [ion binding]; other site 640510000217 Peptidase family M48; Region: Peptidase_M48; cl12018 640510000218 muropeptide transporter; Validated; Region: ampG; PRK11010 640510000219 muropeptide transporter; Reviewed; Region: ampG; PRK11902 640510000220 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 640510000221 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 640510000222 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 640510000223 division inhibitor protein; Provisional; Region: slmA; PRK09480 640510000224 Helix-turn-helix domains; Region: HTH; cl00088 640510000225 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 640510000226 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 640510000227 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 640510000228 feedback inhibition sensing region; other site 640510000229 homohexameric interface [polypeptide binding]; other site 640510000230 nucleotide binding site [chemical binding]; other site 640510000231 N-acetyl-L-glutamate binding site [chemical binding]; other site 640510000232 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 640510000233 binding surface 640510000234 TPR motif; other site 640510000235 TPR repeat; Region: TPR_11; pfam13414 640510000236 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 640510000237 binding surface 640510000238 TPR motif; other site 640510000239 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 640510000240 binding surface 640510000241 TPR motif; other site 640510000242 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640510000243 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 640510000244 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510000245 ATP binding site [chemical binding]; other site 640510000246 Mg2+ binding site [ion binding]; other site 640510000247 G-X-G motif; other site 640510000248 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 640510000249 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510000250 active site 640510000251 phosphorylation site [posttranslational modification] 640510000252 intermolecular recognition site; other site 640510000253 dimerization interface [polypeptide binding]; other site 640510000254 Helix-turn-helix domains; Region: HTH; cl00088 640510000255 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 640510000256 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 640510000257 Walker A motif; other site 640510000258 ATP binding site [chemical binding]; other site 640510000259 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510000260 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 640510000261 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 640510000262 active site 640510000263 HslU subunit interaction site [polypeptide binding]; other site 640510000264 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 640510000265 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 640510000266 P-loop, Walker A motif; other site 640510000267 Base recognition motif; other site 640510000268 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 640510000269 PUA domain; Region: PUA; cl00607 640510000270 23S rRNA m(5)C1962 methyltransferase; Provisional; Region: PRK15128 640510000271 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 640510000272 putative RNA binding site [nucleotide binding]; other site 640510000273 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 640510000274 S-adenosylmethionine binding site [chemical binding]; other site 640510000275 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 640510000276 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 640510000277 active site 640510000278 DNA binding site [nucleotide binding] 640510000279 Int/Topo IB signature motif; other site 640510000280 GAF domain; Region: GAF; cl15785 640510000281 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 640510000282 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 640510000283 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 640510000284 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 640510000285 putative acyl-acceptor binding pocket; other site 640510000286 S-adenosylmethionine synthetase; Validated; Region: PRK05250 640510000287 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 640510000288 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 640510000289 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 640510000290 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 640510000291 Protein of unknown function (DUF3185); Region: DUF3185; pfam11381 640510000292 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 640510000293 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 640510000294 active site 640510000295 catalytic tetrad [active] 640510000296 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510000297 putative substrate translocation pore; other site 640510000298 Phosphotransferase enzyme family; Region: APH; pfam01636 640510000299 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 640510000300 active site 640510000301 ATP binding site [chemical binding]; other site 640510000302 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 640510000303 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 640510000304 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 640510000305 XdhC Rossmann domain; Region: XdhC_C; pfam13478 640510000306 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 640510000307 putative hydrophobic ligand binding site [chemical binding]; other site 640510000308 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 640510000309 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 640510000310 metal ion-dependent adhesion site (MIDAS); other site 640510000311 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 640510000312 Walker A motif; other site 640510000313 ATP binding site [chemical binding]; other site 640510000314 Walker B motif; other site 640510000315 arginine finger; other site 640510000316 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 640510000317 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 640510000318 carbon-monoxide dehydrogenase, large subunit; Region: CO_dehy_Mo_lg; TIGR02416 640510000319 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 640510000320 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640510000321 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 640510000322 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 640510000323 amino acid transporter; Region: 2A0306; TIGR00909 640510000324 Spore germination protein; Region: Spore_permease; cl15802 640510000325 Spore germination protein; Region: Spore_permease; cl15802 640510000326 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640510000327 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510000328 active site 640510000329 phosphorylation site [posttranslational modification] 640510000330 intermolecular recognition site; other site 640510000331 dimerization interface [polypeptide binding]; other site 640510000332 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 640510000333 DNA binding residues [nucleotide binding] 640510000334 dimerization interface [polypeptide binding]; other site 640510000335 Histidine kinase; Region: HisKA_3; pfam07730 640510000336 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510000337 ATP binding site [chemical binding]; other site 640510000338 Mg2+ binding site [ion binding]; other site 640510000339 G-X-G motif; other site 640510000340 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 640510000341 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 640510000342 FAD binding pocket [chemical binding]; other site 640510000343 FAD binding motif [chemical binding]; other site 640510000344 phosphate binding motif [ion binding]; other site 640510000345 beta-alpha-beta structure motif; other site 640510000346 NAD binding pocket [chemical binding]; other site 640510000347 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 640510000348 putative catalytic site [active] 640510000349 putative phosphate binding site [ion binding]; other site 640510000350 putative metal binding site [ion binding]; other site 640510000351 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 640510000352 Walker A motif; other site 640510000353 ATP binding site [chemical binding]; other site 640510000354 Walker B motif; other site 640510000355 arginine finger; other site 640510000356 Predicted dehydrogenase [General function prediction only]; Region: COG0579 640510000357 High potential iron-sulfur protein; Region: HIPIP; pfam01355 640510000358 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 640510000359 Amidase; Region: Amidase; cl11426 640510000360 Dienelactone hydrolase family; Region: DLH; pfam01738 640510000361 Nitronate monooxygenase; Region: NMO; pfam03060 640510000362 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 640510000363 FMN binding site [chemical binding]; other site 640510000364 substrate binding site [chemical binding]; other site 640510000365 putative catalytic residue [active] 640510000366 leucine ABC transporter subunit substrate-binding protein LivK; Provisional; Region: PRK15404 640510000367 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 640510000368 dimerization interface [polypeptide binding]; other site 640510000369 ligand binding site [chemical binding]; other site 640510000370 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 640510000371 H-NS histone family; Region: Histone_HNS; pfam00816 640510000372 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 640510000373 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 640510000374 Cation efflux family; Region: Cation_efflux; cl00316 640510000375 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 640510000376 Helix-turn-helix domains; Region: HTH; cl00088 640510000377 AsnC family; Region: AsnC_trans_reg; pfam01037 640510000378 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 640510000379 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 640510000380 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 640510000381 Predicted methyltransferases [General function prediction only]; Region: COG0313 640510000382 Restriction endonuclease; Region: Mrr_cat; cl00516 640510000383 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 640510000384 dimer interface [polypeptide binding]; other site 640510000385 active site 640510000386 outer membrane lipoprotein; Provisional; Region: PRK11023 640510000387 BON domain; Region: BON; cl02771 640510000388 BON domain; Region: BON; cl02771 640510000389 Cytochrome c; Region: Cytochrom_C; cl11414 640510000390 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640510000391 metal binding site [ion binding]; metal-binding site 640510000392 active site 640510000393 I-site; other site 640510000394 Uncharacterized protein conserved in bacteria (DUF2239); Region: DUF2239; cl01461 640510000395 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 640510000396 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 640510000397 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 640510000398 CutC family; Region: CutC; cl01218 640510000399 2-oxoacid ferredoxin oxidoreductase; Provisional; Region: PRK13030 640510000400 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 640510000401 dimer interface [polypeptide binding]; other site 640510000402 PYR/PP interface [polypeptide binding]; other site 640510000403 TPP binding site [chemical binding]; other site 640510000404 substrate binding site [chemical binding]; other site 640510000405 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 640510000406 TPP-binding site; other site 640510000407 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 640510000408 Ion channel; Region: Ion_trans_2; cl11596 640510000409 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 640510000410 putative substrate binding site [chemical binding]; other site 640510000411 putative ATP binding site [chemical binding]; other site 640510000412 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 640510000413 N-acyl-D-glucosamine 2-epimerase [Carbohydrate transport and metabolism]; Region: COG2942 640510000414 dimerization interface [polypeptide binding]; other site 640510000415 putative active cleft [active] 640510000416 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640510000417 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640510000418 DNA binding site [nucleotide binding] 640510000419 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 640510000420 ligand binding site [chemical binding]; other site 640510000421 dimerization interface [polypeptide binding]; other site 640510000422 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 640510000423 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 640510000424 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640510000425 metal binding site [ion binding]; metal-binding site 640510000426 active site 640510000427 I-site; other site 640510000428 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 640510000429 Membrane transport protein; Region: Mem_trans; cl09117 640510000430 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 640510000431 eyelet of channel; other site 640510000432 trimer interface [polypeptide binding]; other site 640510000433 Helix-turn-helix domains; Region: HTH; cl00088 640510000434 LysR family transcriptional regulator; Provisional; Region: PRK14997 640510000435 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 640510000436 putative effector binding pocket; other site 640510000437 dimerization interface [polypeptide binding]; other site 640510000438 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 640510000439 B12 binding site [chemical binding]; other site 640510000440 cobalt ligand [ion binding]; other site 640510000441 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 640510000442 Walker A; other site 640510000443 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 640510000444 Methylmalonyl-CoA mutase, N-terminal domain/subunit [Lipid metabolism]; Region: Sbm; COG1884 640510000445 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 640510000446 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 640510000447 FMN binding site [chemical binding]; other site 640510000448 substrate binding site [chemical binding]; other site 640510000449 putative catalytic residue [active] 640510000450 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640510000451 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 640510000452 Helix-turn-helix domains; Region: HTH; cl00088 640510000453 AsnC family; Region: AsnC_trans_reg; pfam01037 640510000454 EamA-like transporter family; Region: EamA; cl01037 640510000455 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 640510000456 (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 640510000457 active site 640510000458 catalytic site [active] 640510000459 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 640510000460 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 640510000461 putative deacylase active site [active] 640510000462 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 640510000463 active site 640510000464 catalytic residues [active] 640510000465 metal binding site [ion binding]; metal-binding site 640510000466 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 640510000467 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510000468 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 640510000469 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 640510000470 The 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 640510000471 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 640510000472 biotin synthase; Region: bioB; TIGR00433 640510000473 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 640510000474 FeS/SAM binding site; other site 640510000475 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 640510000476 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510000477 AAA domain; Region: AAA_26; pfam13500 640510000478 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 640510000479 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 640510000480 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640510000481 catalytic residue [active] 640510000482 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06943 640510000483 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 640510000484 inhibitor-cofactor binding pocket; inhibition site 640510000485 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510000486 catalytic residue [active] 640510000487 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 640510000488 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 640510000489 Protein of unknown function (DUF1305); Region: DUF1305; cl01404 640510000490 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 640510000491 Bacterial protein of unknown function (DUF879); Region: DUF879; cl15462 640510000492 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 640510000493 Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]; Region: ImpE; COG4455 640510000494 ImpE protein; Region: ImpE; pfam07024 640510000495 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 640510000496 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 640510000497 Walker A motif; other site 640510000498 ATP binding site [chemical binding]; other site 640510000499 Walker B motif; other site 640510000500 arginine finger; other site 640510000501 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 640510000502 Walker A motif; other site 640510000503 ATP binding site [chemical binding]; other site 640510000504 Walker B motif; other site 640510000505 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 640510000506 Protein of unknown function (DUF770); Region: DUF770; cl01402 640510000507 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 640510000508 Protein of unknown function (DUF877); Region: DUF877; pfam05943 640510000509 Protein of unknown function (DUF796); Region: DUF796; cl01226 640510000510 Type VI secretion lipoprotein; Region: T6SS-SciN; cl01405 640510000511 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522; cl01406 640510000512 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 640510000513 hypothetical protein; Provisional; Region: PRK08126 640510000514 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 640510000515 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640510000516 ligand binding site [chemical binding]; other site 640510000517 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 640510000518 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 640510000519 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 640510000520 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 640510000521 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 640510000522 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 640510000523 hypothetical protein; Provisional; Region: PRK01842 640510000524 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 640510000525 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640510000526 active site 640510000527 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 640510000528 NADP binding site [chemical binding]; other site 640510000529 homodimer interface [polypeptide binding]; other site 640510000530 active site 640510000531 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 640510000532 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 640510000533 dimer interface [polypeptide binding]; other site 640510000534 active site 640510000535 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 640510000536 active site clefts [active] 640510000537 zinc binding site [ion binding]; other site 640510000538 dimer interface [polypeptide binding]; other site 640510000539 Isocitrate dehydrogenase kinase/phosphatase (AceK); Region: AceK; cl01891 640510000540 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 640510000541 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 640510000542 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 640510000543 DNA binding residues [nucleotide binding] 640510000544 putative dimer interface [polypeptide binding]; other site 640510000545 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 640510000546 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 640510000547 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 640510000548 peptide binding site [polypeptide binding]; other site 640510000549 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 640510000550 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 640510000551 intersubunit interface [polypeptide binding]; other site 640510000552 short chain dehydrogenase; Provisional; Region: PRK08251 640510000553 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510000554 NAD(P) binding site [chemical binding]; other site 640510000555 active site 640510000556 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 640510000557 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 640510000558 catalytic residues [active] 640510000559 hinge region; other site 640510000560 alpha helical domain; other site 640510000561 Sporulation related domain; Region: SPOR; cl10051 640510000562 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 640510000563 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 640510000564 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 640510000565 active site 640510000566 HIGH motif; other site 640510000567 KMSK motif region; other site 640510000568 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 640510000569 tRNA binding surface [nucleotide binding]; other site 640510000570 anticodon binding site; other site 640510000571 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 640510000572 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 640510000573 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 640510000574 substrate binding pocket [chemical binding]; other site 640510000575 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 640510000576 B12 binding site [chemical binding]; other site 640510000577 cobalt ligand [ion binding]; other site 640510000578 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 640510000579 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 640510000580 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 640510000581 Protein of unknown function (DUF3567); Region: DUF3567; pfam12091 640510000582 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 640510000583 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 640510000584 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 640510000585 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640510000586 Helix-turn-helix domains; Region: HTH; cl00088 640510000587 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 640510000588 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 640510000589 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 640510000590 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 640510000591 putative ligand binding site [chemical binding]; other site 640510000592 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 640510000593 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 640510000594 substrate binding site [chemical binding]; other site 640510000595 oxyanion hole (OAH) forming residues; other site 640510000596 trimer interface [polypeptide binding]; other site 640510000597 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 640510000598 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 640510000599 dinuclear metal binding motif [ion binding]; other site 640510000600 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 640510000601 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 640510000602 active site 640510000603 HIGH motif; other site 640510000604 nucleotide binding site [chemical binding]; other site 640510000605 Type III pantothenate kinase; Region: Pan_kinase; cl09130 640510000606 biotin--protein ligase; Provisional; Region: PRK06955 640510000607 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 640510000608 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 640510000609 Permease; Region: Permease; cl00510 640510000610 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 640510000611 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 640510000612 Walker A/P-loop; other site 640510000613 ATP binding site [chemical binding]; other site 640510000614 Q-loop/lid; other site 640510000615 ABC transporter signature motif; other site 640510000616 Walker B; other site 640510000617 D-loop; other site 640510000618 H-loop/switch region; other site 640510000619 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 640510000620 mce related protein; Region: MCE; pfam02470 640510000621 Protein of unknown function (DUF330); Region: DUF330; cl01135 640510000622 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 640510000623 dimer interface [polypeptide binding]; other site 640510000624 [2Fe-2S] cluster binding site [ion binding]; other site 640510000625 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 640510000626 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 640510000627 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 640510000628 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 640510000629 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 640510000630 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 640510000631 homodimer interface [polypeptide binding]; other site 640510000632 substrate-cofactor binding pocket; other site 640510000633 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510000634 catalytic residue [active] 640510000635 Protein of unknown function (DUF493); Region: DUF493; cl01102 640510000636 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640510000637 Helix-turn-helix domains; Region: HTH; cl00088 640510000638 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 640510000639 dimerization interface [polypeptide binding]; other site 640510000640 substrate binding pocket [chemical binding]; other site 640510000641 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 640510000642 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 640510000643 lipoyl synthase; Provisional; Region: PRK05481 640510000644 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 640510000645 FeS/SAM binding site; other site 640510000646 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 640510000647 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 640510000648 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 640510000649 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 640510000650 PhoU domain; Region: PhoU; pfam01895 640510000651 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 640510000652 Helix-turn-helix domains; Region: HTH; cl00088 640510000653 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 640510000654 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 640510000655 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 640510000656 putative active site [active] 640510000657 catalytic site [active] 640510000658 putative metal binding site [ion binding]; other site 640510000659 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 640510000660 The 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 640510000661 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 640510000662 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 640510000663 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 640510000664 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 640510000665 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510000666 dimer interface [polypeptide binding]; other site 640510000667 ABC-ATPase subunit interface; other site 640510000668 putative PBP binding loops; other site 640510000669 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein; Region: PhnT2; TIGR03265 640510000670 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510000671 Walker A/P-loop; other site 640510000672 ATP binding site [chemical binding]; other site 640510000673 Q-loop/lid; other site 640510000674 ABC transporter signature motif; other site 640510000675 Walker B; other site 640510000676 D-loop; other site 640510000677 H-loop/switch region; other site 640510000678 TOBE domain; Region: TOBE_2; cl01440 640510000679 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 640510000680 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 640510000681 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 640510000682 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 640510000683 dimer interface [polypeptide binding]; other site 640510000684 phosphorylation site [posttranslational modification] 640510000685 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510000686 ATP binding site [chemical binding]; other site 640510000687 Mg2+ binding site [ion binding]; other site 640510000688 G-X-G motif; other site 640510000689 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 640510000690 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510000691 active site 640510000692 phosphorylation site [posttranslational modification] 640510000693 intermolecular recognition site; other site 640510000694 dimerization interface [polypeptide binding]; other site 640510000695 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 640510000696 Walker A motif; other site 640510000697 ATP binding site [chemical binding]; other site 640510000698 Walker B motif; other site 640510000699 arginine finger; other site 640510000700 Helix-turn-helix domains; Region: HTH; cl00088 640510000701 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 640510000702 catalytic residues [active] 640510000703 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 640510000704 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 640510000705 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510000706 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 640510000707 Membrane fusogenic activity; Region: BMFP; cl01115 640510000708 Nitrogen regulatory protein P-II; Region: P-II; cl00412 640510000709 Nitrogen regulatory protein P-II; Region: P-II; smart00938 640510000710 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 640510000711 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 640510000712 Glutamate-cysteine ligase; Region: GshA; pfam08886 640510000713 glutathione synthetase; Provisional; Region: PRK05246 640510000714 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 640510000715 ATP-grasp domain; Region: ATP-grasp_4; cl03087 640510000716 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 640510000717 active pocket/dimerization site; other site 640510000718 active site 640510000719 phosphorylation site [posttranslational modification] 640510000720 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 640510000721 dimerization domain swap beta strand [polypeptide binding]; other site 640510000722 regulatory protein interface [polypeptide binding]; other site 640510000723 active site 640510000724 regulatory phosphorylation site [posttranslational modification]; other site 640510000725 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 640510000726 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 640510000727 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 640510000728 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 640510000729 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 640510000730 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 640510000731 ATP binding site [chemical binding]; other site 640510000732 substrate interface [chemical binding]; other site 640510000733 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 640510000734 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 640510000735 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 640510000736 protein binding site [polypeptide binding]; other site 640510000737 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 640510000738 Catalytic dyad [active] 640510000739 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 640510000740 catalytic core [active] 640510000741 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 640510000742 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 640510000743 active site residue [active] 640510000744 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 640510000745 GSH binding site [chemical binding]; other site 640510000746 catalytic residues [active] 640510000747 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 640510000748 SecA binding site; other site 640510000749 Preprotein binding site; other site 640510000750 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 640510000751 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510000752 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 640510000753 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 640510000754 putative ADP-ribose binding site [chemical binding]; other site 640510000755 putative active site [active] 640510000756 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 640510000757 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 640510000758 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 640510000759 active site 640510000760 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 640510000761 Integral membrane protein (DUF2244); Region: DUF2244; cl02302 640510000762 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 640510000763 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 640510000764 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 640510000765 Cytochrome c; Region: Cytochrom_C; cl11414 640510000766 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640510000767 ligand binding site [chemical binding]; other site 640510000768 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 640510000769 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 640510000770 Subunit I/III interface [polypeptide binding]; other site 640510000771 D-pathway; other site 640510000772 Subunit I/VIIc interface [polypeptide binding]; other site 640510000773 Subunit I/IV interface [polypeptide binding]; other site 640510000774 Subunit I/II interface [polypeptide binding]; other site 640510000775 Low-spin heme (heme a) binding site [chemical binding]; other site 640510000776 Subunit I/VIIa interface [polypeptide binding]; other site 640510000777 Subunit I/VIa interface [polypeptide binding]; other site 640510000778 Dimer interface; other site 640510000779 Putative water exit pathway; other site 640510000780 Binuclear center (heme a3/CuB) [ion binding]; other site 640510000781 K-pathway; other site 640510000782 Subunit I/Vb interface [polypeptide binding]; other site 640510000783 Putative proton exit pathway; other site 640510000784 Subunit I/VIb interface; other site 640510000785 Subunit I/VIc interface [polypeptide binding]; other site 640510000786 Electron transfer pathway; other site 640510000787 Subunit I/VIIIb interface [polypeptide binding]; other site 640510000788 Subunit I/VIIb interface [polypeptide binding]; other site 640510000789 Cytochrome c oxidase assembly protein CtaG/Cox11; Region: CtaG_Cox11; cl01240 640510000790 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 640510000791 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 640510000792 Subunit III/VIIa interface [polypeptide binding]; other site 640510000793 Phospholipid binding site [chemical binding]; other site 640510000794 Subunit I/III interface [polypeptide binding]; other site 640510000795 Subunit III/VIb interface [polypeptide binding]; other site 640510000796 Subunit III/VIa interface; other site 640510000797 Subunit III/Vb interface [polypeptide binding]; other site 640510000798 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 640510000799 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 640510000800 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 640510000801 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 640510000802 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 640510000803 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 640510000804 UbiA prenyltransferase family; Region: UbiA; cl00337 640510000805 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 640510000806 Cu(I) binding site [ion binding]; other site 640510000807 YCII-related domain; Region: YCII; cl00999 640510000808 NMT1-like family; Region: NMT1_2; cl15260 640510000809 Helix-turn-helix domains; Region: HTH; cl00088 640510000810 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 640510000811 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 640510000812 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510000813 DNA-binding site [nucleotide binding]; DNA binding site 640510000814 UTRA domain; Region: UTRA; cl01230 640510000815 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 640510000816 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 640510000817 active site 640510000818 dimer interface [polypeptide binding]; other site 640510000819 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 640510000820 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 640510000821 dimer interface [polypeptide binding]; other site 640510000822 active site 640510000823 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 640510000824 dimer interface [polypeptide binding]; other site 640510000825 active site 640510000826 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 640510000827 HPr interaction site; other site 640510000828 glycerol kinase (GK) interaction site [polypeptide binding]; other site 640510000829 active site 640510000830 phosphorylation site [posttranslational modification] 640510000831 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; cl00206 640510000832 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 640510000833 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 640510000834 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 640510000835 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 640510000836 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 640510000837 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 640510000838 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 640510000839 active site turn [active] 640510000840 phosphorylation site [posttranslational modification] 640510000841 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 640510000842 active site turn [active] 640510000843 phosphorylation site [posttranslational modification] 640510000844 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 640510000845 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 640510000846 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640510000847 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 640510000848 DNA binding residues [nucleotide binding] 640510000849 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 640510000850 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 640510000851 glycosyl transferase family protein; Provisional; Region: PRK08136 640510000852 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 640510000853 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 640510000854 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 640510000855 maleylacetoacetate isomerase; Region: maiA; TIGR01262 640510000856 C-terminal domain interface [polypeptide binding]; other site 640510000857 GSH binding site (G-site) [chemical binding]; other site 640510000858 putative dimer interface [polypeptide binding]; other site 640510000859 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 640510000860 dimer interface [polypeptide binding]; other site 640510000861 N-terminal domain interface [polypeptide binding]; other site 640510000862 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 640510000863 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 640510000864 signal recognition particle-docking protein FtsY; Region: ftsY; TIGR00064 640510000865 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 640510000866 P loop; other site 640510000867 GTP binding site [chemical binding]; other site 640510000868 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 640510000869 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 640510000870 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 640510000871 active site 640510000872 (T/H)XGH motif; other site 640510000873 ferredoxin; Validated; Region: PRK07118 640510000874 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 640510000875 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 640510000876 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510000877 homodimer interface [polypeptide binding]; other site 640510000878 catalytic residue [active] 640510000879 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 640510000880 putative active site [active] 640510000881 catalytic residue [active] 640510000882 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 640510000883 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 640510000884 5S rRNA interface [nucleotide binding]; other site 640510000885 CTC domain interface [polypeptide binding]; other site 640510000886 L16 interface [polypeptide binding]; other site 640510000887 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 640510000888 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 640510000889 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 640510000890 active site 640510000891 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 640510000892 outer membrane lipoprotein LolB; Region: lolB; TIGR00548 640510000893 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 640510000894 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 640510000895 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 640510000896 TPR motif; other site 640510000897 binding surface 640510000898 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 640510000899 binding surface 640510000900 TPR motif; other site 640510000901 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 640510000902 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 640510000903 DNA binding site [nucleotide binding] 640510000904 catalytic residue [active] 640510000905 H2TH interface [polypeptide binding]; other site 640510000906 putative catalytic residues [active] 640510000907 turnover-facilitating residue; other site 640510000908 intercalation triad [nucleotide binding]; other site 640510000909 8OG recognition residue [nucleotide binding]; other site 640510000910 putative reading head residues; other site 640510000911 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 640510000912 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 640510000913 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 640510000914 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 640510000915 minor groove reading motif; other site 640510000916 helix-hairpin-helix signature motif; other site 640510000917 substrate binding pocket [chemical binding]; other site 640510000918 active site 640510000919 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 640510000920 DNA binding and oxoG recognition site [nucleotide binding] 640510000921 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 640510000922 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 640510000923 HPr kinase/phosphorylase; Provisional; Region: PRK05428 640510000924 DRTGG domain; Region: DRTGG; cl12147 640510000925 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 640510000926 Hpr binding site; other site 640510000927 active site 640510000928 homohexamer subunit interaction site [polypeptide binding]; other site 640510000929 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 640510000930 active site 640510000931 phosphorylation site [posttranslational modification] 640510000932 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 640510000933 30S subunit binding site; other site 640510000934 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 640510000935 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 640510000936 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 640510000937 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 640510000938 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 640510000939 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 640510000940 Walker A/P-loop; other site 640510000941 ATP binding site [chemical binding]; other site 640510000942 Q-loop/lid; other site 640510000943 ABC transporter signature motif; other site 640510000944 Walker B; other site 640510000945 D-loop; other site 640510000946 H-loop/switch region; other site 640510000947 OstA-like protein; Region: OstA; cl00844 640510000948 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 640510000949 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 640510000950 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 640510000951 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 640510000952 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 640510000953 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 640510000954 putative active site [active] 640510000955 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 640510000956 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 640510000957 putative cation:proton antiport protein; Provisional; Region: PRK10669 640510000958 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 640510000959 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510000960 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 640510000961 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 640510000962 active site 640510000963 LysE type translocator; Region: LysE; cl00565 640510000964 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 640510000965 nudix motif; other site 640510000966 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 640510000967 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 640510000968 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 640510000969 putative active site [active] 640510000970 putative substrate binding site [chemical binding]; other site 640510000971 putative cosubstrate binding site; other site 640510000972 catalytic site [active] 640510000973 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 640510000974 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 640510000975 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 640510000976 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 640510000977 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 640510000978 N-terminal plug; other site 640510000979 ligand-binding site [chemical binding]; other site 640510000980 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 640510000981 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 640510000982 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 640510000983 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 640510000984 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 640510000985 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510000986 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640510000987 putative substrate translocation pore; other site 640510000988 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 640510000989 dimer interface [polypeptide binding]; other site 640510000990 ssDNA binding site [nucleotide binding]; other site 640510000991 tetramer (dimer of dimers) interface [polypeptide binding]; other site 640510000992 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 640510000993 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 640510000994 dimerization interface [polypeptide binding]; other site 640510000995 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 640510000996 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640510000997 dimer interface [polypeptide binding]; other site 640510000998 putative CheW interface [polypeptide binding]; other site 640510000999 Cytochrome c; Region: Cytochrom_C; cl11414 640510001000 Cytochrome c; Region: Cytochrom_C; cl11414 640510001001 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 640510001002 Putative D-pathway homolog; other site 640510001003 Low-spin heme binding site [chemical binding]; other site 640510001004 Subunit I/II interface [polypeptide binding]; other site 640510001005 Putative Q-pathway; other site 640510001006 Putative alternate electron transfer pathway; other site 640510001007 Putative water exit pathway; other site 640510001008 Binuclear center (active site) [active] 640510001009 Putative K-pathway homolog; other site 640510001010 Putative proton exit pathway; other site 640510001011 Subunit I/IIa interface [polypeptide binding]; other site 640510001012 Electron transfer pathway; other site 640510001013 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 640510001014 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640510001015 Cytochrome c; Region: Cytochrom_C; cl11414 640510001016 Cytochrome c; Region: Cytochrom_C; cl11414 640510001017 Cytochrome c; Region: Cytochrom_C; cl11414 640510001018 Helix-turn-helix domains; Region: HTH; cl00088 640510001019 The 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 640510001020 dimerization interface [polypeptide binding]; other site 640510001021 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510001022 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640510001023 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510001024 active site 640510001025 phosphorylation site [posttranslational modification] 640510001026 intermolecular recognition site; other site 640510001027 dimerization interface [polypeptide binding]; other site 640510001028 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 640510001029 DNA binding residues [nucleotide binding] 640510001030 dimerization interface [polypeptide binding]; other site 640510001031 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640510001032 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510001033 active site 640510001034 phosphorylation site [posttranslational modification] 640510001035 intermolecular recognition site; other site 640510001036 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 640510001037 DNA binding residues [nucleotide binding] 640510001038 dimerization interface [polypeptide binding]; other site 640510001039 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 640510001040 amphipathic channel; other site 640510001041 Asn-Pro-Ala signature motifs; other site 640510001042 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 640510001043 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 640510001044 substrate binding pocket [chemical binding]; other site 640510001045 membrane-bound complex binding site; other site 640510001046 hinge residues; other site 640510001047 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 640510001048 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 640510001049 substrate binding pocket [chemical binding]; other site 640510001050 membrane-bound complex binding site; other site 640510001051 hinge residues; other site 640510001052 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 640510001053 PAS domain; Region: PAS_9; pfam13426 640510001054 putative active site [active] 640510001055 heme pocket [chemical binding]; other site 640510001056 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 640510001057 dimer interface [polypeptide binding]; other site 640510001058 phosphorylation site [posttranslational modification] 640510001059 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510001060 ATP binding site [chemical binding]; other site 640510001061 Mg2+ binding site [ion binding]; other site 640510001062 G-X-G motif; other site 640510001063 Response regulator receiver domain; Region: Response_reg; pfam00072 640510001064 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510001065 active site 640510001066 phosphorylation site [posttranslational modification] 640510001067 intermolecular recognition site; other site 640510001068 dimerization interface [polypeptide binding]; other site 640510001069 CHRD domain; Region: CHRD; cl06473 640510001070 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 640510001071 EcsC protein family; Region: EcsC; pfam12787 640510001072 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510001073 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640510001074 putative substrate translocation pore; other site 640510001075 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510001076 Helix-turn-helix domains; Region: HTH; cl00088 640510001077 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 640510001078 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Bacterial Cryptic D-Serine Dehydratase; Region: PLPDE_III_cryptic_DSD; cd06818 640510001079 dimer interface [polypeptide binding]; other site 640510001080 active site 640510001081 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 640510001082 substrate binding site [chemical binding]; other site 640510001083 catalytic residue [active] 640510001084 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 640510001085 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 640510001086 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 640510001087 putative active site [active] 640510001088 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 640510001089 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 640510001090 active site 640510001091 putative substrate binding pocket [chemical binding]; other site 640510001092 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 640510001093 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 640510001094 homotrimer interaction site [polypeptide binding]; other site 640510001095 putative active site [active] 640510001096 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 640510001097 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 640510001098 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 640510001099 5'-nucleotidase; Region: 5-nucleotidase; pfam06189 640510001100 threonine dehydratase; Reviewed; Region: PRK09224 640510001101 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 640510001102 tetramer interface [polypeptide binding]; other site 640510001103 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510001104 catalytic residue [active] 640510001105 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 640510001106 putative Ile/Val binding site [chemical binding]; other site 640510001107 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 640510001108 putative Ile/Val binding site [chemical binding]; other site 640510001109 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 640510001110 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 640510001111 putative NAD(P) binding site [chemical binding]; other site 640510001112 active site 640510001113 DoxX-like family; Region: DoxX_3; pfam13781 640510001114 Predicted integral membrane protein (DUF2269); Region: DUF2269; cl02335 640510001115 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 640510001116 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 640510001117 FAD binding domain; Region: FAD_binding_4; pfam01565 640510001118 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 640510001119 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 640510001120 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 640510001121 Cysteine-rich domain; Region: CCG; pfam02754 640510001122 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 640510001123 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 640510001124 nucleotide binding site/active site [active] 640510001125 HIT family signature motif; other site 640510001126 catalytic residue [active] 640510001127 Protein of unknown function (DUF971); Region: DUF971; cl01414 640510001128 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 640510001129 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 640510001130 S-adenosylmethionine binding site [chemical binding]; other site 640510001131 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 640510001132 Tim44-like domain; Region: Tim44; cl09208 640510001133 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 640510001134 SCP-2 sterol transfer family; Region: SCP2; cl01225 640510001135 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 640510001136 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 640510001137 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 640510001138 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 640510001139 Protein of unknown function (DUF502); Region: DUF502; cl01107 640510001140 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 640510001141 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 640510001142 dimer interface [polypeptide binding]; other site 640510001143 anticodon binding site; other site 640510001144 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 640510001145 homodimer interface [polypeptide binding]; other site 640510001146 motif 1; other site 640510001147 active site 640510001148 motif 2; other site 640510001149 GAD domain; Region: GAD; pfam02938 640510001150 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 640510001151 motif 3; other site 640510001152 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 640510001153 nudix motif; other site 640510001154 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 640510001155 putative active site [active] 640510001156 catalytic site [active] 640510001157 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 640510001158 PLD-like domain; Region: PLDc_2; pfam13091 640510001159 putative active site [active] 640510001160 catalytic site [active] 640510001161 Helix-turn-helix domains; Region: HTH; cl00088 640510001162 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640510001163 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 640510001164 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 640510001165 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 640510001166 FAD binding site [chemical binding]; other site 640510001167 substrate binding site [chemical binding]; other site 640510001168 catalytic residues [active] 640510001169 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 640510001170 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 640510001171 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510001172 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 640510001173 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 640510001174 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 640510001175 substrate binding site [chemical binding]; other site 640510001176 oxyanion hole (OAH) forming residues; other site 640510001177 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 640510001178 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 640510001179 dimer interface [polypeptide binding]; other site 640510001180 active site 640510001181 enoyl-CoA hydratase; Provisional; Region: PRK06688 640510001182 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 640510001183 substrate binding site [chemical binding]; other site 640510001184 oxyanion hole (OAH) forming residues; other site 640510001185 trimer interface [polypeptide binding]; other site 640510001186 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 640510001187 Conserved nitrate reductase-associated protein (Nitr_red_assoc); Region: Nitr_red_assoc; cl09869 640510001188 PAS domain S-box; Region: sensory_box; TIGR00229 640510001189 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 640510001190 PAS fold; Region: PAS_4; pfam08448 640510001191 PAS domain; Region: PAS_9; pfam13426 640510001192 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 640510001193 putative active site [active] 640510001194 heme pocket [chemical binding]; other site 640510001195 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640510001196 metal binding site [ion binding]; metal-binding site 640510001197 active site 640510001198 I-site; other site 640510001199 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 640510001200 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 640510001201 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 640510001202 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 640510001203 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 640510001204 Walker A/P-loop; other site 640510001205 ATP binding site [chemical binding]; other site 640510001206 Q-loop/lid; other site 640510001207 ABC transporter signature motif; other site 640510001208 Walker B; other site 640510001209 D-loop; other site 640510001210 H-loop/switch region; other site 640510001211 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 640510001212 Substrate binding site; other site 640510001213 metal-binding site 640510001214 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 640510001215 Phosphotransferase enzyme family; Region: APH; pfam01636 640510001216 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 640510001217 Organic solvent tolerance protein; Region: OstA_C; pfam04453 640510001218 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 640510001219 SurA N-terminal domain; Region: SurA_N_3; cl07813 640510001220 PPIC-type PPIASE domain; Region: Rotamase; cl08278 640510001221 PPIC-type PPIASE domain; Region: Rotamase; cl08278 640510001222 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 640510001223 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 640510001224 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 640510001225 EamA-like transporter family; Region: EamA; cl01037 640510001226 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 640510001227 trimer interface [polypeptide binding]; other site 640510001228 eyelet of channel; other site 640510001229 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640510001230 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 640510001231 dimer interface [polypeptide binding]; other site 640510001232 active site 640510001233 metal binding site [ion binding]; metal-binding site 640510001234 glutathione binding site [chemical binding]; other site 640510001235 Protein of unknown function DUF45; Region: DUF45; cl00636 640510001236 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 640510001237 putative acyl-acceptor binding pocket; other site 640510001238 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 640510001239 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 640510001240 active site 640510001241 motif I; other site 640510001242 motif II; other site 640510001243 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 640510001244 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 640510001245 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 640510001246 dimer interface [polypeptide binding]; other site 640510001247 motif 1; other site 640510001248 active site 640510001249 motif 2; other site 640510001250 motif 3; other site 640510001251 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 640510001252 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 640510001253 active site 640510001254 FMN binding site [chemical binding]; other site 640510001255 substrate binding site [chemical binding]; other site 640510001256 3Fe-4S cluster binding site [ion binding]; other site 640510001257 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 640510001258 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 640510001259 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 640510001260 nudix motif; other site 640510001261 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 640510001262 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 640510001263 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 640510001264 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 640510001265 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 640510001266 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 640510001267 Helix-turn-helix domains; Region: HTH; cl00088 640510001268 WYL domain; Region: WYL; cl14852 640510001269 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 640510001270 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640510001271 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 640510001272 THUMP domain; Region: THUMP; cl12076 640510001273 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 640510001274 Protein of unknown function (DUF330); Region: DUF330; cl01135 640510001275 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 640510001276 mce related protein; Region: MCE; pfam02470 640510001277 mce related protein; Region: MCE; pfam02470 640510001278 mce related protein; Region: MCE; pfam02470 640510001279 Paraquat-inducible protein A; Region: PqiA; pfam04403 640510001280 Paraquat-inducible protein A; Region: PqiA; pfam04403 640510001281 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 640510001282 YceI-like domain; Region: YceI; cl01001 640510001283 YceI-like domain; Region: YceI; cl01001 640510001284 citrate-proton symporter; Provisional; Region: PRK15075 640510001285 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510001286 putative substrate translocation pore; other site 640510001287 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 640510001288 Protein export membrane protein; Region: SecD_SecF; cl14618 640510001289 SecD export protein N-terminal TM region; Region: SecD-TM1; cl08136 640510001290 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 640510001291 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 640510001292 Protein export membrane protein; Region: SecD_SecF; cl14618 640510001293 Preprotein translocase subunit; Region: YajC; cl00806 640510001294 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 640510001295 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 640510001296 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 640510001297 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 640510001298 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 640510001299 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 640510001300 generic binding surface II; other site 640510001301 ssDNA binding site; other site 640510001302 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 640510001303 ATP binding site [chemical binding]; other site 640510001304 putative Mg++ binding site [ion binding]; other site 640510001305 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 640510001306 nucleotide binding region [chemical binding]; other site 640510001307 ATP-binding site [chemical binding]; other site 640510001308 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510001309 Helix-turn-helix domains; Region: HTH; cl00088 640510001310 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 640510001311 dimerization interface [polypeptide binding]; other site 640510001312 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 640510001313 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 640510001314 tetramer interface [polypeptide binding]; other site 640510001315 heme binding pocket [chemical binding]; other site 640510001316 NADPH binding site [chemical binding]; other site 640510001317 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 640510001318 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 640510001319 dimerization interface [polypeptide binding]; other site 640510001320 DPS ferroxidase diiron center [ion binding]; other site 640510001321 ion pore; other site 640510001322 UbiA prenyltransferase family; Region: UbiA; cl00337 640510001323 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 640510001324 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510001325 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 640510001326 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 640510001327 catalytic residue [active] 640510001328 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 640510001329 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 640510001330 Cysteine-rich domain; Region: CCG; pfam02754 640510001331 Cysteine-rich domain; Region: CCG; pfam02754 640510001332 FAD binding domain; Region: FAD_binding_4; pfam01565 640510001333 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 640510001334 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 640510001335 FAD binding domain; Region: FAD_binding_4; pfam01565 640510001336 D-lactate dehydrogenase [cytochrome]; Region: PLN02805 640510001337 FAD binding domain; Region: FAD_binding_4; pfam01565 640510001338 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 640510001339 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 640510001340 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 640510001341 heme-binding site [chemical binding]; other site 640510001342 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 640510001343 FAD binding pocket [chemical binding]; other site 640510001344 FAD binding motif [chemical binding]; other site 640510001345 phosphate binding motif [ion binding]; other site 640510001346 beta-alpha-beta structure motif; other site 640510001347 NAD binding pocket [chemical binding]; other site 640510001348 Heme binding pocket [chemical binding]; other site 640510001349 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 640510001350 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 640510001351 NeuB family; Region: NeuB; cl00496 640510001352 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 640510001353 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 640510001354 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 640510001355 Predicted amidohydrolase [General function prediction only]; Region: COG0388 640510001356 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 640510001357 putative active site [active] 640510001358 catalytic triad [active] 640510001359 dimer interface [polypeptide binding]; other site 640510001360 TIGR02099 family protein; Region: TIGR02099 640510001361 AsmA-like C-terminal region; Region: AsmA_2; cl15864 640510001362 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 640510001363 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 640510001364 metal binding triad; other site 640510001365 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 640510001366 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 640510001367 metal binding triad; other site 640510001368 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 640510001369 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 640510001370 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 640510001371 Walker A/P-loop; other site 640510001372 ATP binding site [chemical binding]; other site 640510001373 Q-loop/lid; other site 640510001374 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 640510001375 ABC transporter signature motif; other site 640510001376 Walker B; other site 640510001377 D-loop; other site 640510001378 H-loop/switch region; other site 640510001379 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 640510001380 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 640510001381 Helix-turn-helix domains; Region: HTH; cl00088 640510001382 ferrochelatase; Reviewed; Region: hemH; PRK00035 640510001383 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 640510001384 C-terminal domain interface [polypeptide binding]; other site 640510001385 active site 640510001386 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 640510001387 active site 640510001388 N-terminal domain interface [polypeptide binding]; other site 640510001389 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 640510001390 RNA binding surface [nucleotide binding]; other site 640510001391 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 640510001392 dimer interface [polypeptide binding]; other site 640510001393 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 640510001394 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 640510001395 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 640510001396 chaperone protein DnaJ; Provisional; Region: PRK10767 640510001397 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 640510001398 HSP70 interaction site [polypeptide binding]; other site 640510001399 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 640510001400 Zn binding sites [ion binding]; other site 640510001401 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 640510001402 dimer interface [polypeptide binding]; other site 640510001403 chorismate binding enzyme; Region: Chorismate_bind; cl10555 640510001404 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 640510001405 substrate-cofactor binding pocket; other site 640510001406 homodimer interface [polypeptide binding]; other site 640510001407 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510001408 catalytic residue [active] 640510001409 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 640510001410 oligomerization interface [polypeptide binding]; other site 640510001411 active site 640510001412 metal binding site [ion binding]; metal-binding site 640510001413 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 640510001414 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 640510001415 Substrate-binding site [chemical binding]; other site 640510001416 Substrate specificity [chemical binding]; other site 640510001417 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 640510001418 catalytic center binding site [active] 640510001419 ATP binding site [chemical binding]; other site 640510001420 poly(A) polymerase; Region: pcnB; TIGR01942 640510001421 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 640510001422 active site 640510001423 NTP binding site [chemical binding]; other site 640510001424 metal binding triad [ion binding]; metal-binding site 640510001425 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 640510001426 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 640510001427 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 640510001428 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 640510001429 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510001430 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 640510001431 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 640510001432 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 640510001433 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 640510001434 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 640510001435 dimerization interface [polypeptide binding]; other site 640510001436 putative ATP binding site [chemical binding]; other site 640510001437 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510001438 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 640510001439 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510001440 ATP binding site [chemical binding]; other site 640510001441 Mg2+ binding site [ion binding]; other site 640510001442 G-X-G motif; other site 640510001443 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 640510001444 ATP binding site [chemical binding]; other site 640510001445 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 640510001446 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 640510001447 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 640510001448 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 640510001449 Tetratricopeptide repeat; Region: TPR_6; pfam13174 640510001450 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 640510001451 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640510001452 ligand binding site [chemical binding]; other site 640510001453 translocation protein TolB; Provisional; Region: tolB; PRK02889 640510001454 TolB amino-terminal domain; Region: TolB_N; cl00639 640510001455 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 640510001456 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 640510001457 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 640510001458 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 640510001459 TolA protein; Region: tolA_full; TIGR02794 640510001460 Gram-negative bacterial tonB protein; Region: TonB; cl10048 640510001461 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 640510001462 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 640510001463 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 640510001464 active site 640510001465 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 640510001466 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 640510001467 putative NAD(P) binding site [chemical binding]; other site 640510001468 homodimer interface [polypeptide binding]; other site 640510001469 homotetramer interface [polypeptide binding]; other site 640510001470 active site 640510001471 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 640510001472 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 640510001473 dimer interface [polypeptide binding]; other site 640510001474 active site 640510001475 glycine-pyridoxal phosphate binding site [chemical binding]; other site 640510001476 folate binding site [chemical binding]; other site 640510001477 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 640510001478 ATP cone domain; Region: ATP-cone; pfam03477 640510001479 Type II transport protein GspH; Region: GspH; pfam12019 640510001480 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 640510001481 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 640510001482 Protein of unknown function (DUF3318); Region: DUF3318; pfam11780 640510001483 Protein of unknown function (DUF1469); Region: DUF1469; cl12095 640510001484 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 640510001485 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 640510001486 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 640510001487 dimer interface [polypeptide binding]; other site 640510001488 decamer (pentamer of dimers) interface [polypeptide binding]; other site 640510001489 catalytic triad [active] 640510001490 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 640510001491 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 640510001492 FAD binding site [chemical binding]; other site 640510001493 substrate binding pocket [chemical binding]; other site 640510001494 catalytic base [active] 640510001495 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640510001496 Helix-turn-helix domains; Region: HTH; cl00088 640510001497 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 640510001498 Cupin domain; Region: Cupin_2; cl09118 640510001499 fumarylacetoacetase; Region: PLN02856 640510001500 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 640510001501 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 640510001502 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 640510001503 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510001504 putative substrate translocation pore; other site 640510001505 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 640510001506 substrate binding site [chemical binding]; other site 640510001507 oxyanion hole (OAH) forming residues; other site 640510001508 trimer interface [polypeptide binding]; other site 640510001509 aspartate-alanine antiporter; Region: Asp_Ala_antiprt; TIGR03802 640510001510 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 640510001511 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 640510001512 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 640510001513 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 640510001514 aspartate 4-decarboxylase; Region: asp_4_decarbox; TIGR03801 640510001515 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 640510001516 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510001517 homodimer interface [polypeptide binding]; other site 640510001518 catalytic residue [active] 640510001519 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 640510001520 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 640510001521 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640510001522 catalytic residue [active] 640510001523 major facilitator superfamily transporter; Provisional; Region: PRK05122 640510001524 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510001525 putative substrate translocation pore; other site 640510001526 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 640510001527 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 640510001528 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 640510001529 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 640510001530 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 640510001531 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 640510001532 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640510001533 XdhC Rossmann domain; Region: XdhC_C; pfam13478 640510001534 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510001535 Helix-turn-helix domains; Region: HTH; cl00088 640510001536 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 640510001537 putative substrate binding pocket [chemical binding]; other site 640510001538 putative dimerization interface [polypeptide binding]; other site 640510001539 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 640510001540 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 640510001541 putative catalytic residue [active] 640510001542 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 640510001543 NMT1-like family; Region: NMT1_2; cl15260 640510001544 BON domain; Region: BON; cl02771 640510001545 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 640510001546 LysE type translocator; Region: LysE; cl00565 640510001547 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510001548 Helix-turn-helix domains; Region: HTH; cl00088 640510001549 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 640510001550 putative dimerization interface [polypeptide binding]; other site 640510001551 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 640510001552 active site 640510001553 catalytic residues [active] 640510001554 metal binding site [ion binding]; metal-binding site 640510001555 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 640510001556 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640510001557 benzoate transport; Region: 2A0115; TIGR00895 640510001558 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510001559 putative substrate translocation pore; other site 640510001560 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510001561 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640510001562 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 640510001563 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 640510001564 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 640510001565 putative sugar binding sites [chemical binding]; other site 640510001566 Q-X-W motif; other site 640510001567 GDP-mannose glycosyl hydrolase (AKA GDP-mannose mannosyl hydrolase (GDPMH)) is a member of the Nudix hydrolase superfamily. This class of enzymes is unique from other members of the superfamily in two aspects. First, it contains a modified Nudix...; Region: GDPMH; cd03430 640510001568 active site 640510001569 GDP-Mannose binding site [chemical binding]; other site 640510001570 dimer interface [polypeptide binding]; other site 640510001571 modified nudix motif 640510001572 metal binding site [ion binding]; metal-binding site 640510001573 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640510001574 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 640510001575 conserved cys residue [active] 640510001576 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510001577 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 640510001578 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 640510001579 Substrate binding site; other site 640510001580 Cupin domain; Region: Cupin_2; cl09118 640510001581 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 640510001582 Bacterial sugar transferase; Region: Bac_transf; cl00939 640510001583 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 640510001584 polysaccharide export protein Wza; Provisional; Region: PRK15078 640510001585 tyrosine kinase; Provisional; Region: PRK11519 640510001586 Chain length determinant protein; Region: Wzz; cl15801 640510001587 Chain length determinant protein; Region: Wzz; cl15801 640510001588 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 640510001589 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 640510001590 NADP-binding site; other site 640510001591 homotetramer interface [polypeptide binding]; other site 640510001592 substrate binding site [chemical binding]; other site 640510001593 homodimer interface [polypeptide binding]; other site 640510001594 active site 640510001595 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 640510001596 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 640510001597 NADP binding site [chemical binding]; other site 640510001598 active site 640510001599 putative substrate binding site [chemical binding]; other site 640510001600 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640510001601 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 640510001602 putative glycosyl transferase; Provisional; Region: PRK10307 640510001603 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 640510001604 putative acyl transferase; Provisional; Region: PRK10502 640510001605 wcaF-like: This group is composed of the protein product of the E. coli wcaF gene and similar proteins. WcaF is part of the gene cluster responsible for the biosynthesis of the extracellular polysaccharide colanic acid. The wcaF protein is predicted to...; Region: LbH_wcaF_like; cd05825 640510001606 putative trimer interface [polypeptide binding]; other site 640510001607 putative active site [active] 640510001608 putative substrate binding site [chemical binding]; other site 640510001609 putative CoA binding site [chemical binding]; other site 640510001610 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 640510001611 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 640510001612 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640510001613 This family is most closely related to the GT1 family of glycosyltransferases. Bme6 in Brucella melitensis has been shown to be involved in the biosynthesis of a polysaccharide; Region: GT1_Bme6_like; cd03821 640510001614 putative ADP-binding pocket [chemical binding]; other site 640510001615 OpgC protein; Region: OpgC_C; cl00792 640510001616 Acyltransferase family; Region: Acyl_transf_3; pfam01757 640510001617 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640510001618 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 640510001619 colanic acid exporter; Provisional; Region: PRK10459 640510001620 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640510001621 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 640510001622 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 640510001623 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 640510001624 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510001625 DNA-binding site [nucleotide binding]; DNA binding site 640510001626 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 640510001627 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510001628 homodimer interface [polypeptide binding]; other site 640510001629 catalytic residue [active] 640510001630 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 640510001631 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 640510001632 Tannase and feruloyl esterase; Region: Tannase; pfam07519 640510001633 Transposase; Region: DEDD_Tnp_IS110; pfam01548 640510001634 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 640510001635 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 640510001636 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 640510001637 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 640510001638 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 640510001639 S-adenosylmethionine binding site [chemical binding]; other site 640510001640 RNA polymerase sigma factor; Provisional; Region: PRK12513 640510001641 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640510001642 Methyltransferase domain; Region: Methyltransf_31; pfam13847 640510001643 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 640510001644 S-adenosylmethionine binding site [chemical binding]; other site 640510001645 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 640510001646 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 640510001647 active site 640510001648 catalytic tetrad [active] 640510001649 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640510001650 classical (c) SDRs; Region: SDR_c; cd05233 640510001651 NAD(P) binding site [chemical binding]; other site 640510001652 active site 640510001653 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510001654 Helix-turn-helix domains; Region: HTH; cl00088 640510001655 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 640510001656 putative effector binding pocket; other site 640510001657 putative dimerization interface [polypeptide binding]; other site 640510001658 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 640510001659 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510001660 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 640510001661 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510001662 putative substrate translocation pore; other site 640510001663 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640510001664 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640510001665 Helix-turn-helix domains; Region: HTH; cl00088 640510001666 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 640510001667 dimerization interface [polypeptide binding]; other site 640510001668 substrate binding pocket [chemical binding]; other site 640510001669 Transcriptional regulators [Transcription]; Region: FadR; COG2186 640510001670 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510001671 DNA-binding site [nucleotide binding]; DNA binding site 640510001672 FCD domain; Region: FCD; cl11656 640510001673 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510001674 D-galactonate transporter; Region: 2A0114; TIGR00893 640510001675 putative substrate translocation pore; other site 640510001676 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 640510001677 Altronate dehydratase [Carbohydrate transport and metabolism]; Region: UxaA; COG2721 640510001678 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 640510001679 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 640510001680 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 640510001681 phosphate binding site [ion binding]; other site 640510001682 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 640510001683 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640510001684 putative ligand binding site [chemical binding]; other site 640510001685 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 640510001686 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 640510001687 Walker A/P-loop; other site 640510001688 ATP binding site [chemical binding]; other site 640510001689 Q-loop/lid; other site 640510001690 ABC transporter signature motif; other site 640510001691 Walker B; other site 640510001692 D-loop; other site 640510001693 H-loop/switch region; other site 640510001694 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 640510001695 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 640510001696 TM-ABC transporter signature motif; other site 640510001697 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 640510001698 TM-ABC transporter signature motif; other site 640510001699 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 640510001700 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 640510001701 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640510001702 putative ligand binding site [chemical binding]; other site 640510001703 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_3; cd07241 640510001704 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640510001705 putative metal binding site [ion binding]; other site 640510001706 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 640510001707 putative substrate translocation pore; other site 640510001708 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 640510001709 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 640510001710 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 640510001711 Helix-turn-helix domains; Region: HTH; cl00088 640510001712 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 640510001713 substrate binding pocket [chemical binding]; other site 640510001714 dimerization interface [polypeptide binding]; other site 640510001715 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 640510001716 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 640510001717 catalytic loop [active] 640510001718 iron binding site [ion binding]; other site 640510001719 The oxygenase reductase FAD/NADH binding domain acts as part of the multi-component bacterial oxygenases which oxidize hydrocarbons using oxygen as the oxidant. Electron transfer is from NADH via FAD (in the oxygenase reductase) and an [2FE-2S]...; Region: O2ase_reductase_like; cd06187 640510001720 FAD binding pocket [chemical binding]; other site 640510001721 FAD binding motif [chemical binding]; other site 640510001722 phosphate binding motif [ion binding]; other site 640510001723 beta-alpha-beta structure motif; other site 640510001724 NAD binding pocket [chemical binding]; other site 640510001725 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 640510001726 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 640510001727 iron-sulfur cluster [ion binding]; other site 640510001728 [2Fe-2S] cluster binding site [ion binding]; other site 640510001729 C-terminal catalytic domain of the large/alpha subunit (ahdA1c) of a ring-hydroxylating dioxygenase from Sphingomonas sp. strain P2 and related proteins; Region: RHO_alpha_C_ahdA1c-like; cd08880 640510001730 putative alpha subunit interface [polypeptide binding]; other site 640510001731 putative active site [active] 640510001732 putative substrate binding site [chemical binding]; other site 640510001733 Fe binding site [ion binding]; other site 640510001734 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 640510001735 inter-subunit interface; other site 640510001736 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 640510001737 [2Fe-2S] cluster binding site [ion binding]; other site 640510001738 gentisate 1,2-dioxygenase; Region: gentisate_1_2; TIGR02272 640510001739 Cupin domain; Region: Cupin_2; cl09118 640510001740 Cupin domain; Region: Cupin_2; cl09118 640510001741 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 640510001742 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 640510001743 maleylacetoacetate isomerase; Region: maiA; TIGR01262 640510001744 C-terminal domain interface [polypeptide binding]; other site 640510001745 GSH binding site (G-site) [chemical binding]; other site 640510001746 putative dimer interface [polypeptide binding]; other site 640510001747 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 640510001748 dimer interface [polypeptide binding]; other site 640510001749 N-terminal domain interface [polypeptide binding]; other site 640510001750 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 640510001751 Helix-turn-helix domains; Region: HTH; cl00088 640510001752 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640510001753 Flavin Reductases; Region: FlaRed; cl00801 640510001754 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 640510001755 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640510001756 active site 640510001757 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 640510001758 benzoate transport; Region: 2A0115; TIGR00895 640510001759 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510001760 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 640510001761 trimer interface [polypeptide binding]; other site 640510001762 eyelet of channel; other site 640510001763 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 640510001764 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 640510001765 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510001766 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 640510001767 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640510001768 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 640510001769 NAD(P) binding site [chemical binding]; other site 640510001770 catalytic residues [active] 640510001771 catalytic residues [active] 640510001772 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 640510001773 tartrate dehydrogenase; Provisional; Region: PRK08194 640510001774 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510001775 Helix-turn-helix domains; Region: HTH; cl00088 640510001776 The 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 640510001777 dimerization interface [polypeptide binding]; other site 640510001778 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 640510001779 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510001780 putative substrate translocation pore; other site 640510001781 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 640510001782 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510001783 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 640510001784 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 640510001785 phosphate binding site [ion binding]; other site 640510001786 Cupin domain; Region: Cupin_2; cl09118 640510001787 polyhydroxyalkanoate depolymerase, intracellular; Region: PHB_depoly_PhaZ; TIGR01849 640510001788 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 640510001789 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 640510001790 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 640510001791 putative C-terminal domain interface [polypeptide binding]; other site 640510001792 putative GSH binding site (G-site) [chemical binding]; other site 640510001793 putative dimer interface [polypeptide binding]; other site 640510001794 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 640510001795 putative N-terminal domain interface [polypeptide binding]; other site 640510001796 putative dimer interface [polypeptide binding]; other site 640510001797 putative substrate binding pocket (H-site) [chemical binding]; other site 640510001798 glutathione S-transferase; Provisional; Region: PRK15113 640510001799 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 640510001800 C-terminal, alpha helical domain of an unknown subfamily 4 of Glutathione S-transferases; Region: GST_C_4; cd03195 640510001801 putative substrate binding pocket (H-site) [chemical binding]; other site 640510001802 N-terminal domain interface [polypeptide binding]; other site 640510001803 L-asparaginase II; Region: Asparaginase_II; cl01842 640510001804 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510001805 metabolite-proton symporter; Region: 2A0106; TIGR00883 640510001806 putative substrate translocation pore; other site 640510001807 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 640510001808 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 640510001809 metal binding site [ion binding]; metal-binding site 640510001810 putative dimer interface [polypeptide binding]; other site 640510001811 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510001812 Helix-turn-helix domains; Region: HTH; cl00088 640510001813 The 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 640510001814 dimerization interface [polypeptide binding]; other site 640510001815 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 640510001816 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 640510001817 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 640510001818 NAD(P) binding site [chemical binding]; other site 640510001819 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 640510001820 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 640510001821 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510001822 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 640510001823 Cupin domain; Region: Cupin_2; cl09118 640510001824 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 640510001825 chlorocatechol 1,2-dioxygenase; Region: chlorocat_1_2; TIGR02465 640510001826 active site 640510001827 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 640510001828 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510001829 Helix-turn-helix domains; Region: HTH; cl00088 640510001830 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 640510001831 putative dimerization interface [polypeptide binding]; other site 640510001832 lipoprotein signal peptidase; Provisional; Region: PRK14787 640510001833 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 640510001834 FAD dependent oxidoreductase; Region: DAO; pfam01266 640510001835 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510001836 N-methyltryptophan oxidase; Provisional; Region: solA; PRK11259 640510001837 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 640510001838 YheO-like PAS domain; Region: PAS_6; pfam08348 640510001839 Helix-turn-helix domains; Region: HTH; cl00088 640510001840 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 640510001841 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510001842 threonine synthase; Validated; Region: PRK08197 640510001843 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 640510001844 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640510001845 catalytic residue [active] 640510001846 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cl00216 640510001847 active site 640510001848 homodimer interface [polypeptide binding]; other site 640510001849 leucine ABC transporter subunit substrate-binding protein LivK; Provisional; Region: PRK15404 640510001850 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 640510001851 dimerization interface [polypeptide binding]; other site 640510001852 ligand binding site [chemical binding]; other site 640510001853 4Fe-4S single cluster domain; Region: Fer4_13; pfam13370 640510001854 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 640510001855 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 640510001856 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 640510001857 Cl- selectivity filter; other site 640510001858 Cl- binding residues [ion binding]; other site 640510001859 pore gating glutamate residue; other site 640510001860 dimer interface [polypeptide binding]; other site 640510001861 FOG: CBS domain [General function prediction only]; Region: COG0517 640510001862 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 640510001863 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 640510001864 Surface antigen; Region: Bac_surface_Ag; cl03097 640510001865 haemagglutination activity domain; Region: Haemagg_act; cl05436 640510001866 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 640510001867 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 640510001868 putative active site [active] 640510001869 catalytic site [active] 640510001870 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 640510001871 putative active site [active] 640510001872 catalytic site [active] 640510001873 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 640510001874 oligomerisation interface [polypeptide binding]; other site 640510001875 mobile loop; other site 640510001876 roof hairpin; other site 640510001877 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 640510001878 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 640510001879 ring oligomerisation interface [polypeptide binding]; other site 640510001880 ATP/Mg binding site [chemical binding]; other site 640510001881 stacking interactions; other site 640510001882 hinge regions; other site 640510001883 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 640510001884 ligand-binding site [chemical binding]; other site 640510001885 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 640510001886 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 640510001887 dimer interface [polypeptide binding]; other site 640510001888 substrate binding site [chemical binding]; other site 640510001889 ATP binding site [chemical binding]; other site 640510001890 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 640510001891 Rubredoxin; Region: Rubredoxin; pfam00301 640510001892 iron binding site [ion binding]; other site 640510001893 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 640510001894 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 640510001895 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 640510001896 active site 640510001897 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 640510001898 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 640510001899 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510001900 dihydroorotase; Provisional; Region: PRK07627 640510001901 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 640510001902 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 640510001903 active site 640510001904 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 640510001905 putative acyl-acceptor binding pocket; other site 640510001906 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 640510001907 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 640510001908 active site 640510001909 metal binding site [ion binding]; metal-binding site 640510001910 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 640510001911 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 640510001912 NADP-binding site; other site 640510001913 homotetramer interface [polypeptide binding]; other site 640510001914 substrate binding site [chemical binding]; other site 640510001915 homodimer interface [polypeptide binding]; other site 640510001916 active site 640510001917 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 640510001918 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 640510001919 NAD binding site [chemical binding]; other site 640510001920 substrate binding site [chemical binding]; other site 640510001921 homodimer interface [polypeptide binding]; other site 640510001922 active site 640510001923 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 640510001924 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 640510001925 substrate binding site; other site 640510001926 tetramer interface; other site 640510001927 Cupin domain; Region: Cupin_2; cl09118 640510001928 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 640510001929 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 640510001930 NADP binding site [chemical binding]; other site 640510001931 active site 640510001932 putative substrate binding site [chemical binding]; other site 640510001933 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 640510001934 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 640510001935 Substrate binding site; other site 640510001936 Cupin domain; Region: Cupin_2; cl09118 640510001937 ABC-2 type transporter; Region: ABC2_membrane; cl11417 640510001938 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 640510001939 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 640510001940 Walker A/P-loop; other site 640510001941 ATP binding site [chemical binding]; other site 640510001942 Q-loop/lid; other site 640510001943 ABC transporter signature motif; other site 640510001944 Walker B; other site 640510001945 D-loop; other site 640510001946 H-loop/switch region; other site 640510001947 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 640510001948 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u6; cd10930 640510001949 NodB motif; other site 640510001950 putative active site [active] 640510001951 putative catalytic site [active] 640510001952 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 640510001953 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 640510001954 active site 640510001955 homodimer interface [polypeptide binding]; other site 640510001956 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 640510001957 putative homodimer interface [polypeptide binding]; other site 640510001958 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640510001959 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 640510001960 putative ADP-binding pocket [chemical binding]; other site 640510001961 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 640510001962 FAD dependent oxidoreductase; Region: DAO; pfam01266 640510001963 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510001964 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510001965 NAD(P) binding site [chemical binding]; other site 640510001966 active site 640510001967 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 640510001968 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 640510001969 Ligand binding site; other site 640510001970 Putative Catalytic site; other site 640510001971 DXD motif; other site 640510001972 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 640510001973 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 640510001974 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 640510001975 catalytic core [active] 640510001976 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 640510001977 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 640510001978 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 640510001979 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 640510001980 Myxococcus xanthus RfbC like proteins are required for O-antigen biosynthesis; Region: GT2_RfbC_Mx_like; cd04184 640510001981 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 640510001982 Probable Catalytic site; other site 640510001983 metal-binding site 640510001984 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 640510001985 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 640510001986 Probable Catalytic site; other site 640510001987 metal-binding site 640510001988 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 640510001989 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 640510001990 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510001991 NAD(P) binding site [chemical binding]; other site 640510001992 active site 640510001993 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 640510001994 Mg++ binding site [ion binding]; other site 640510001995 putative catalytic motif [active] 640510001996 putative substrate binding site [chemical binding]; other site 640510001997 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 640510001998 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510001999 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 640510002000 NAD(P) binding site [chemical binding]; other site 640510002001 homodimer interface [polypeptide binding]; other site 640510002002 substrate binding site [chemical binding]; other site 640510002003 active site 640510002004 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 640510002005 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 640510002006 Mg++ binding site [ion binding]; other site 640510002007 putative catalytic motif [active] 640510002008 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 640510002009 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 640510002010 dimerization interface [polypeptide binding]; other site 640510002011 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640510002012 dimer interface [polypeptide binding]; other site 640510002013 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 640510002014 putative CheW interface [polypeptide binding]; other site 640510002015 UDP-glucose 4-epimerase; Region: PLN02240 640510002016 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 640510002017 NAD binding site [chemical binding]; other site 640510002018 homodimer interface [polypeptide binding]; other site 640510002019 active site 640510002020 substrate binding site [chemical binding]; other site 640510002021 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 640510002022 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640510002023 putative ADP-binding pocket [chemical binding]; other site 640510002024 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 640510002025 active site 640510002026 MatE; Region: MatE; cl10513 640510002027 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 640510002028 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 640510002029 active site 640510002030 substrate binding site [chemical binding]; other site 640510002031 metal binding site [ion binding]; metal-binding site 640510002032 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 640510002033 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 640510002034 putative active site [active] 640510002035 3-deoxy-D-manno-oct-2-ulosonic acid (Kdo) hydroxylase; Region: Kdo_hydroxy; pfam11004 640510002036 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 640510002037 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 640510002038 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 640510002039 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510002040 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 640510002041 UreF; Region: UreF; pfam01730 640510002042 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 640510002043 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 640510002044 dimer interface [polypeptide binding]; other site 640510002045 catalytic residues [active] 640510002046 urease subunit alpha; Reviewed; Region: ureC; PRK13207 640510002047 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 640510002048 subunit interactions [polypeptide binding]; other site 640510002049 active site 640510002050 flap region; other site 640510002051 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 640510002052 gamma-beta subunit interface [polypeptide binding]; other site 640510002053 alpha-beta subunit interface [polypeptide binding]; other site 640510002054 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 640510002055 alpha-gamma subunit interface [polypeptide binding]; other site 640510002056 beta-gamma subunit interface [polypeptide binding]; other site 640510002057 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 640510002058 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 640510002059 substrate binding pocket [chemical binding]; other site 640510002060 membrane-bound complex binding site; other site 640510002061 hinge residues; other site 640510002062 UreD urease accessory protein; Region: UreD; cl00530 640510002063 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 640510002064 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 640510002065 Walker A/P-loop; other site 640510002066 ATP binding site [chemical binding]; other site 640510002067 Q-loop/lid; other site 640510002068 ABC transporter signature motif; other site 640510002069 Walker B; other site 640510002070 D-loop; other site 640510002071 H-loop/switch region; other site 640510002072 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 640510002073 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 640510002074 Walker A/P-loop; other site 640510002075 ATP binding site [chemical binding]; other site 640510002076 Q-loop/lid; other site 640510002077 ABC transporter signature motif; other site 640510002078 Walker B; other site 640510002079 D-loop; other site 640510002080 H-loop/switch region; other site 640510002081 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 640510002082 TM-ABC transporter signature motif; other site 640510002083 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 640510002084 TM-ABC transporter signature motif; other site 640510002085 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 640510002086 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 640510002087 putative ligand binding site [chemical binding]; other site 640510002088 Protein of unknown function (DUF3443); Region: DUF3443; pfam11925 640510002089 Protein of unknown function (DUF2844); Region: DUF2844; pfam11005 640510002090 Protein of unknown function (DUF3443); Region: DUF3443; pfam11925 640510002091 Protein of unknown function (DUF2844); Region: DUF2844; pfam11005 640510002092 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640510002093 classical (c) SDRs; Region: SDR_c; cd05233 640510002094 NAD(P) binding site [chemical binding]; other site 640510002095 active site 640510002096 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 640510002097 Helix-turn-helix domains; Region: HTH; cl00088 640510002098 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 640510002099 putative effector binding pocket; other site 640510002100 dimerization interface [polypeptide binding]; other site 640510002101 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 640510002102 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 640510002103 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 640510002104 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 640510002105 active site residue [active] 640510002106 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 640510002107 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 640510002108 S-adenosylmethionine binding site [chemical binding]; other site 640510002109 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640510002110 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640510002111 DNA binding site [nucleotide binding] 640510002112 domain linker motif; other site 640510002113 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 640510002114 dimerization interface [polypeptide binding]; other site 640510002115 ligand binding site [chemical binding]; other site 640510002116 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 640510002117 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 640510002118 Walker A/P-loop; other site 640510002119 ATP binding site [chemical binding]; other site 640510002120 Q-loop/lid; other site 640510002121 ABC transporter signature motif; other site 640510002122 Walker B; other site 640510002123 D-loop; other site 640510002124 H-loop/switch region; other site 640510002125 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 640510002126 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 640510002127 TM-ABC transporter signature motif; other site 640510002128 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_3; cd06311 640510002129 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640510002130 putative ligand binding site [chemical binding]; other site 640510002131 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 640510002132 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 640510002133 Metal-binding active site; metal-binding site 640510002134 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 640510002135 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 640510002136 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510002137 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 640510002138 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 640510002139 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 640510002140 putative ligand binding site [chemical binding]; other site 640510002141 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12684 640510002142 Helix-turn-helix domains; Region: HTH; cl00088 640510002143 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 640510002144 substrate binding site [chemical binding]; other site 640510002145 dimerization interface [polypeptide binding]; other site 640510002146 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 640510002147 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 640510002148 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 640510002149 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 640510002150 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 640510002151 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 640510002152 Active Sites [active] 640510002153 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 640510002154 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 640510002155 Active Sites [active] 640510002156 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 640510002157 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 640510002158 CysD dimerization site [polypeptide binding]; other site 640510002159 G1 box; other site 640510002160 putative GEF interaction site [polypeptide binding]; other site 640510002161 GTP/Mg2+ binding site [chemical binding]; other site 640510002162 Switch I region; other site 640510002163 G2 box; other site 640510002164 G3 box; other site 640510002165 Switch II region; other site 640510002166 G4 box; other site 640510002167 G5 box; other site 640510002168 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 640510002169 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 640510002170 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 640510002171 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 640510002172 Protein of unknown function (DUF1305); Region: DUF1305; cl01404 640510002173 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 640510002174 Bacterial protein of unknown function (DUF879); Region: DUF879; cl15462 640510002175 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 640510002176 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 640510002177 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 640510002178 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 640510002179 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 640510002180 Peptidase family M23; Region: Peptidase_M23; pfam01551 640510002181 PAAR motif; Region: PAAR_motif; cl15808 640510002182 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 640510002183 putative active site [active] 640510002184 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 640510002185 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 640510002186 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 640510002187 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 640510002188 multifunctional aminopeptidase A; Provisional; Region: PRK00913 640510002189 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 640510002190 interface (dimer of trimers) [polypeptide binding]; other site 640510002191 Substrate-binding/catalytic site; other site 640510002192 Zn-binding sites [ion binding]; other site 640510002193 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 640510002194 Protein of unknown function (DUF2486); Region: DUF2486; pfam10667 640510002195 Cytochrome c; Region: Cytochrom_C; cl11414 640510002196 Dehydratase family; Region: ILVD_EDD; cl00340 640510002197 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 640510002198 Helix-turn-helix domains; Region: HTH; cl00088 640510002199 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 640510002200 putative dimerization interface [polypeptide binding]; other site 640510002201 putative substrate binding pocket [chemical binding]; other site 640510002202 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 640510002203 Protein of unknown function (DUF541); Region: SIMPL; cl01077 640510002204 EVE domain; Region: EVE; cl00728 640510002205 Cell division protein ZapA; Region: ZapA; cl01146 640510002206 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 640510002207 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 640510002208 N-terminal plug; other site 640510002209 ligand-binding site [chemical binding]; other site 640510002210 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 640510002211 ABC-ATPase subunit interface; other site 640510002212 dimer interface [polypeptide binding]; other site 640510002213 putative PBP binding regions; other site 640510002214 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 640510002215 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 640510002216 Walker A/P-loop; other site 640510002217 ATP binding site [chemical binding]; other site 640510002218 Q-loop/lid; other site 640510002219 ABC transporter signature motif; other site 640510002220 Walker B; other site 640510002221 D-loop; other site 640510002222 H-loop/switch region; other site 640510002223 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 640510002224 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 640510002225 putative dimer interface [polypeptide binding]; other site 640510002226 active site pocket [active] 640510002227 putative cataytic base [active] 640510002228 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 640510002229 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 640510002230 catalytic core [active] 640510002231 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 640510002232 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 640510002233 cobalamin binding residues [chemical binding]; other site 640510002234 putative BtuC binding residues; other site 640510002235 dimer interface [polypeptide binding]; other site 640510002236 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 640510002237 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 640510002238 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510002239 homodimer interface [polypeptide binding]; other site 640510002240 catalytic residue [active] 640510002241 CobD/Cbib protein; Region: CobD_Cbib; cl00561 640510002242 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 640510002243 homotrimer interface [polypeptide binding]; other site 640510002244 Walker A motif; other site 640510002245 GTP binding site [chemical binding]; other site 640510002246 Walker B motif; other site 640510002247 cobyric acid synthase; Provisional; Region: PRK00784 640510002248 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510002249 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510002250 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 640510002251 catalytic triad [active] 640510002252 DoxX; Region: DoxX; cl00976 640510002253 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 640510002254 CoenzymeA binding site [chemical binding]; other site 640510002255 subunit interaction site [polypeptide binding]; other site 640510002256 PHB binding site; other site 640510002257 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 640510002258 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 640510002259 P-loop; other site 640510002260 Magnesium ion binding site [ion binding]; other site 640510002261 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 640510002262 tetramerization interface [polypeptide binding]; other site 640510002263 active site 640510002264 pantoate--beta-alanine ligase; Region: panC; TIGR00018 640510002265 Pantoate-beta-alanine ligase; Region: PanC; cd00560 640510002266 active site 640510002267 ATP-binding site [chemical binding]; other site 640510002268 pantoate-binding site; other site 640510002269 HXXH motif; other site 640510002270 ScpA/B protein; Region: ScpA_ScpB; cl00598 640510002271 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 640510002272 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 640510002273 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 640510002274 Surface antigen; Region: Bac_surface_Ag; cl03097 640510002275 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 640510002276 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 640510002277 Family of unknown function (DUF490); Region: DUF490; pfam04357 640510002278 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 640510002279 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 640510002280 active site 640510002281 HIGH motif; other site 640510002282 KMSKS motif; other site 640510002283 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 640510002284 tRNA binding surface [nucleotide binding]; other site 640510002285 anticodon binding site; other site 640510002286 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 640510002287 dimer interface [polypeptide binding]; other site 640510002288 putative tRNA-binding site [nucleotide binding]; other site 640510002289 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640510002290 ligand binding site [chemical binding]; other site 640510002291 Domain of unknown function DUF59; Region: DUF59; cl00941 640510002292 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 640510002293 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 640510002294 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 640510002295 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 640510002296 E-class dimer interface [polypeptide binding]; other site 640510002297 P-class dimer interface [polypeptide binding]; other site 640510002298 active site 640510002299 Cu2+ binding site [ion binding]; other site 640510002300 Zn2+ binding site [ion binding]; other site 640510002301 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 640510002302 trimer interface [polypeptide binding]; other site 640510002303 active site 640510002304 arginine decarboxylase; Provisional; Region: PRK15029 640510002305 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 640510002306 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 640510002307 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640510002308 catalytic residue [active] 640510002309 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 640510002310 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 640510002311 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 640510002312 bifunctional glucokinase/RpiR family transcriptional regulator; Provisional; Region: PRK14101 640510002313 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 640510002314 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 640510002315 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 640510002316 putative active site [active] 640510002317 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 640510002318 putative active site [active] 640510002319 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 640510002320 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 640510002321 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 640510002322 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 640510002323 The 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 640510002324 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 640510002325 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510002326 putative PBP binding loops; other site 640510002327 dimer interface [polypeptide binding]; other site 640510002328 ABC-ATPase subunit interface; other site 640510002329 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510002330 dimer interface [polypeptide binding]; other site 640510002331 conserved gate region; other site 640510002332 putative PBP binding loops; other site 640510002333 ABC-ATPase subunit interface; other site 640510002334 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 640510002335 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 640510002336 Walker A/P-loop; other site 640510002337 ATP binding site [chemical binding]; other site 640510002338 Q-loop/lid; other site 640510002339 ABC transporter signature motif; other site 640510002340 Walker B; other site 640510002341 D-loop; other site 640510002342 H-loop/switch region; other site 640510002343 TOBE domain; Region: TOBE_2; cl01440 640510002344 transcriptional regulator; Provisional; Region: PRK10632 640510002345 Helix-turn-helix domains; Region: HTH; cl00088 640510002346 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 640510002347 putative effector binding pocket; other site 640510002348 putative dimerization interface [polypeptide binding]; other site 640510002349 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 640510002350 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 640510002351 C-terminal domain interface [polypeptide binding]; other site 640510002352 GSH binding site (G-site) [chemical binding]; other site 640510002353 dimer interface [polypeptide binding]; other site 640510002354 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 640510002355 dimer interface [polypeptide binding]; other site 640510002356 N-terminal domain interface [polypeptide binding]; other site 640510002357 substrate binding pocket (H-site) [chemical binding]; other site 640510002358 Predicted membrane protein [Function unknown]; Region: COG2860 640510002359 UPF0126 domain; Region: UPF0126; pfam03458 640510002360 UPF0126 domain; Region: UPF0126; pfam03458 640510002361 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 640510002362 Smr domain; Region: Smr; cl02619 640510002363 thioredoxin reductase; Provisional; Region: PRK10262 640510002364 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640510002365 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 640510002366 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510002367 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 640510002368 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 640510002369 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 640510002370 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510002371 Helix-turn-helix domains; Region: HTH; cl00088 640510002372 The 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 640510002373 dimerization interface [polypeptide binding]; other site 640510002374 Arginase family; Region: Arginase; cl00306 640510002375 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 640510002376 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 640510002377 recombination factor protein RarA; Reviewed; Region: PRK13342 640510002378 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 640510002379 Walker A motif; other site 640510002380 ATP binding site [chemical binding]; other site 640510002381 Walker B motif; other site 640510002382 arginine finger; other site 640510002383 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 640510002384 seryl-tRNA synthetase; Provisional; Region: PRK05431 640510002385 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 640510002386 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 640510002387 dimer interface [polypeptide binding]; other site 640510002388 active site 640510002389 motif 1; other site 640510002390 motif 2; other site 640510002391 motif 3; other site 640510002392 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 640510002393 active site 640510002394 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 640510002395 septum formation inhibitor; Reviewed; Region: PRK01973 640510002396 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 640510002397 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 640510002398 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 640510002399 Switch I; other site 640510002400 Switch II; other site 640510002401 Septum formation topological specificity factor MinE; Region: MinE; cl00538 640510002402 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 640510002403 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 640510002404 putative ion selectivity filter; other site 640510002405 putative pore gating glutamate residue; other site 640510002406 putative H+/Cl- coupling transport residue; other site 640510002407 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 640510002408 putative active site [active] 640510002409 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510002410 metabolite-proton symporter; Region: 2A0106; TIGR00883 640510002411 putative substrate translocation pore; other site 640510002412 Gram-negative bacterial tonB protein; Region: TonB; cl10048 640510002413 argininosuccinate lyase; Provisional; Region: PRK00855 640510002414 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 640510002415 active sites [active] 640510002416 tetramer interface [polypeptide binding]; other site 640510002417 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 640510002418 Methyltransferase domain; Region: Methyltransf_31; pfam13847 640510002419 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 640510002420 S-adenosylmethionine binding site [chemical binding]; other site 640510002421 Peptidase M35-like domain of uncharacterized proteins; Region: M35_like_1; cd11007 640510002422 putative active site [active] 640510002423 putative Zn binding site [ion binding]; other site 640510002424 PAAR motif; Region: PAAR_motif; cl15808 640510002425 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 640510002426 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl14656 640510002427 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 640510002428 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 640510002429 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cl03189 640510002430 domain interfaces; other site 640510002431 active site 640510002432 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed; Region: PRK06975 640510002433 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 640510002434 active site 640510002435 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 640510002436 hemY protein; Region: hemY_coli; TIGR00540 640510002437 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 640510002438 TPR motif; other site 640510002439 binding surface 640510002440 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 640510002441 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 640510002442 active site 640510002443 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 640510002444 Helix-turn-helix domains; Region: HTH; cl00088 640510002445 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the chlorocatechol catabolism, contains the type 2 periplasmic binding fold; Region: PBP2_Chlorocatechol; cd08446 640510002446 dimerization interface [polypeptide binding]; other site 640510002447 putative substrate binding pocket [chemical binding]; other site 640510002448 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 640510002449 active site 1 [active] 640510002450 dimer interface [polypeptide binding]; other site 640510002451 hexamer interface [polypeptide binding]; other site 640510002452 active site 2 [active] 640510002453 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 640510002454 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 640510002455 acetaldehyde dehydrogenase; Validated; Region: PRK08300 640510002456 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510002457 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 640510002458 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 640510002459 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 640510002460 active site 640510002461 catalytic residues [active] 640510002462 metal binding site [ion binding]; metal-binding site 640510002463 DmpG-like communication domain; Region: DmpG_comm; pfam07836 640510002464 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 640510002465 Spore germination protein; Region: Spore_permease; cl15802 640510002466 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 640510002467 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 640510002468 Membrane transport protein; Region: Mem_trans; cl09117 640510002469 Low molecular weight phosphatase family; Region: LMWPc; cd00115 640510002470 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 640510002471 active site 640510002472 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 640510002473 putative DNA binding site [nucleotide binding]; other site 640510002474 putative Zn2+ binding site [ion binding]; other site 640510002475 Cupin domain; Region: Cupin_2; cl09118 640510002476 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640510002477 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 640510002478 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 640510002479 NAD(P) binding site [chemical binding]; other site 640510002480 oxidoreductase; Provisional; Region: PRK06196 640510002481 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 640510002482 putative NAD(P) binding site [chemical binding]; other site 640510002483 active site 640510002484 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 640510002485 NADP binding site [chemical binding]; other site 640510002486 active site 640510002487 Helix-turn-helix domains; Region: HTH; cl00088 640510002488 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 640510002489 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 640510002490 putative effector binding pocket; other site 640510002491 dimerization interface [polypeptide binding]; other site 640510002492 NmrA (a transcriptional regulator), HSCARG (an NADPH sensor), and triphenylmethane reductase (TMR) like proteins, atypical (a) SDRs; Region: NmrA_TMR_like_SDR_a; cd08947 640510002493 NmrA-like family; Region: NmrA; pfam05368 640510002494 NADP binding site [chemical binding]; other site 640510002495 Molybdenum cofactor biosynthesis protein F; Region: MoaF; pfam10703 640510002496 transcriptional regulator EpsA; Region: EpsA; TIGR03020 640510002497 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 640510002498 DNA binding residues [nucleotide binding] 640510002499 dimerization interface [polypeptide binding]; other site 640510002500 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 640510002501 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640510002502 NAD(P) binding site [chemical binding]; other site 640510002503 catalytic residues [active] 640510002504 transcriptional regulator EutR; Provisional; Region: PRK10130 640510002505 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510002506 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510002507 Amino acid permease; Region: AA_permease; pfam00324 640510002508 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 640510002509 trimer interface [polypeptide binding]; other site 640510002510 eyelet of channel; other site 640510002511 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510002512 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640510002513 Cupin domain; Region: Cupin_2; cl09118 640510002514 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 640510002515 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510002516 putative substrate translocation pore; other site 640510002517 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR), subgroup 3, classical (c) SDR; Region: BKR_3_SDR_c; cd05345 640510002518 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640510002519 putative NAD(P) binding site [chemical binding]; other site 640510002520 active site 640510002521 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640510002522 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 640510002523 NAD(P) binding site [chemical binding]; other site 640510002524 catalytic residues [active] 640510002525 catalytic residues [active] 640510002526 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 640510002527 dimer interface [polypeptide binding]; other site 640510002528 substrate binding site [chemical binding]; other site 640510002529 metal binding sites [ion binding]; metal-binding site 640510002530 TIGR01666 family membrane protein; Region: YCCS 640510002531 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 640510002532 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 640510002533 GIY-YIG motif/motif A; other site 640510002534 putative active site [active] 640510002535 putative metal binding site [ion binding]; other site 640510002536 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 640510002537 Protein of unknown function, DUF482; Region: DUF482; pfam04339 640510002538 NAD synthetase; Provisional; Region: PRK13981 640510002539 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 640510002540 multimer interface [polypeptide binding]; other site 640510002541 active site 640510002542 catalytic triad [active] 640510002543 protein interface 1 [polypeptide binding]; other site 640510002544 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 640510002545 homodimer interface [polypeptide binding]; other site 640510002546 NAD binding pocket [chemical binding]; other site 640510002547 ATP binding pocket [chemical binding]; other site 640510002548 Mg binding site [ion binding]; other site 640510002549 active-site loop [active] 640510002550 Nitrogen regulatory protein P-II; Region: P-II; cl00412 640510002551 Nitrogen regulatory protein P-II; Region: P-II; smart00938 640510002552 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 640510002553 trimer interface [polypeptide binding]; other site 640510002554 eyelet of channel; other site 640510002555 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 640510002556 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 640510002557 Walker A/P-loop; other site 640510002558 ATP binding site [chemical binding]; other site 640510002559 Q-loop/lid; other site 640510002560 ABC transporter signature motif; other site 640510002561 Walker B; other site 640510002562 D-loop; other site 640510002563 H-loop/switch region; other site 640510002564 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640510002565 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510002566 dimer interface [polypeptide binding]; other site 640510002567 conserved gate region; other site 640510002568 putative PBP binding loops; other site 640510002569 ABC-ATPase subunit interface; other site 640510002570 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640510002571 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510002572 dimer interface [polypeptide binding]; other site 640510002573 conserved gate region; other site 640510002574 putative PBP binding loops; other site 640510002575 ABC-ATPase subunit interface; other site 640510002576 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional; Region: PRK15010 640510002577 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 640510002578 substrate binding pocket [chemical binding]; other site 640510002579 membrane-bound complex binding site; other site 640510002580 hinge residues; other site 640510002581 Pirin-related protein [General function prediction only]; Region: COG1741 640510002582 Cupin domain; Region: Cupin_2; cl09118 640510002583 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 640510002584 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 640510002585 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510002586 active site 640510002587 phosphorylation site [posttranslational modification] 640510002588 intermolecular recognition site; other site 640510002589 dimerization interface [polypeptide binding]; other site 640510002590 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 640510002591 DNA binding site [nucleotide binding] 640510002592 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 640510002593 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 640510002594 dimer interface [polypeptide binding]; other site 640510002595 phosphorylation site [posttranslational modification] 640510002596 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510002597 ATP binding site [chemical binding]; other site 640510002598 Mg2+ binding site [ion binding]; other site 640510002599 G-X-G motif; other site 640510002600 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 640510002601 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640510002602 metal binding site [ion binding]; metal-binding site 640510002603 active site 640510002604 I-site; other site 640510002605 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 640510002606 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510002607 dimer interface [polypeptide binding]; other site 640510002608 conserved gate region; other site 640510002609 putative PBP binding loops; other site 640510002610 ABC-ATPase subunit interface; other site 640510002611 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510002612 dimer interface [polypeptide binding]; other site 640510002613 conserved gate region; other site 640510002614 putative PBP binding loops; other site 640510002615 ABC-ATPase subunit interface; other site 640510002616 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 640510002617 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 640510002618 Walker A/P-loop; other site 640510002619 ATP binding site [chemical binding]; other site 640510002620 Q-loop/lid; other site 640510002621 ABC transporter signature motif; other site 640510002622 Walker B; other site 640510002623 D-loop; other site 640510002624 H-loop/switch region; other site 640510002625 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; cl15413 640510002626 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 640510002627 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 640510002628 Walker A motif; other site 640510002629 ATP binding site [chemical binding]; other site 640510002630 Walker B motif; other site 640510002631 arginine finger; other site 640510002632 Helix-turn-helix domains; Region: HTH; cl00088 640510002633 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 640510002634 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 640510002635 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510002636 active site 640510002637 phosphorylation site [posttranslational modification] 640510002638 intermolecular recognition site; other site 640510002639 dimerization interface [polypeptide binding]; other site 640510002640 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 640510002641 Walker A motif; other site 640510002642 ATP binding site [chemical binding]; other site 640510002643 Walker B motif; other site 640510002644 arginine finger; other site 640510002645 Helix-turn-helix domains; Region: HTH; cl00088 640510002646 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 640510002647 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 640510002648 active site 640510002649 homotetramer interface [polypeptide binding]; other site 640510002650 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 640510002651 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510002652 putative substrate translocation pore; other site 640510002653 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 640510002654 substrate binding site [chemical binding]; other site 640510002655 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 640510002656 additional DNA contacts [nucleotide binding]; other site 640510002657 mismatch recognition site; other site 640510002658 active site 640510002659 zinc binding site [ion binding]; other site 640510002660 DNA intercalation site [nucleotide binding]; other site 640510002661 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 640510002662 Helix-turn-helix domains; Region: HTH; cl00088 640510002663 The 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 640510002664 dimerization interface [polypeptide binding]; other site 640510002665 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510002666 Helix-turn-helix domains; Region: HTH; cl00088 640510002667 The 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 640510002668 dimerization interface [polypeptide binding]; other site 640510002669 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 640510002670 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 640510002671 Walker A/P-loop; other site 640510002672 ATP binding site [chemical binding]; other site 640510002673 Q-loop/lid; other site 640510002674 ABC transporter signature motif; other site 640510002675 Walker B; other site 640510002676 D-loop; other site 640510002677 H-loop/switch region; other site 640510002678 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510002679 dimer interface [polypeptide binding]; other site 640510002680 conserved gate region; other site 640510002681 putative PBP binding loops; other site 640510002682 ABC-ATPase subunit interface; other site 640510002683 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640510002684 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510002685 dimer interface [polypeptide binding]; other site 640510002686 conserved gate region; other site 640510002687 putative PBP binding loops; other site 640510002688 ABC-ATPase subunit interface; other site 640510002689 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 640510002690 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 640510002691 substrate binding pocket [chemical binding]; other site 640510002692 membrane-bound complex binding site; other site 640510002693 hinge residues; other site 640510002694 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 640510002695 Helix-turn-helix domains; Region: HTH; cl00088 640510002696 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 640510002697 putative dimerization interface [polypeptide binding]; other site 640510002698 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 640510002699 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640510002700 Helix-turn-helix domains; Region: HTH; cl00088 640510002701 DNA cytosine methylase; Provisional; Region: PRK10458 640510002702 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 640510002703 cofactor binding site; other site 640510002704 DNA binding site [nucleotide binding] 640510002705 substrate interaction site [chemical binding]; other site 640510002706 CsbD-like; Region: CsbD; cl15799 640510002707 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 640510002708 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 640510002709 C-terminal domain interface [polypeptide binding]; other site 640510002710 GSH binding site (G-site) [chemical binding]; other site 640510002711 dimer interface [polypeptide binding]; other site 640510002712 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 640510002713 dimer interface [polypeptide binding]; other site 640510002714 N-terminal domain interface [polypeptide binding]; other site 640510002715 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 640510002716 Predicted periplasmic lipoprotein (DUF2279); Region: DUF2279; cl11574 640510002717 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 640510002718 Rubredoxin; Region: Rubredoxin; pfam00301 640510002719 iron binding site [ion binding]; other site 640510002720 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 640510002721 ABC transporter ATPase component; Reviewed; Region: PRK11147 640510002722 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510002723 Walker A/P-loop; other site 640510002724 ATP binding site [chemical binding]; other site 640510002725 Q-loop/lid; other site 640510002726 ABC transporter signature motif; other site 640510002727 Walker B; other site 640510002728 D-loop; other site 640510002729 H-loop/switch region; other site 640510002730 ABC transporter; Region: ABC_tran_2; pfam12848 640510002731 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 640510002732 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 640510002733 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510002734 ATP binding site [chemical binding]; other site 640510002735 Mg2+ binding site [ion binding]; other site 640510002736 G-X-G motif; other site 640510002737 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 640510002738 anchoring element; other site 640510002739 dimer interface [polypeptide binding]; other site 640510002740 ATP binding site [chemical binding]; other site 640510002741 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 640510002742 active site 640510002743 metal binding site [ion binding]; metal-binding site 640510002744 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 640510002745 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 640510002746 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 640510002747 CAP-like domain; other site 640510002748 active site 640510002749 primary dimer interface [polypeptide binding]; other site 640510002750 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 640510002751 Copper resistance protein D; Region: CopD; cl00563 640510002752 Chromate transporter; Region: Chromate_transp; pfam02417 640510002753 Chromate transporter; Region: Chromate_transp; pfam02417 640510002754 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640510002755 metal binding site [ion binding]; metal-binding site 640510002756 active site 640510002757 I-site; other site 640510002758 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 640510002759 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 640510002760 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 640510002761 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 640510002762 homotrimer interaction site [polypeptide binding]; other site 640510002763 putative active site [active] 640510002764 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 640510002765 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 640510002766 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510002767 homodimer interface [polypeptide binding]; other site 640510002768 catalytic residue [active] 640510002769 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 640510002770 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 640510002771 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510002772 DNA-binding site [nucleotide binding]; DNA binding site 640510002773 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 640510002774 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510002775 homodimer interface [polypeptide binding]; other site 640510002776 catalytic residue [active] 640510002777 heat shock protein 90; Provisional; Region: PRK05218 640510002778 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510002779 ATP binding site [chemical binding]; other site 640510002780 Mg2+ binding site [ion binding]; other site 640510002781 G-X-G motif; other site 640510002782 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 640510002783 binding surface 640510002784 Tetratricopeptide repeat; Region: TPR_16; pfam13432 640510002785 TPR motif; other site 640510002786 lipopolysaccharide core biosynthesis protein; Provisional; Region: PRK10422 640510002787 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 640510002788 binding surface 640510002789 TPR motif; other site 640510002790 Tetratricopeptide repeat; Region: TPR_12; pfam13424 640510002791 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 640510002792 putative outer membrane lipoprotein; Provisional; Region: PRK09967 640510002793 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640510002794 ligand binding site [chemical binding]; other site 640510002795 UTRA domain; Region: UTRA; cl01230 640510002796 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 640510002797 putative active site [active] 640510002798 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 640510002799 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 640510002800 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 640510002801 Na binding site [ion binding]; other site 640510002802 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 640510002803 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 640510002804 dimer interface [polypeptide binding]; other site 640510002805 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640510002806 transaldolase-like protein; Provisional; Region: PTZ00411 640510002807 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 640510002808 active site 640510002809 dimer interface [polypeptide binding]; other site 640510002810 catalytic residue [active] 640510002811 benzoate transporter; Region: benE; TIGR00843 640510002812 Benzoate membrane transport protein; Region: BenE; pfam03594 640510002813 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 640510002814 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 640510002815 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 640510002816 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 640510002817 Walker A motif; other site 640510002818 ATP binding site [chemical binding]; other site 640510002819 Walker B motif; other site 640510002820 arginine finger; other site 640510002821 Cytochrome c; Region: Cytochrom_C; cl11414 640510002822 Cytochrome c; Region: Cytochrom_C; cl11414 640510002823 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 640510002824 endonuclease III; Provisional; Region: PRK10702 640510002825 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 640510002826 minor groove reading motif; other site 640510002827 helix-hairpin-helix signature motif; other site 640510002828 substrate binding pocket [chemical binding]; other site 640510002829 active site 640510002830 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 640510002831 ferredoxin; Provisional; Region: PRK06991 640510002832 Putative Fe-S cluster; Region: FeS; pfam04060 640510002833 4Fe-4S binding domain; Region: Fer4; cl02805 640510002834 ferredoxin; Provisional; Region: PRK06991 640510002835 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 640510002836 Helix-turn-helix domains; Region: HTH; cl00088 640510002837 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 640510002838 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 640510002839 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 640510002840 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 640510002841 Protein of unknown function (DUF3096); Region: DUF3096; pfam11295 640510002842 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 640510002843 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510002844 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 640510002845 META domain; Region: META; cl01245 640510002846 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 640510002847 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510002848 ATP-grasp domain; Region: ATP-grasp_4; cl03087 640510002849 DDE superfamily endonuclease; Region: DDE_4; cl15789 640510002850 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 640510002851 DDE superfamily endonuclease; Region: DDE_4; cl15789 640510002852 acetolactate synthase; Reviewed; Region: PRK08322 640510002853 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 640510002854 PYR/PP interface [polypeptide binding]; other site 640510002855 dimer interface [polypeptide binding]; other site 640510002856 TPP binding site [chemical binding]; other site 640510002857 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 640510002858 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 640510002859 TPP-binding site [chemical binding]; other site 640510002860 dimer interface [polypeptide binding]; other site 640510002861 Aldehyde dehydrogenase family 21A1-like; Region: ALDH_F21_RNP123; cd07147 640510002862 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640510002863 NAD(P) binding site [chemical binding]; other site 640510002864 catalytic residues [active] 640510002865 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 640510002866 DEAD-like helicases superfamily; Region: DEXDc; smart00487 640510002867 ATP binding site [chemical binding]; other site 640510002868 Mg++ binding site [ion binding]; other site 640510002869 motif III; other site 640510002870 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 640510002871 nucleotide binding region [chemical binding]; other site 640510002872 ATP-binding site [chemical binding]; other site 640510002873 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 640510002874 active site 640510002875 HIGH motif; other site 640510002876 nucleotide binding site [chemical binding]; other site 640510002877 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 640510002878 active site 640510002879 KMSKS motif; other site 640510002880 rhodanese superfamily protein; Provisional; Region: PRK05320 640510002881 Acylphosphatase; Region: Acylphosphatase; cl00551 640510002882 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 640510002883 active site residue [active] 640510002884 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 640510002885 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 640510002886 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 640510002887 generic binding surface II; other site 640510002888 generic binding surface I; other site 640510002889 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 640510002890 putative metal binding site; other site 640510002891 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 640510002892 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 640510002893 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 640510002894 Walker A/P-loop; other site 640510002895 ATP binding site [chemical binding]; other site 640510002896 Q-loop/lid; other site 640510002897 ABC transporter signature motif; other site 640510002898 Walker B; other site 640510002899 D-loop; other site 640510002900 H-loop/switch region; other site 640510002901 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 640510002902 Probable Catalytic site; other site 640510002903 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 640510002904 active site 640510002905 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 640510002906 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 640510002907 O-Antigen ligase; Region: Wzy_C; cl04850 640510002908 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 640510002909 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 640510002910 active site 640510002911 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 640510002912 Putative exonuclease, RdgC; Region: RdgC; cl01122 640510002913 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 640510002914 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 640510002915 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 640510002916 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 640510002917 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 640510002918 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 640510002919 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 640510002920 putative dimer interface [polypeptide binding]; other site 640510002921 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640510002922 NLPC_P60 stabilising domain, N term; Region: N_NLPC_P60; pfam12912 640510002923 SH3 domain of the SH3b1 type; Region: SH3_6; pfam12913 640510002924 SH3 domain of SH3b2 type; Region: SH3_7; pfam12914 640510002925 NlpC/P60 family; Region: NLPC_P60; cl11438 640510002926 TOBE domain; Region: TOBE_2; cl01440 640510002927 TOBE domain; Region: TOBE_2; cl01440 640510002928 GAF domain; Region: GAF; cl15785 640510002929 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 640510002930 PAS domain; Region: PAS_9; pfam13426 640510002931 putative active site [active] 640510002932 heme pocket [chemical binding]; other site 640510002933 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640510002934 metal binding site [ion binding]; metal-binding site 640510002935 active site 640510002936 I-site; other site 640510002937 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 640510002938 integrase; Provisional; Region: PRK09692 640510002939 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 640510002940 active site 640510002941 Int/Topo IB signature motif; other site 640510002942 CheB methylesterase; Region: CheB_methylest; pfam01339 640510002943 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 640510002944 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 640510002945 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 640510002946 PAS domain; Region: PAS_9; pfam13426 640510002947 PAS domain; Region: PAS_10; pfam13596 640510002948 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 640510002949 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 640510002950 putative active site [active] 640510002951 heme pocket [chemical binding]; other site 640510002952 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 640510002953 dimer interface [polypeptide binding]; other site 640510002954 phosphorylation site [posttranslational modification] 640510002955 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510002956 ATP binding site [chemical binding]; other site 640510002957 Mg2+ binding site [ion binding]; other site 640510002958 G-X-G motif; other site 640510002959 Response regulator receiver domain; Region: Response_reg; pfam00072 640510002960 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510002961 active site 640510002962 phosphorylation site [posttranslational modification] 640510002963 intermolecular recognition site; other site 640510002964 dimerization interface [polypeptide binding]; other site 640510002965 CheB methylesterase; Region: CheB_methylest; pfam01339 640510002966 Helix-turn-helix domains; Region: HTH; cl00088 640510002967 putative transposase OrfB; Reviewed; Region: PHA02517 640510002968 HTH-like domain; Region: HTH_21; pfam13276 640510002969 Integrase core domain; Region: rve; cl01316 640510002970 Integrase core domain; Region: rve_3; cl15866 640510002971 DDE superfamily endonuclease; Region: DDE_4; cl15789 640510002972 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 640510002973 DDE superfamily endonuclease; Region: DDE_4; cl15789 640510002974 Helix-turn-helix domains; Region: HTH; cl00088 640510002975 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 640510002976 IS2 transposase TnpB; Reviewed; Region: PRK09409 640510002977 HTH-like domain; Region: HTH_21; pfam13276 640510002978 Integrase core domain; Region: rve; cl01316 640510002979 Integrase core domain; Region: rve_3; cl15866 640510002980 DDE superfamily endonuclease; Region: DDE_4; cl15789 640510002981 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 640510002982 DDE superfamily endonuclease; Region: DDE_4; cl15789 640510002983 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 640510002984 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 640510002985 putative NAD(P) binding site [chemical binding]; other site 640510002986 catalytic Zn binding site [ion binding]; other site 640510002987 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510002988 D-galactonate transporter; Region: 2A0114; TIGR00893 640510002989 putative substrate translocation pore; other site 640510002990 Cupin domain; Region: Cupin_2; cl09118 640510002991 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 640510002992 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510002993 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 640510002994 trimer interface [polypeptide binding]; other site 640510002995 eyelet of channel; other site 640510002996 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 640510002997 Helix-turn-helix domains; Region: HTH; cl00088 640510002998 HTH-like domain; Region: HTH_21; pfam13276 640510002999 Integrase core domain; Region: rve; cl01316 640510003000 Integrase core domain; Region: rve_3; cl15866 640510003001 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 640510003002 transcriptional regulator HilD; Provisional; Region: PRK15185 640510003003 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510003004 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 640510003005 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510003006 D-galactonate transporter; Region: 2A0114; TIGR00893 640510003007 putative substrate translocation pore; other site 640510003008 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 640510003009 short chain dehydrogenase; Provisional; Region: PRK12829 640510003010 classical (c) SDRs; Region: SDR_c; cd05233 640510003011 NAD(P) binding site [chemical binding]; other site 640510003012 active site 640510003013 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 640510003014 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 640510003015 homotetramer interface [polypeptide binding]; other site 640510003016 NAD(P) binding site [chemical binding]; other site 640510003017 homodimer interface [polypeptide binding]; other site 640510003018 active site 640510003019 Cupin domain; Region: Cupin_2; cl09118 640510003020 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 640510003021 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 640510003022 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 640510003023 Walker A/P-loop; other site 640510003024 ATP binding site [chemical binding]; other site 640510003025 Q-loop/lid; other site 640510003026 ABC transporter signature motif; other site 640510003027 Walker B; other site 640510003028 D-loop; other site 640510003029 H-loop/switch region; other site 640510003030 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 640510003031 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 640510003032 TM-ABC transporter signature motif; other site 640510003033 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 640510003034 TM-ABC transporter signature motif; other site 640510003035 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 640510003036 trimer interface [polypeptide binding]; other site 640510003037 eyelet of channel; other site 640510003038 ParB-like nuclease domain; Region: ParBc; cl02129 640510003039 Domain of unknown function (DUF932); Region: DUF932; cl12129 640510003040 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 640510003041 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 640510003042 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 640510003043 Protein of unknown function (DUF3732); Region: DUF3732; pfam12532 640510003044 DDE superfamily endonuclease; Region: DDE_4; cl15789 640510003045 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 640510003046 DDE superfamily endonuclease; Region: DDE_4; cl15789 640510003047 integrase; Provisional; Region: PRK09692 640510003048 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 640510003049 active site 640510003050 Int/Topo IB signature motif; other site 640510003051 ribonuclease G; Provisional; Region: PRK11712 640510003052 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 640510003053 homodimer interface [polypeptide binding]; other site 640510003054 oligonucleotide binding site [chemical binding]; other site 640510003055 Maf-like protein; Region: Maf; pfam02545 640510003056 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 640510003057 active site 640510003058 dimer interface [polypeptide binding]; other site 640510003059 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 640510003060 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 640510003061 Oligomerisation domain; Region: Oligomerisation; cl00519 640510003062 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 640510003063 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 640510003064 active site 640510003065 (T/H)XGH motif; other site 640510003066 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 640510003067 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 640510003068 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 640510003069 ATP-grasp domain; Region: ATP-grasp_4; cl03087 640510003070 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 640510003071 Transcriptional regulator; Region: Transcrip_reg; cl00361 640510003072 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 640510003073 active site 640510003074 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640510003075 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 640510003076 putative NAD(P) binding site [chemical binding]; other site 640510003077 putative active site [active] 640510003078 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 640510003079 active site 640510003080 dimer interfaces [polypeptide binding]; other site 640510003081 catalytic residues [active] 640510003082 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 640510003083 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 640510003084 NADP binding site [chemical binding]; other site 640510003085 dimer interface [polypeptide binding]; other site 640510003086 Potassium-transporting ATPase A subunit; Region: KdpA; cl00903 640510003087 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 640510003088 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 640510003089 K+-transporting ATPase, c chain; Region: KdpC; cl00944 640510003090 sensor protein KdpD; Provisional; Region: PRK10490 640510003091 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 640510003092 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 640510003093 Ligand Binding Site [chemical binding]; other site 640510003094 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 640510003095 GAF domain; Region: GAF; cl15785 640510003096 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 640510003097 dimer interface [polypeptide binding]; other site 640510003098 phosphorylation site [posttranslational modification] 640510003099 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510003100 ATP binding site [chemical binding]; other site 640510003101 Mg2+ binding site [ion binding]; other site 640510003102 G-X-G motif; other site 640510003103 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 640510003104 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510003105 active site 640510003106 phosphorylation site [posttranslational modification] 640510003107 intermolecular recognition site; other site 640510003108 dimerization interface [polypeptide binding]; other site 640510003109 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 640510003110 DNA binding site [nucleotide binding] 640510003111 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 640510003112 Domain of unknown function (DUF4126); Region: DUF4126; pfam13548 640510003113 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 640510003114 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 640510003115 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 640510003116 apolar tunnel; other site 640510003117 heme binding site [chemical binding]; other site 640510003118 dimerization interface [polypeptide binding]; other site 640510003119 Bacterial protein of unknown function (DUF924); Region: DUF924; cl01561 640510003120 4-amino-4-deoxy-L-arabinose transferase; Provisional; Region: arnT; PRK13279 640510003121 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 640510003122 short chain dehydrogenase; Provisional; Region: PRK06123 640510003123 classical (c) SDRs; Region: SDR_c; cd05233 640510003124 NAD(P) binding site [chemical binding]; other site 640510003125 active site 640510003126 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 640510003127 Helix-turn-helix domains; Region: HTH; cl00088 640510003128 Bacterial transcriptional repressor; Region: TetR; pfam13972 640510003129 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 640510003130 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640510003131 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 640510003132 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 640510003133 putative active site [active] 640510003134 putative metal binding site [ion binding]; other site 640510003135 RDD family; Region: RDD; cl00746 640510003136 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 640510003137 Protein of unknown function (DUF3619); Region: DUF3619; pfam12279 640510003138 RNA polymerase factor sigma-70; Validated; Region: PRK09047 640510003139 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 640510003140 DNA binding residues [nucleotide binding] 640510003141 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 640510003142 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 640510003143 PYR/PP interface [polypeptide binding]; other site 640510003144 dimer interface [polypeptide binding]; other site 640510003145 TPP binding site [chemical binding]; other site 640510003146 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 640510003147 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 640510003148 TPP-binding site [chemical binding]; other site 640510003149 dimer interface [polypeptide binding]; other site 640510003150 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 640510003151 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 640510003152 putative valine binding site [chemical binding]; other site 640510003153 dimer interface [polypeptide binding]; other site 640510003154 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 640510003155 ketol-acid reductoisomerase; Provisional; Region: PRK05479 640510003156 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510003157 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 640510003158 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 640510003159 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 640510003160 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 640510003161 putative active site [active] 640510003162 putative NTP binding site [chemical binding]; other site 640510003163 putative nucleic acid binding site [nucleotide binding]; other site 640510003164 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 640510003165 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 640510003166 active site 640510003167 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 640510003168 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 640510003169 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 640510003170 2-isopropylmalate synthase; Validated; Region: PRK00915 640510003171 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 640510003172 active site 640510003173 catalytic residues [active] 640510003174 metal binding site [ion binding]; metal-binding site 640510003175 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 640510003176 Sulfate transporter family; Region: Sulfate_transp; cl15842 640510003177 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 640510003178 active site clefts [active] 640510003179 zinc binding site [ion binding]; other site 640510003180 dimer interface [polypeptide binding]; other site 640510003181 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 640510003182 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 640510003183 putative ligand binding site [chemical binding]; other site 640510003184 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 640510003185 16S/18S rRNA binding site [nucleotide binding]; other site 640510003186 S13e-L30e interaction site [polypeptide binding]; other site 640510003187 25S rRNA binding site [nucleotide binding]; other site 640510003188 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 640510003189 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 640510003190 RNase E interface [polypeptide binding]; other site 640510003191 trimer interface [polypeptide binding]; other site 640510003192 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 640510003193 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 640510003194 RNase E interface [polypeptide binding]; other site 640510003195 trimer interface [polypeptide binding]; other site 640510003196 active site 640510003197 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 640510003198 putative nucleic acid binding region [nucleotide binding]; other site 640510003199 G-X-X-G motif; other site 640510003200 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 640510003201 RNA binding site [nucleotide binding]; other site 640510003202 domain interface; other site 640510003203 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 640510003204 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 640510003205 NAD(P) binding site [chemical binding]; other site 640510003206 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 640510003207 substrate binding site [chemical binding]; other site 640510003208 dimer interface [polypeptide binding]; other site 640510003209 catalytic triad [active] 640510003210 Preprotein translocase SecG subunit; Region: SecG; cl09123 640510003211 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 640510003212 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 640510003213 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 640510003214 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 640510003215 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 640510003216 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 640510003217 NADH-quinone oxidoreductase, E subunit; Region: nuoE_fam; TIGR01958 640510003218 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 640510003219 putative dimer interface [polypeptide binding]; other site 640510003220 [2Fe-2S] cluster binding site [ion binding]; other site 640510003221 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 640510003222 SLBB domain; Region: SLBB; pfam10531 640510003223 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 640510003224 NADH dehydrogenase subunit G; Validated; Region: PRK09129 640510003225 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 640510003226 catalytic loop [active] 640510003227 iron binding site [ion binding]; other site 640510003228 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 640510003229 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 640510003230 NADH dehydrogenase; Region: NADHdh; cl00469 640510003231 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 640510003232 4Fe-4S binding domain; Region: Fer4; cl02805 640510003233 4Fe-4S binding domain; Region: Fer4; cl02805 640510003234 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 640510003235 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 640510003236 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 640510003237 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 640510003238 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 640510003239 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 640510003240 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 640510003241 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 640510003242 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 640510003243 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 640510003244 Protein of unknown function (DUF2818); Region: DUF2818; pfam10993 640510003245 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 640510003246 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 640510003247 dimer interface [polypeptide binding]; other site 640510003248 ADP-ribose binding site [chemical binding]; other site 640510003249 active site 640510003250 nudix motif; other site 640510003251 metal binding site [ion binding]; metal-binding site 640510003252 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 640510003253 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 640510003254 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 640510003255 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 640510003256 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 640510003257 FAD binding site [chemical binding]; other site 640510003258 substrate binding site [chemical binding]; other site 640510003259 catalytic base [active] 640510003260 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 640510003261 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 640510003262 active site 640510003263 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 640510003264 putative active site [active] 640510003265 putative catalytic site [active] 640510003266 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 640510003267 putative active site [active] 640510003268 putative catalytic site [active] 640510003269 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 640510003270 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 640510003271 C-terminal domain interface [polypeptide binding]; other site 640510003272 GSH binding site (G-site) [chemical binding]; other site 640510003273 dimer interface [polypeptide binding]; other site 640510003274 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 640510003275 N-terminal domain interface [polypeptide binding]; other site 640510003276 putative dimer interface [polypeptide binding]; other site 640510003277 active site 640510003278 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 640510003279 Acyl-CoA dehydrogenases similar to fadE2; Region: ACAD_FadE2; cd01155 640510003280 FAD binding site [chemical binding]; other site 640510003281 substrate binding site [chemical binding]; other site 640510003282 catalytic base [active] 640510003283 Predicted aminoglycoside phosphotransferase [General function prediction only]; Region: COG3173 640510003284 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 640510003285 putative active site [active] 640510003286 putative substrate binding site [chemical binding]; other site 640510003287 ATP binding site [chemical binding]; other site 640510003288 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 640510003289 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 640510003290 catalytic core [active] 640510003291 enoyl-CoA hydratase; Provisional; Region: PRK07511 640510003292 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 640510003293 substrate binding site [chemical binding]; other site 640510003294 oxyanion hole (OAH) forming residues; other site 640510003295 trimer interface [polypeptide binding]; other site 640510003296 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 640510003297 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510003298 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 640510003299 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 640510003300 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 640510003301 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 640510003302 C-terminal domain interface [polypeptide binding]; other site 640510003303 GSH binding site (G-site) [chemical binding]; other site 640510003304 dimer interface [polypeptide binding]; other site 640510003305 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 640510003306 N-terminal domain interface [polypeptide binding]; other site 640510003307 dimer interface [polypeptide binding]; other site 640510003308 substrate binding pocket (H-site) [chemical binding]; other site 640510003309 methionine aminotransferase; Validated; Region: PRK09082 640510003310 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 640510003311 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510003312 homodimer interface [polypeptide binding]; other site 640510003313 catalytic residue [active] 640510003314 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 640510003315 Protein of unknown function (DUF328); Region: DUF328; cl01143 640510003316 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 640510003317 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 640510003318 putative active site [active] 640510003319 Zn binding site [ion binding]; other site 640510003320 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 640510003321 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640510003322 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 640510003323 active site 640510003324 phosphorylation site [posttranslational modification] 640510003325 intermolecular recognition site; other site 640510003326 dimerization interface [polypeptide binding]; other site 640510003327 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 640510003328 DNA binding residues [nucleotide binding] 640510003329 dimerization interface [polypeptide binding]; other site 640510003330 Protein of unknown function (DUF2863); Region: DUF2863; pfam11062 640510003331 Domain of unknown function DUF20; Region: UPF0118; pfam01594 640510003332 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 640510003333 Cell division inhibitor SulA; Region: SulA; cl01880 640510003334 DNA Polymerase Y-family; Region: PolY_like; cd03468 640510003335 DNA binding site [nucleotide binding] 640510003336 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 640510003337 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 640510003338 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 640510003339 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 640510003340 generic binding surface II; other site 640510003341 generic binding surface I; other site 640510003342 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 640510003343 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 640510003344 NADP binding site [chemical binding]; other site 640510003345 active site 640510003346 putative substrate binding site [chemical binding]; other site 640510003347 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 640510003348 metal-binding site [ion binding] 640510003349 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 640510003350 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 640510003351 DNA binding residues [nucleotide binding] 640510003352 dimer interface [polypeptide binding]; other site 640510003353 copper binding site [ion binding]; other site 640510003354 Protein of unknown function (DUF3563); Region: DUF3563; pfam12086 640510003355 NMT1-like family; Region: NMT1_2; cl15260 640510003356 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 640510003357 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 640510003358 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 640510003359 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 640510003360 active site 640510003361 catalytic tetrad [active] 640510003362 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK13394 640510003363 classical (c) SDRs; Region: SDR_c; cd05233 640510003364 NAD(P) binding site [chemical binding]; other site 640510003365 active site 640510003366 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 640510003367 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 640510003368 nucleophile elbow; other site 640510003369 Patatin phospholipase; Region: DUF3734; pfam12536 640510003370 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 640510003371 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 640510003372 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510003373 homodimer interface [polypeptide binding]; other site 640510003374 catalytic residue [active] 640510003375 excinuclease ABC subunit B; Provisional; Region: PRK05298 640510003376 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 640510003377 ATP binding site [chemical binding]; other site 640510003378 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 640510003379 nucleotide binding region [chemical binding]; other site 640510003380 ATP-binding site [chemical binding]; other site 640510003381 Ultra-violet resistance protein B; Region: UvrB; pfam12344 640510003382 UvrB/uvrC motif; Region: UVR; pfam02151 640510003383 Fe2+ transport protein; Region: Iron_transport; cl01377 640510003384 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 640510003385 Iron permease FTR1 family; Region: FTR1; cl00475 640510003386 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 640510003387 4Fe-4S binding domain; Region: Fer4_5; pfam12801 640510003388 Hemin uptake protein hemP; Region: hemP; cl10043 640510003389 DUF1857, an uncharacterized ligand-binding domain of the SRPBCC domain superfamily; Region: SRPBCC_DUF1857; cd08863 640510003390 putative hydrophobic ligand binding site [chemical binding]; other site 640510003391 OsmC-like protein; Region: OsmC; cl00767 640510003392 Pirin-related protein [General function prediction only]; Region: COG1741 640510003393 Cupin domain; Region: Cupin_2; cl09118 640510003394 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 640510003395 LysR family transcriptional regulator; Provisional; Region: PRK14997 640510003396 Helix-turn-helix domains; Region: HTH; cl00088 640510003397 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 640510003398 putative effector binding pocket; other site 640510003399 putative dimerization interface [polypeptide binding]; other site 640510003400 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 640510003401 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 640510003402 Gram-negative bacterial tonB protein; Region: TonB; cl10048 640510003403 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 640510003404 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 640510003405 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 640510003406 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 640510003407 heme binding site [chemical binding]; other site 640510003408 ferroxidase pore; other site 640510003409 ferroxidase diiron center [ion binding]; other site 640510003410 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 640510003411 Fumarase C-terminus; Region: Fumerase_C; cl00795 640510003412 Uncharacterized protein family, UPF0114; Region: UPF0114; cl01078 640510003413 acetyl-CoA synthetase; Provisional; Region: PRK00174 640510003414 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 640510003415 AMP-binding enzyme; Region: AMP-binding; cl15778 640510003416 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 640510003417 Domain of unknown function (DUF4212); Region: DUF4212; cl01781 640510003418 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 640510003419 Ezrin/radixin/moesin family; Region: ERM; pfam00769 640510003420 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 640510003421 Na binding site [ion binding]; other site 640510003422 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 640510003423 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 640510003424 Int/Topo IB signature motif; other site 640510003425 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 640510003426 non-specific DNA binding site [nucleotide binding]; other site 640510003427 salt bridge; other site 640510003428 sequence-specific DNA binding site [nucleotide binding]; other site 640510003429 multiple promoter invertase; Provisional; Region: mpi; PRK13413 640510003430 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 640510003431 catalytic residues [active] 640510003432 catalytic nucleophile [active] 640510003433 Presynaptic Site I dimer interface [polypeptide binding]; other site 640510003434 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 640510003435 Synaptic Flat tetramer interface [polypeptide binding]; other site 640510003436 Synaptic Site I dimer interface [polypeptide binding]; other site 640510003437 DNA binding site [nucleotide binding] 640510003438 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 640510003439 DNA-binding interface [nucleotide binding]; DNA binding site 640510003440 HNH endonuclease; Region: HNH_5; pfam14279 640510003441 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 640510003442 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 640510003443 catalytic residues [active] 640510003444 catalytic nucleophile [active] 640510003445 Presynaptic Site I dimer interface [polypeptide binding]; other site 640510003446 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 640510003447 Synaptic Flat tetramer interface [polypeptide binding]; other site 640510003448 Synaptic Site I dimer interface [polypeptide binding]; other site 640510003449 DNA binding site [nucleotide binding] 640510003450 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 640510003451 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 640510003452 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 640510003453 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 640510003454 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 640510003455 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 640510003456 catalytic residue [active] 640510003457 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 640510003458 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 640510003459 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 640510003460 N-terminal domain interface [polypeptide binding]; other site 640510003461 dimer interface [polypeptide binding]; other site 640510003462 substrate binding pocket (H-site) [chemical binding]; other site 640510003463 Transcriptional regulators [Transcription]; Region: MarR; COG1846 640510003464 Helix-turn-helix domains; Region: HTH; cl00088 640510003465 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 640510003466 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510003467 NAD(P) binding site [chemical binding]; other site 640510003468 active site 640510003469 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 640510003470 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 640510003471 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 640510003472 NMT1-like family; Region: NMT1_2; cl15260 640510003473 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 640510003474 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510003475 ABC-ATPase subunit interface; other site 640510003476 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510003477 dimer interface [polypeptide binding]; other site 640510003478 conserved gate region; other site 640510003479 putative PBP binding loops; other site 640510003480 ABC-ATPase subunit interface; other site 640510003481 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 640510003482 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 640510003483 Walker A/P-loop; other site 640510003484 ATP binding site [chemical binding]; other site 640510003485 Q-loop/lid; other site 640510003486 ABC transporter signature motif; other site 640510003487 Walker B; other site 640510003488 D-loop; other site 640510003489 H-loop/switch region; other site 640510003490 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 640510003491 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 640510003492 active site 640510003493 non-prolyl cis peptide bond; other site 640510003494 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640510003495 classical (c) SDRs; Region: SDR_c; cd05233 640510003496 NAD(P) binding site [chemical binding]; other site 640510003497 active site 640510003498 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 640510003499 Helix-turn-helix domains; Region: HTH; cl00088 640510003500 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 640510003501 BNR repeat-like domain; Region: BNR_2; pfam13088 640510003502 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; cd00260 640510003503 catalytic site [active] 640510003504 Asp-box motif; other site 640510003505 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 640510003506 Na binding site [ion binding]; other site 640510003507 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 640510003508 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 640510003509 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 640510003510 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 640510003511 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 640510003512 putative active site [active] 640510003513 metal binding site [ion binding]; metal-binding site 640510003514 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 640510003515 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 640510003516 inhibitor site; inhibition site 640510003517 active site 640510003518 dimer interface [polypeptide binding]; other site 640510003519 catalytic residue [active] 640510003520 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 640510003521 trimer interface [polypeptide binding]; other site 640510003522 eyelet of channel; other site 640510003523 LysR family transcriptional regulator; Provisional; Region: PRK14997 640510003524 Helix-turn-helix domains; Region: HTH; cl00088 640510003525 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 640510003526 putative effector binding pocket; other site 640510003527 dimerization interface [polypeptide binding]; other site 640510003528 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 640510003529 classical (c) SDRs; Region: SDR_c; cd05233 640510003530 NAD(P) binding site [chemical binding]; other site 640510003531 active site 640510003532 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640510003533 classical (c) SDRs; Region: SDR_c; cd05233 640510003534 NAD(P) binding site [chemical binding]; other site 640510003535 active site 640510003536 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 640510003537 active site 640510003538 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 640510003539 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 640510003540 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 640510003541 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640510003542 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640510003543 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 640510003544 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 640510003545 putative FMN binding site [chemical binding]; other site 640510003546 MbtH-like protein; Region: MbtH; cl01279 640510003547 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 640510003548 Cupin domain; Region: Cupin_2; cl09118 640510003549 YqcI/YcgG family; Region: YqcI_YcgG; cl01349 640510003550 ABC-type siderophore export system, fused ATPase and permease components [Secondary metabolites biosynthesis, transport, and catabolism / Inorganic ion transport and metabolism]; Region: PvdE; COG4615 640510003551 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 640510003552 The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a...; Region: ABCC_MRP_Like; cd03228 640510003553 Walker A/P-loop; other site 640510003554 ATP binding site [chemical binding]; other site 640510003555 Q-loop/lid; other site 640510003556 ABC transporter signature motif; other site 640510003557 Walker B; other site 640510003558 D-loop; other site 640510003559 H-loop/switch region; other site 640510003560 iron-hydroxamate transporter ATP-binding subunit; Provisional; Region: PRK10575 640510003561 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 640510003562 Walker A/P-loop; other site 640510003563 ATP binding site [chemical binding]; other site 640510003564 Q-loop/lid; other site 640510003565 ABC transporter signature motif; other site 640510003566 Walker B; other site 640510003567 D-loop; other site 640510003568 H-loop/switch region; other site 640510003569 peptide synthase; Validated; Region: PRK05691 640510003570 AMP-binding enzyme; Region: AMP-binding; cl15778 640510003571 Phosphopantetheine attachment site; Region: PP-binding; cl09936 640510003572 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 640510003573 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 640510003574 AMP-binding enzyme; Region: AMP-binding; cl15778 640510003575 AMP-binding enzyme; Region: AMP-binding; cl15778 640510003576 Phosphopantetheine attachment site; Region: PP-binding; cl09936 640510003577 peptide synthase; Provisional; Region: PRK12316 640510003578 AMP-binding enzyme; Region: AMP-binding; cl15778 640510003579 AMP-binding enzyme; Region: AMP-binding; cl15778 640510003580 Phosphopantetheine attachment site; Region: PP-binding; cl09936 640510003581 AMP-binding enzyme; Region: AMP-binding; cl15778 640510003582 Phosphopantetheine attachment site; Region: PP-binding; cl09936 640510003583 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 640510003584 AMP-binding enzyme; Region: AMP-binding; cl15778 640510003585 Phosphopantetheine attachment site; Region: PP-binding; cl09936 640510003586 peptide synthase; Provisional; Region: PRK12467 640510003587 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 640510003588 AMP-binding enzyme; Region: AMP-binding; cl15778 640510003589 Phosphopantetheine attachment site; Region: PP-binding; cl09936 640510003590 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 640510003591 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 640510003592 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 640510003593 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 640510003594 N-terminal plug; other site 640510003595 ligand-binding site [chemical binding]; other site 640510003596 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 640510003597 intersubunit interface [polypeptide binding]; other site 640510003598 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 640510003599 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 640510003600 ABC-ATPase subunit interface; other site 640510003601 dimer interface [polypeptide binding]; other site 640510003602 putative PBP binding regions; other site 640510003603 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 640510003604 ABC-ATPase subunit interface; other site 640510003605 dimer interface [polypeptide binding]; other site 640510003606 putative PBP binding regions; other site 640510003607 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 640510003608 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 640510003609 N-terminal plug; other site 640510003610 ligand-binding site [chemical binding]; other site 640510003611 enterobactin exporter EntS; Provisional; Region: PRK10489 640510003612 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510003613 putative substrate translocation pore; other site 640510003614 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 640510003615 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; cl03075 640510003616 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 640510003617 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 640510003618 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510003619 active site 640510003620 phosphorylation site [posttranslational modification] 640510003621 intermolecular recognition site; other site 640510003622 dimerization interface [polypeptide binding]; other site 640510003623 Domain of unknown function (DUF305); Region: DUF305; cl15795 640510003624 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510003625 short chain dehydrogenase; Provisional; Region: PRK12937 640510003626 NAD(P) binding site [chemical binding]; other site 640510003627 active site 640510003628 transcriptional regulator; Provisional; Region: PRK10632 640510003629 Helix-turn-helix domains; Region: HTH; cl00088 640510003630 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 640510003631 putative effector binding pocket; other site 640510003632 putative dimerization interface [polypeptide binding]; other site 640510003633 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 640510003634 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 640510003635 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 640510003636 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 640510003637 excinuclease ABC, A subunit; Region: uvra; TIGR00630 640510003638 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510003639 Walker A/P-loop; other site 640510003640 ATP binding site [chemical binding]; other site 640510003641 Q-loop/lid; other site 640510003642 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 640510003643 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 640510003644 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 640510003645 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640510003646 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 640510003647 conserved cys residue [active] 640510003648 Cupin domain; Region: Cupin_2; cl09118 640510003649 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 640510003650 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510003651 Helix-turn-helix domains; Region: HTH; cl00088 640510003652 The 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 640510003653 dimerization interface [polypeptide binding]; other site 640510003654 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 640510003655 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 640510003656 active site 640510003657 homodimer interface [polypeptide binding]; other site 640510003658 Bacterial cellulose synthase subunit; Region: BcsB; cl15851 640510003659 bacteriophage N4 adsorption protein B; Provisional; Region: nfrB; PRK15489 640510003660 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 640510003661 active site 640510003662 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 640510003663 Bacteriophage N adsorption protein A C-term; Region: NfrA_C; pfam13283 640510003664 LysE type translocator; Region: LysE; cl00565 640510003665 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 640510003666 Helix-turn-helix domains; Region: HTH; cl00088 640510003667 The 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 640510003668 dimerization interface [polypeptide binding]; other site 640510003669 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 640510003670 Helix-turn-helix domains; Region: HTH; cl00088 640510003671 The 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 640510003672 dimerization interface [polypeptide binding]; other site 640510003673 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 640510003674 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 640510003675 metal binding site [ion binding]; metal-binding site 640510003676 putative dimer interface [polypeptide binding]; other site 640510003677 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510003678 metabolite-proton symporter; Region: 2A0106; TIGR00883 640510003679 putative substrate translocation pore; other site 640510003680 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510003681 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640510003682 putative substrate translocation pore; other site 640510003683 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 640510003684 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510003685 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 640510003686 NAD(P) binding site [chemical binding]; other site 640510003687 active site 640510003688 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510003689 Helix-turn-helix domains; Region: HTH; cl00088 640510003690 The 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 640510003691 dimerization interface [polypeptide binding]; other site 640510003692 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 640510003693 active sites [active] 640510003694 tetramer interface [polypeptide binding]; other site 640510003695 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 640510003696 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510003697 DNA-binding site [nucleotide binding]; DNA binding site 640510003698 UTRA domain; Region: UTRA; cl01230 640510003699 urocanate hydratase; Provisional; Region: PRK05414 640510003700 HutD; Region: HutD; cl01532 640510003701 imidazolonepropionase; Validated; Region: PRK09356 640510003702 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 640510003703 active site 640510003704 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 640510003705 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 640510003706 active site 640510003707 N-formylglutamate amidohydrolase; Region: FGase; cl01522 640510003708 Mitochondrial fission regulator; Region: Mito_fiss_reg; pfam05308 640510003709 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 640510003710 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 640510003711 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 640510003712 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 640510003713 dimerization interface [polypeptide binding]; other site 640510003714 ligand binding site [chemical binding]; other site 640510003715 pyridoxamine kinase; Validated; Region: PRK05756 640510003716 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 640510003717 dimer interface [polypeptide binding]; other site 640510003718 pyridoxal binding site [chemical binding]; other site 640510003719 ATP binding site [chemical binding]; other site 640510003720 glycogen synthase; Provisional; Region: glgA; PRK00654 640510003721 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 640510003722 ADP-binding pocket [chemical binding]; other site 640510003723 homodimer interface [polypeptide binding]; other site 640510003724 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 640510003725 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 640510003726 ligand binding site; other site 640510003727 oligomer interface; other site 640510003728 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 640510003729 dimer interface [polypeptide binding]; other site 640510003730 N-terminal domain interface [polypeptide binding]; other site 640510003731 sulfate 1 binding site; other site 640510003732 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 640510003733 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640510003734 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 640510003735 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 640510003736 Cysteine dioxygenase type I; Region: CDO_I; cl15835 640510003737 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 640510003738 active site residue [active] 640510003739 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 640510003740 active site residue [active] 640510003741 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 640510003742 active site residue [active] 640510003743 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 640510003744 active site residue [active] 640510003745 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 640510003746 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 640510003747 hypothetical protein; Provisional; Region: PRK10279 640510003748 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 640510003749 active site 640510003750 nucleophile elbow; other site 640510003751 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640510003752 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510003753 dimer interface [polypeptide binding]; other site 640510003754 conserved gate region; other site 640510003755 putative PBP binding loops; other site 640510003756 ABC-ATPase subunit interface; other site 640510003757 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640510003758 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510003759 dimer interface [polypeptide binding]; other site 640510003760 conserved gate region; other site 640510003761 putative PBP binding loops; other site 640510003762 ABC-ATPase subunit interface; other site 640510003763 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 640510003764 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 640510003765 Walker A/P-loop; other site 640510003766 ATP binding site [chemical binding]; other site 640510003767 Q-loop/lid; other site 640510003768 ABC transporter signature motif; other site 640510003769 Walker B; other site 640510003770 D-loop; other site 640510003771 H-loop/switch region; other site 640510003772 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640510003773 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 640510003774 conserved cys residue [active] 640510003775 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510003776 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510003777 Peptidase M35-like domain of uncharacterized proteins; Region: M35_like_1; cd11007 640510003778 putative active site [active] 640510003779 putative Zn binding site [ion binding]; other site 640510003780 PAAR motif; Region: PAAR_motif; cl15808 640510003781 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 640510003782 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 640510003783 inhibitor-cofactor binding pocket; inhibition site 640510003784 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510003785 catalytic residue [active] 640510003786 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 640510003787 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 640510003788 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640510003789 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 640510003790 NAD(P) binding site [chemical binding]; other site 640510003791 catalytic residues [active] 640510003792 Succinylarginine dihydrolase; Region: AstB; cl01511 640510003793 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 640510003794 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 640510003795 active site 640510003796 Zn binding site [ion binding]; other site 640510003797 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 640510003798 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 640510003799 substrate binding pocket [chemical binding]; other site 640510003800 membrane-bound complex binding site; other site 640510003801 hinge residues; other site 640510003802 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 640510003803 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 640510003804 HDOD domain; Region: HDOD; pfam08668 640510003805 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640510003806 metal binding site [ion binding]; metal-binding site 640510003807 active site 640510003808 I-site; other site 640510003809 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 640510003810 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 640510003811 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 640510003812 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 640510003813 catalytic triad [active] 640510003814 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 640510003815 Protein export membrane protein; Region: SecD_SecF; cl14618 640510003816 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 640510003817 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 640510003818 Protein export membrane protein; Region: SecD_SecF; cl14618 640510003819 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 640510003820 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 640510003821 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640510003822 Helix-turn-helix domains; Region: HTH; cl00088 640510003823 Uncharacterized conserved protein [Function unknown]; Region: COG3391 640510003824 SdiA-regulated; Region: SdiA-regulated; cd09971 640510003825 putative active site [active] 640510003826 Domain of Unknown Function (DUF1259); Region: DUF1529; pfam07485 640510003827 Domain of Unknown Function (DUF1259); Region: DUF1529; pfam07485 640510003828 Chromate transporter; Region: Chromate_transp; pfam02417 640510003829 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 640510003830 Chromate transporter; Region: Chromate_transp; pfam02417 640510003831 Chromate resistance exported protein; Region: Chrome_Resist; cl01744 640510003832 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510003833 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 640510003834 NAD(P) binding site [chemical binding]; other site 640510003835 active site 640510003836 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510003837 Helix-turn-helix domains; Region: HTH; cl00088 640510003838 The 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 640510003839 dimerization interface [polypeptide binding]; other site 640510003840 Protein of unknown function (DUF1254); Region: DUF1254; cl02257 640510003841 Uncharacterized conserved protein [Function unknown]; Region: COG5361 640510003842 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 640510003843 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 640510003844 AMP-binding enzyme; Region: AMP-binding; cl15778 640510003845 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 640510003846 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 640510003847 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640510003848 active site 640510003849 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 640510003850 Uncharacterized conserved protein [Function unknown]; Region: COG5361 640510003851 Protein of unknown function (DUF1254); Region: DUF1254; cl02257 640510003852 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 640510003853 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 640510003854 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 640510003855 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 640510003856 DNA binding residues [nucleotide binding] 640510003857 dimerization interface [polypeptide binding]; other site 640510003858 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 640510003859 enoyl-CoA hydratase; Provisional; Region: PRK06688 640510003860 substrate binding site [chemical binding]; other site 640510003861 oxyanion hole (OAH) forming residues; other site 640510003862 trimer interface [polypeptide binding]; other site 640510003863 lipid-transfer protein; Provisional; Region: PRK08256 640510003864 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 640510003865 active site 640510003866 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 640510003867 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640510003868 active site 640510003869 lipid-transfer protein; Provisional; Region: PRK08256 640510003870 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 640510003871 active site 640510003872 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 640510003873 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 640510003874 FAD binding site [chemical binding]; other site 640510003875 substrate binding site [chemical binding]; other site 640510003876 catalytic base [active] 640510003877 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 640510003878 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 640510003879 active site 640510003880 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 640510003881 putative active site [active] 640510003882 putative catalytic site [active] 640510003883 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 640510003884 (3R)-hydroxyacyl-CoA dehydrogenase-like, classical(c)-like SDRs; Region: hydroxyacyl-CoA-like_DH_SDR_c-like; cd05353 640510003885 NAD binding site [chemical binding]; other site 640510003886 homodimer interface [polypeptide binding]; other site 640510003887 active site 640510003888 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 640510003889 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640510003890 active site 640510003891 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 640510003892 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640510003893 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 640510003894 eyelet of channel; other site 640510003895 trimer interface [polypeptide binding]; other site 640510003896 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 640510003897 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510003898 NAD(P) binding site [chemical binding]; other site 640510003899 active site 640510003900 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510003901 D-galactonate transporter; Region: 2A0114; TIGR00893 640510003902 putative substrate translocation pore; other site 640510003903 Muconolactone delta-isomerase; Region: MIase; cl01992 640510003904 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 640510003905 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 640510003906 octamer interface [polypeptide binding]; other site 640510003907 active site 640510003908 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 640510003909 Helix-turn-helix domains; Region: HTH; cl00088 640510003910 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 640510003911 dimerizarion interface [polypeptide binding]; other site 640510003912 CrgA pocket; other site 640510003913 substrate binding pocket [chemical binding]; other site 640510003914 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 640510003915 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 640510003916 dimer interface [polypeptide binding]; other site 640510003917 active site 640510003918 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 640510003919 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 640510003920 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 640510003921 putative alpha subunit interface [polypeptide binding]; other site 640510003922 putative active site [active] 640510003923 putative substrate binding site [chemical binding]; other site 640510003924 Fe binding site [ion binding]; other site 640510003925 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 640510003926 inter-subunit interface; other site 640510003927 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 640510003928 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 640510003929 catalytic loop [active] 640510003930 iron binding site [ion binding]; other site 640510003931 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 640510003932 FAD binding pocket [chemical binding]; other site 640510003933 FAD binding motif [chemical binding]; other site 640510003934 phosphate binding motif [ion binding]; other site 640510003935 beta-alpha-beta structure motif; other site 640510003936 NAD binding pocket [chemical binding]; other site 640510003937 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640510003938 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510003939 NAD(P) binding site [chemical binding]; other site 640510003940 active site 640510003941 Domain of unknown function (DUF3597); Region: DUF3597; pfam12200 640510003942 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 640510003943 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 640510003944 CrcB-like protein; Region: CRCB; cl09114 640510003945 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 640510003946 CHASE3 domain; Region: CHASE3; cl05000 640510003947 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640510003948 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 640510003949 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510003950 ATP binding site [chemical binding]; other site 640510003951 Mg2+ binding site [ion binding]; other site 640510003952 G-X-G motif; other site 640510003953 intracellular protease, PfpI family; Region: PfpI; TIGR01382 640510003954 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 640510003955 conserved cys residue [active] 640510003956 Rrf2 family protein; Region: rrf2_super; TIGR00738 640510003957 Helix-turn-helix domains; Region: HTH; cl00088 640510003958 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 640510003959 NADH(P)-binding; Region: NAD_binding_10; pfam13460 640510003960 NAD binding site [chemical binding]; other site 640510003961 substrate binding site [chemical binding]; other site 640510003962 putative active site [active] 640510003963 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 640510003964 Mechanosensitive ion channel; Region: MS_channel; pfam00924 640510003965 Cysteine dioxygenase type I; Region: CDO_I; cl15835 640510003966 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 640510003967 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 640510003968 putative DNA binding site [nucleotide binding]; other site 640510003969 putative Zn2+ binding site [ion binding]; other site 640510003970 AsnC family; Region: AsnC_trans_reg; pfam01037 640510003971 Protein of unknown function (DUF1326); Region: DUF1326; cl02375 640510003972 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 640510003973 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 640510003974 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 640510003975 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 640510003976 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 640510003977 exodeoxyribonuclease V, beta subunit; Region: recB; TIGR00609 640510003978 exodeoxyribonuclease V, beta subunit; Region: recB; TIGR00609 640510003979 Family description; Region: UvrD_C_2; cl15862 640510003980 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 640510003981 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 640510003982 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510003983 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 640510003984 Family description; Region: UvrD_C_2; cl15862 640510003985 RF-1 domain; Region: RF-1; cl02875 640510003986 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 640510003987 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 640510003988 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 640510003989 putative active site [active] 640510003990 DDE superfamily endonuclease; Region: DDE_4; cl15789 640510003991 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510003992 Helix-turn-helix domains; Region: HTH; cl00088 640510003993 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 640510003994 putative dimerization interface [polypeptide binding]; other site 640510003995 aspartate aminotransferase; Provisional; Region: PRK06108 640510003996 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 640510003997 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510003998 homodimer interface [polypeptide binding]; other site 640510003999 catalytic residue [active] 640510004000 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 640510004001 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 640510004002 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 640510004003 RNA binding surface [nucleotide binding]; other site 640510004004 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 640510004005 probable active site [active] 640510004006 ribosome maturation protein RimP; Reviewed; Region: PRK00092 640510004007 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 640510004008 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 640510004009 Sm1 motif; other site 640510004010 predicted subunit interaction site [polypeptide binding]; other site 640510004011 RNA binding pocket [nucleotide binding]; other site 640510004012 Sm2 motif; other site 640510004013 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 640510004014 NusA N-terminal domain; Region: NusA_N; pfam08529 640510004015 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 640510004016 RNA binding site [nucleotide binding]; other site 640510004017 homodimer interface [polypeptide binding]; other site 640510004018 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 640510004019 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 640510004020 G-X-X-G motif; other site 640510004021 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 640510004022 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 640510004023 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 640510004024 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 640510004025 translation initiation factor IF-2; Region: IF-2; TIGR00487 640510004026 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 640510004027 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 640510004028 G1 box; other site 640510004029 putative GEF interaction site [polypeptide binding]; other site 640510004030 GTP/Mg2+ binding site [chemical binding]; other site 640510004031 Switch I region; other site 640510004032 G2 box; other site 640510004033 G3 box; other site 640510004034 Switch II region; other site 640510004035 G4 box; other site 640510004036 G5 box; other site 640510004037 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 640510004038 Translation-initiation factor 2; Region: IF-2; pfam11987 640510004039 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 640510004040 Ribosome-binding factor A; Region: RBFA; cl00542 640510004041 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 640510004042 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 640510004043 RNA binding site [nucleotide binding]; other site 640510004044 active site 640510004045 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 640510004046 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 640510004047 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510004048 putative substrate translocation pore; other site 640510004049 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510004050 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 640510004051 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 640510004052 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 640510004053 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640510004054 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640510004055 Helix-turn-helix domains; Region: HTH; cl00088 640510004056 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 640510004057 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 640510004058 G1 box; other site 640510004059 putative GEF interaction site [polypeptide binding]; other site 640510004060 GTP/Mg2+ binding site [chemical binding]; other site 640510004061 Switch I region; other site 640510004062 G2 box; other site 640510004063 G3 box; other site 640510004064 Switch II region; other site 640510004065 G4 box; other site 640510004066 G5 box; other site 640510004067 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 640510004068 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 640510004069 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 640510004070 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 640510004071 TPP-binding site [chemical binding]; other site 640510004072 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 640510004073 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 640510004074 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 640510004075 E3 interaction surface; other site 640510004076 lipoyl attachment site [posttranslational modification]; other site 640510004077 e3 binding domain; Region: E3_binding; pfam02817 640510004078 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 640510004079 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 640510004080 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640510004081 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 640510004082 Predicted ATPase [General function prediction only]; Region: COG1485 640510004083 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510004084 Walker A/P-loop; other site 640510004085 ATP binding site [chemical binding]; other site 640510004086 Q-loop/lid; other site 640510004087 Walker B; other site 640510004088 D-loop; other site 640510004089 H-loop/switch region; other site 640510004090 DDE superfamily endonuclease; Region: DDE_4; cl15789 640510004091 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 640510004092 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 640510004093 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 640510004094 Surface antigen; Region: Bac_surface_Ag; cl03097 640510004095 Flp/Fap pilin component; Region: Flp_Fap; cl01585 640510004096 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 640510004097 TadE-like protein; Region: TadE; cl10688 640510004098 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 640510004099 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 640510004100 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 640510004101 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 640510004102 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510004103 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 640510004104 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 640510004105 ATP binding site [chemical binding]; other site 640510004106 Walker A motif; other site 640510004107 hexamer interface [polypeptide binding]; other site 640510004108 Walker B motif; other site 640510004109 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 640510004110 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 640510004111 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 640510004112 binding surface 640510004113 TPR motif; other site 640510004114 Protein of unknown function (DUF3613); Region: DUF3613; pfam12266 640510004115 Predicted membrane protein [Function unknown]; Region: COG4655 640510004116 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 640510004117 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 640510004118 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 640510004119 Walker A motif; other site 640510004120 ATP binding site [chemical binding]; other site 640510004121 Walker B motif; other site 640510004122 arginine finger; other site 640510004123 Helix-turn-helix domains; Region: HTH; cl00088 640510004124 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 640510004125 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 640510004126 Sm1 motif; other site 640510004127 D1 - D2 interaction site; other site 640510004128 D3 - B interaction site; other site 640510004129 Hfq - Hfq interaction site; other site 640510004130 RNA binding pocket [nucleotide binding]; other site 640510004131 Sm2 motif; other site 640510004132 RNA polymerase sigma factor; Provisional; Region: PRK12511 640510004133 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640510004134 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 640510004135 DNA binding residues [nucleotide binding] 640510004136 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 640510004137 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 640510004138 FAD binding domain; Region: FAD_binding_4; pfam01565 640510004139 Protein of unknown function (DUF1571); Region: DUF1571; pfam07608 640510004140 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 640510004141 AMP-binding enzyme; Region: AMP-binding; cl15778 640510004142 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 640510004143 acetyl-CoA acetyltransferase; Provisional; Region: PRK09268 640510004144 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 640510004145 dimer interface [polypeptide binding]; other site 640510004146 active site 640510004147 enoyl-CoA hydratase; Region: PLN02864 640510004148 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 640510004149 active site 2 [active] 640510004150 active site 1 [active] 640510004151 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08261 640510004152 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510004153 NAD(P) binding site [chemical binding]; other site 640510004154 active site 640510004155 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 640510004156 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640510004157 active site 640510004158 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 640510004159 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640510004160 Helix-turn-helix domains; Region: HTH; cl00088 640510004161 putative sialic acid transporter; Region: 2A0112; TIGR00891 640510004162 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510004163 putative substrate translocation pore; other site 640510004164 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510004165 active site 640510004166 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640510004167 phosphorylation site [posttranslational modification] 640510004168 intermolecular recognition site; other site 640510004169 dimerization interface [polypeptide binding]; other site 640510004170 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 640510004171 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510004172 ATP binding site [chemical binding]; other site 640510004173 Mg2+ binding site [ion binding]; other site 640510004174 G-X-G motif; other site 640510004175 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640510004176 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510004177 ATP binding site [chemical binding]; other site 640510004178 Mg2+ binding site [ion binding]; other site 640510004179 G-X-G motif; other site 640510004180 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510004181 active site 640510004182 phosphorylation site [posttranslational modification] 640510004183 intermolecular recognition site; other site 640510004184 dimerization interface [polypeptide binding]; other site 640510004185 Response regulator receiver domain; Region: Response_reg; pfam00072 640510004186 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510004187 active site 640510004188 phosphorylation site [posttranslational modification] 640510004189 intermolecular recognition site; other site 640510004190 dimerization interface [polypeptide binding]; other site 640510004191 Predicted dehydrogenase [General function prediction only]; Region: COG5322 640510004192 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 640510004193 dimerization interface [polypeptide binding]; other site 640510004194 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 640510004195 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 640510004196 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 640510004197 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 640510004198 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 640510004199 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 640510004200 Moco binding site; other site 640510004201 metal coordination site [ion binding]; other site 640510004202 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 640510004203 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 640510004204 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 640510004205 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640510004206 dimer interface [polypeptide binding]; other site 640510004207 putative CheW interface [polypeptide binding]; other site 640510004208 Leucine carboxyl methyltransferase; Region: LCM; cl01306 640510004209 Chromate transporter; Region: Chromate_transp; pfam02417 640510004210 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 640510004211 Chromate transporter; Region: Chromate_transp; pfam02417 640510004212 Domain of unknown function (DUF4130; Region: DUF4130; cl14836 640510004213 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 640510004214 Fe-S cluster binding site [ion binding]; other site 640510004215 active site 640510004216 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 640510004217 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 640510004218 FeS/SAM binding site; other site 640510004219 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 640510004220 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 640510004221 Domain of unknown function (DUF1992); Region: DUF1992; cl08096 640510004222 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 640510004223 nucleoside/Zn binding site; other site 640510004224 dimer interface [polypeptide binding]; other site 640510004225 catalytic motif [active] 640510004226 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 640510004227 dimer interface [polypeptide binding]; other site 640510004228 catalytic triad [active] 640510004229 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510004230 DNA-binding site [nucleotide binding]; DNA binding site 640510004231 FCD domain; Region: FCD; cl11656 640510004232 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 640510004233 Na binding site [ion binding]; other site 640510004234 putative substrate binding site [chemical binding]; other site 640510004235 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 640510004236 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 640510004237 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 640510004238 active site 640510004239 catalytic site [active] 640510004240 tetramer interface [polypeptide binding]; other site 640510004241 OHCU decarboxylase; Region: OHCU_decarbox; cl01251 640510004242 allantoicase; Provisional; Region: PRK13257 640510004243 Allantoicase repeat; Region: Allantoicase; pfam03561 640510004244 Allantoicase repeat; Region: Allantoicase; pfam03561 640510004245 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 640510004246 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; cl01250 640510004247 Predicted membrane protein [Function unknown]; Region: COG3748 640510004248 Protein of unknown function (DUF989); Region: DUF989; pfam06181 640510004249 Cytochrome c; Region: Cytochrom_C; cl11414 640510004250 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 640510004251 active site 640510004252 homotetramer interface [polypeptide binding]; other site 640510004253 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 640510004254 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 640510004255 active site 640510004256 putative substrate binding pocket [chemical binding]; other site 640510004257 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510004258 Helix-turn-helix domains; Region: HTH; cl00088 640510004259 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 640510004260 putative substrate binding pocket [chemical binding]; other site 640510004261 putative dimerization interface [polypeptide binding]; other site 640510004262 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 640510004263 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 640510004264 Walker A/P-loop; other site 640510004265 ATP binding site [chemical binding]; other site 640510004266 Q-loop/lid; other site 640510004267 ABC transporter signature motif; other site 640510004268 Walker B; other site 640510004269 D-loop; other site 640510004270 H-loop/switch region; other site 640510004271 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 640510004272 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 640510004273 TM-ABC transporter signature motif; other site 640510004274 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 640510004275 TM-ABC transporter signature motif; other site 640510004276 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 640510004277 putative ligand binding site [chemical binding]; other site 640510004278 Dodecin; Region: Dodecin; cl01328 640510004279 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510004280 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 640510004281 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510004282 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 640510004283 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510004284 Walker A/P-loop; other site 640510004285 ATP binding site [chemical binding]; other site 640510004286 Q-loop/lid; other site 640510004287 ABC transporter signature motif; other site 640510004288 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 640510004289 Walker B; other site 640510004290 D-loop; other site 640510004291 H-loop/switch region; other site 640510004292 ABC transporter; Region: ABC_tran_2; pfam12848 640510004293 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 640510004294 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 640510004295 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640510004296 NAD binding site [chemical binding]; other site 640510004297 catalytic residues [active] 640510004298 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 640510004299 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 640510004300 FMN binding site [chemical binding]; other site 640510004301 substrate binding site [chemical binding]; other site 640510004302 putative catalytic residue [active] 640510004303 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 640510004304 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 640510004305 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cd00541 640510004306 dimerization interface [polypeptide binding]; other site 640510004307 substrate binding site [chemical binding]; other site 640510004308 active site 640510004309 calcium binding site [ion binding]; other site 640510004310 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 640510004311 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 640510004312 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 640510004313 The 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 640510004314 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 640510004315 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510004316 Walker A/P-loop; other site 640510004317 ATP binding site [chemical binding]; other site 640510004318 Q-loop/lid; other site 640510004319 ABC transporter signature motif; other site 640510004320 Walker B; other site 640510004321 D-loop; other site 640510004322 H-loop/switch region; other site 640510004323 TOBE domain; Region: TOBE_2; cl01440 640510004324 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510004325 dimer interface [polypeptide binding]; other site 640510004326 conserved gate region; other site 640510004327 putative PBP binding loops; other site 640510004328 ABC-ATPase subunit interface; other site 640510004329 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 640510004330 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510004331 dimer interface [polypeptide binding]; other site 640510004332 conserved gate region; other site 640510004333 putative PBP binding loops; other site 640510004334 ABC-ATPase subunit interface; other site 640510004335 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 640510004336 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640510004337 dimer interface [polypeptide binding]; other site 640510004338 putative CheW interface [polypeptide binding]; other site 640510004339 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640510004340 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 640510004341 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510004342 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 640510004343 Helix-turn-helix domains; Region: HTH; cl00088 640510004344 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 640510004345 Tetratricopeptide repeat; Region: TPR_16; pfam13432 640510004346 binding surface 640510004347 TPR motif; other site 640510004348 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 640510004349 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 640510004350 Transglycosylase; Region: Transgly; cl07896 640510004351 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 640510004352 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640510004353 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 640510004354 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 640510004355 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 640510004356 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640510004357 Helix-turn-helix domains; Region: HTH; cl00088 640510004358 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 640510004359 transcriptional regulator; Provisional; Region: PRK10632 640510004360 Helix-turn-helix domains; Region: HTH; cl00088 640510004361 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 640510004362 putative effector binding pocket; other site 640510004363 dimerization interface [polypeptide binding]; other site 640510004364 Cupin domain; Region: Cupin_2; cl09118 640510004365 Cupin domain; Region: Cupin_2; cl09118 640510004366 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640510004367 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 640510004368 Phospholipase B; Region: Phospholip_B; pfam04916 640510004369 putative voltage-gated ClC-type chloride channel ClcB; Provisional; Region: PRK01862 640510004370 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 640510004371 Cl- selectivity filter; other site 640510004372 Cl- binding residues [ion binding]; other site 640510004373 pore gating glutamate residue; other site 640510004374 dimer interface [polypeptide binding]; other site 640510004375 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 640510004376 glutathione s-transferase; Provisional; Region: PTZ00057 640510004377 GST_N family, Class Sigma_like; composed of GSTs belonging to class Sigma and similar proteins, including GSTs from class Mu, Pi and Alpha. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of...; Region: GST_N_Sigma_like; cd03039 640510004378 GSH binding site (G-site) [chemical binding]; other site 640510004379 C-terminal domain interface [polypeptide binding]; other site 640510004380 dimer interface [polypeptide binding]; other site 640510004381 C-terminal, alpha helical domain of Class Sigma-like Glutathione S-transferases; Region: GST_C_Sigma_like; cd03192 640510004382 dimer interface [polypeptide binding]; other site 640510004383 N-terminal domain interface [polypeptide binding]; other site 640510004384 substrate binding pocket (H-site) [chemical binding]; other site 640510004385 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 640510004386 LysR transcriptional regulator; Provisional; Region: rbcR; CHL00180 640510004387 Helix-turn-helix domains; Region: HTH; cl00088 640510004388 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 640510004389 putative dimerization interface [polypeptide binding]; other site 640510004390 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 640510004391 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 640510004392 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 640510004393 substrate binding site [chemical binding]; other site 640510004394 ATP binding site [chemical binding]; other site 640510004395 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510004396 D-galactonate transporter; Region: 2A0114; TIGR00893 640510004397 putative substrate translocation pore; other site 640510004398 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 640510004399 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510004400 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640510004401 DNA binding site [nucleotide binding] 640510004402 domain linker motif; other site 640510004403 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 640510004404 putative dimerization interface [polypeptide binding]; other site 640510004405 putative ligand binding site [chemical binding]; other site 640510004406 Putative membrane peptidase family (DUF2324); Region: DUF2324; cl01810 640510004407 Protein of unknown function (DUF3022); Region: DUF3022; pfam11226 640510004408 PGDYG protein; Region: PGDYG; pfam14083 640510004409 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 640510004410 Helix-turn-helix domains; Region: HTH; cl00088 640510004411 LysR family transcriptional regulator; Provisional; Region: PRK14997 640510004412 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 640510004413 putative effector binding pocket; other site 640510004414 putative dimerization interface [polypeptide binding]; other site 640510004415 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 640510004416 Helix-turn-helix domains; Region: HTH; cl00088 640510004417 AsnC family; Region: AsnC_trans_reg; pfam01037 640510004418 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 640510004419 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510004420 AAA domain; Region: AAA_33; pfam13671 640510004421 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510004422 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 640510004423 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 640510004424 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 640510004425 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640510004426 ligand binding site [chemical binding]; other site 640510004427 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 640510004428 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 640510004429 Walker A/P-loop; other site 640510004430 ATP binding site [chemical binding]; other site 640510004431 Q-loop/lid; other site 640510004432 ABC transporter signature motif; other site 640510004433 Walker B; other site 640510004434 D-loop; other site 640510004435 H-loop/switch region; other site 640510004436 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 640510004437 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 640510004438 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 640510004439 TM-ABC transporter signature motif; other site 640510004440 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640510004441 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640510004442 DNA binding site [nucleotide binding] 640510004443 domain linker motif; other site 640510004444 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 640510004445 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 640510004446 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 640510004447 substrate binding site [chemical binding]; other site 640510004448 dimer interface [polypeptide binding]; other site 640510004449 ATP binding site [chemical binding]; other site 640510004450 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 640510004451 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 640510004452 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 640510004453 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640510004454 dimer interface [polypeptide binding]; other site 640510004455 putative CheW interface [polypeptide binding]; other site 640510004456 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 640510004457 PrkA family serine protein kinase; Provisional; Region: PRK15455 640510004458 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510004459 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 640510004460 Uncharacterized conserved protein [Function unknown]; Region: COG2718 640510004461 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 640510004462 SpoVR family protein; Provisional; Region: PRK11767 640510004463 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 640510004464 Protein of unknown function (DUF3620); Region: DUF3620; cl02233 640510004465 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 640510004466 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510004467 putative substrate translocation pore; other site 640510004468 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 640510004469 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 640510004470 active site 640510004471 transcriptional regulator; Provisional; Region: PRK10632 640510004472 Helix-turn-helix domains; Region: HTH; cl00088 640510004473 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 640510004474 putative effector binding pocket; other site 640510004475 dimerization interface [polypeptide binding]; other site 640510004476 putative transporter; Provisional; Region: PRK10504 640510004477 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510004478 putative substrate translocation pore; other site 640510004479 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 640510004480 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 640510004481 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640510004482 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640510004483 Cytochrome c; Region: Cytochrom_C; cl11414 640510004484 Protein of unknown function (DUF421); Region: DUF421; cl00990 640510004485 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510004486 putative transporter; Provisional; Region: PRK10504 640510004487 putative substrate translocation pore; other site 640510004488 Predicted integral membrane protein [Function unknown]; Region: COG0392 640510004489 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 640510004490 Uncharacterized conserved protein [Function unknown]; Region: COG2898 640510004491 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 640510004492 Type IV secretory pathway, VirJ component [Intracellular trafficking and secretion]; Region: VirJ; COG3946 640510004493 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 640510004494 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 640510004495 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 640510004496 AMP-binding enzyme; Region: AMP-binding; cl15778 640510004497 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 640510004498 Phosphopantetheine attachment site; Region: PP-binding; cl09936 640510004499 exosortase A system-associated hydrolase 2; Region: hydr2_PEP; TIGR03101 640510004500 exosortase A system-associated hydrolase 1; Region: hydr1_PEP; TIGR03100 640510004501 threonine dehydratase; Reviewed; Region: PRK09224 640510004502 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 640510004503 tetramer interface [polypeptide binding]; other site 640510004504 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510004505 catalytic residue [active] 640510004506 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 640510004507 putative Ile/Val binding site [chemical binding]; other site 640510004508 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 640510004509 putative Ile/Val binding site [chemical binding]; other site 640510004510 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 640510004511 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510004512 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 640510004513 DNA-binding transcriptional regulator KdgR; Provisional; Region: PRK15090 640510004514 Helix-turn-helix domains; Region: HTH; cl00088 640510004515 Bacterial transcriptional regulator; Region: IclR; pfam01614 640510004516 2-deoxy-D-gluconate 3-dehydrogenase; Region: kduD; TIGR01832 640510004517 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 640510004518 NADP binding site [chemical binding]; other site 640510004519 homodimer interface [polypeptide binding]; other site 640510004520 active site 640510004521 KduI/IolB family; Region: KduI; cl01508 640510004522 2-keto-3-deoxygluconate permease; Region: KdgT; cl14653 640510004523 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640510004524 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 640510004525 tetramerization interface [polypeptide binding]; other site 640510004526 NAD(P) binding site [chemical binding]; other site 640510004527 catalytic residues [active] 640510004528 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 640510004529 DNA-binding site [nucleotide binding]; DNA binding site 640510004530 RNA-binding motif; other site 640510004531 hopanoid biosynthesis associated radical SAM protein HpnJ; Region: HpnJ; TIGR03471 640510004532 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 640510004533 B12 binding site [chemical binding]; other site 640510004534 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 640510004535 FeS/SAM binding site; other site 640510004536 hopanoid biosynthesis associated glycosyl transferase protein HpnI; Region: HpnI; TIGR03472 640510004537 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 640510004538 ligand binding site; other site 640510004539 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 640510004540 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 640510004541 dimer interface [polypeptide binding]; other site 640510004542 phosphorylation site [posttranslational modification] 640510004543 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510004544 ATP binding site [chemical binding]; other site 640510004545 Mg2+ binding site [ion binding]; other site 640510004546 G-X-G motif; other site 640510004547 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 640510004548 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510004549 active site 640510004550 phosphorylation site [posttranslational modification] 640510004551 intermolecular recognition site; other site 640510004552 dimerization interface [polypeptide binding]; other site 640510004553 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 640510004554 DNA binding site [nucleotide binding] 640510004555 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 640510004556 ligand binding site; other site 640510004557 Glycosyl transferase family 21; Region: Glyco_transf_21; pfam13506 640510004558 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 640510004559 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 640510004560 NMT1-like family; Region: NMT1_2; cl15260 640510004561 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 640510004562 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510004563 NAD(P) binding site [chemical binding]; other site 640510004564 active site 640510004565 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 640510004566 Helix-turn-helix domains; Region: HTH; cl00088 640510004567 The 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 640510004568 dimerization interface [polypeptide binding]; other site 640510004569 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 640510004570 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 640510004571 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640510004572 catalytic residue [active] 640510004573 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 640510004574 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 640510004575 active site 640510004576 motif I; other site 640510004577 motif II; other site 640510004578 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 640510004579 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 640510004580 DNA-K related protein; Region: DUF3731; pfam12531 640510004581 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 640510004582 Domain of unknown function (DUF2760); Region: DUF2760; pfam10816 640510004583 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 640510004584 intersubunit interface [polypeptide binding]; other site 640510004585 active site 640510004586 catalytic residue [active] 640510004587 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 640510004588 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 640510004589 substrate binding site [chemical binding]; other site 640510004590 dimer interface [polypeptide binding]; other site 640510004591 ATP binding site [chemical binding]; other site 640510004592 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 640510004593 TM-ABC transporter signature motif; other site 640510004594 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 640510004595 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640510004596 ligand binding site [chemical binding]; other site 640510004597 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 640510004598 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510004599 Walker A/P-loop; other site 640510004600 ATP binding site [chemical binding]; other site 640510004601 Q-loop/lid; other site 640510004602 ABC transporter signature motif; other site 640510004603 Walker B; other site 640510004604 D-loop; other site 640510004605 H-loop/switch region; other site 640510004606 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 640510004607 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 640510004608 TM-ABC transporter signature motif; other site 640510004609 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 640510004610 Helix-turn-helix domains; Region: HTH; cl00088 640510004611 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 640510004612 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 640510004613 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 640510004614 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 640510004615 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640510004616 putative ADP-binding pocket [chemical binding]; other site 640510004617 phosphoglycolate phosphatase, TA0175-type; Region: Pglycolate_arch; TIGR01487 640510004618 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 640510004619 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 640510004620 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 640510004621 DNA binding site [nucleotide binding] 640510004622 Predicted ATPase [General function prediction only]; Region: COG3903 640510004623 TOMM system kinase/cyclase fusion protein; Region: TOMM_kin_cyc; TIGR03903 640510004624 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510004625 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640510004626 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510004627 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 640510004628 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640510004629 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 640510004630 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 640510004631 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 640510004632 active site 640510004633 Mechanosensitive ion channel; Region: MS_channel; pfam00924 640510004634 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 640510004635 ligand binding site [chemical binding]; other site 640510004636 flexible hinge region; other site 640510004637 Protein of unknown function (DUF1427); Region: DUF1427; cl01771 640510004638 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 640510004639 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 640510004640 ligand binding site [chemical binding]; other site 640510004641 flexible hinge region; other site 640510004642 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 640510004643 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510004644 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 640510004645 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 640510004646 DNA binding site [nucleotide binding] 640510004647 Predicted ATPase [General function prediction only]; Region: COG3903 640510004648 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 640510004649 Helix-turn-helix domains; Region: HTH; cl00088 640510004650 The 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 640510004651 dimerization interface [polypeptide binding]; other site 640510004652 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 640510004653 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 640510004654 Helix-turn-helix domains; Region: HTH; cl00088 640510004655 The 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 640510004656 dimerization interface [polypeptide binding]; other site 640510004657 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 640510004658 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510004659 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510004660 D-galactonate transporter; Region: 2A0114; TIGR00893 640510004661 putative substrate translocation pore; other site 640510004662 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510004663 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 640510004664 Integral membrane protein TerC family; Region: TerC; cl10468 640510004665 Helix-turn-helix domains; Region: HTH; cl00088 640510004666 The 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 640510004667 dimerization interface [polypeptide binding]; other site 640510004668 putative aminotransferase; Validated; Region: PRK07480 640510004669 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 640510004670 inhibitor-cofactor binding pocket; inhibition site 640510004671 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510004672 catalytic residue [active] 640510004673 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 640510004674 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 640510004675 Peptidase C26; Region: Peptidase_C26; pfam07722 640510004676 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 640510004677 catalytic triad [active] 640510004678 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 640510004679 trimer interface [polypeptide binding]; other site 640510004680 active site 640510004681 substrate binding site [chemical binding]; other site 640510004682 CoA binding site [chemical binding]; other site 640510004683 Domain of unknown function (DUF1924); Region: DUF1924; pfam09086 640510004684 Dihaem cytochrome c; Region: DHC; pfam09626 640510004685 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 640510004686 DNA-binding transcriptional regulator QseB; Provisional; Region: PRK10336 640510004687 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510004688 active site 640510004689 phosphorylation site [posttranslational modification] 640510004690 intermolecular recognition site; other site 640510004691 dimerization interface [polypeptide binding]; other site 640510004692 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 640510004693 DNA binding site [nucleotide binding] 640510004694 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 640510004695 dimer interface [polypeptide binding]; other site 640510004696 phosphorylation site [posttranslational modification] 640510004697 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510004698 ATP binding site [chemical binding]; other site 640510004699 Mg2+ binding site [ion binding]; other site 640510004700 G-X-G motif; other site 640510004701 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 640510004702 Cupin domain; Region: Cupin_2; cl09118 640510004703 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 640510004704 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510004705 putative substrate translocation pore; other site 640510004706 Transglycosylase; Region: Transgly; cl07896 640510004707 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 640510004708 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 640510004709 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 640510004710 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 640510004711 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510004712 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 640510004713 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 640510004714 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 640510004715 putative C-terminal domain interface [polypeptide binding]; other site 640510004716 putative GSH binding site (G-site) [chemical binding]; other site 640510004717 putative dimer interface [polypeptide binding]; other site 640510004718 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 640510004719 putative N-terminal domain interface [polypeptide binding]; other site 640510004720 putative dimer interface [polypeptide binding]; other site 640510004721 putative substrate binding pocket (H-site) [chemical binding]; other site 640510004722 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640510004723 Helix-turn-helix domains; Region: HTH; cl00088 640510004724 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 640510004725 dimerization interface [polypeptide binding]; other site 640510004726 substrate binding pocket [chemical binding]; other site 640510004727 choline dehydrogenase; Validated; Region: PRK02106 640510004728 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 640510004729 galactonate dehydratase; Provisional; Region: PRK14017 640510004730 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 640510004731 active site pocket [active] 640510004732 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510004733 Escherichia coli lactaldehyde dehydrogenase AldA-like; Region: ALDH_LactADH-AldA; cd07088 640510004734 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640510004735 NAD binding site [chemical binding]; other site 640510004736 catalytic residues [active] 640510004737 substrate binding site [chemical binding]; other site 640510004738 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 640510004739 nitrite extrusion protein (nitrite facilitator); Region: 2A0108; TIGR00886 640510004740 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510004741 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 640510004742 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 640510004743 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 640510004744 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 640510004745 MOSC domain; Region: MOSC; pfam03473 640510004746 Domain of unknown function (DUF336); Region: DUF336; cl01249 640510004747 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 640510004748 active site 640510004749 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 640510004750 active site 640510004751 tetramer interface; other site 640510004752 OpgC protein; Region: OpgC_C; cl00792 640510004753 Acyltransferase family; Region: Acyl_transf_3; pfam01757 640510004754 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640510004755 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 640510004756 putative ADP-binding pocket [chemical binding]; other site 640510004757 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640510004758 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 640510004759 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 640510004760 MatE; Region: MatE; cl10513 640510004761 OpgC protein; Region: OpgC_C; cl00792 640510004762 Acyltransferase family; Region: Acyl_transf_3; pfam01757 640510004763 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 640510004764 active site 640510004765 catalytic triad [active] 640510004766 oxyanion hole [active] 640510004767 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 640510004768 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 640510004769 NADP-binding site; other site 640510004770 homotetramer interface [polypeptide binding]; other site 640510004771 substrate binding site [chemical binding]; other site 640510004772 homodimer interface [polypeptide binding]; other site 640510004773 active site 640510004774 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 640510004775 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 640510004776 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 640510004777 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 640510004778 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 640510004779 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 640510004780 DXD motif; other site 640510004781 tyrosine kinase; Provisional; Region: PRK11519 640510004782 Chain length determinant protein; Region: Wzz; cl15801 640510004783 Chain length determinant protein; Region: Wzz; cl15801 640510004784 Angiomotin C terminal; Region: Angiomotin_C; pfam12240 640510004785 Chain length determinant protein; Region: Wzz; cl15801 640510004786 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 640510004787 P-loop; other site 640510004788 Magnesium ion binding site [ion binding]; other site 640510004789 polysaccharide export protein Wza; Provisional; Region: PRK15078 640510004790 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 640510004791 SLBB domain; Region: SLBB; pfam10531 640510004792 Low molecular weight phosphatase family; Region: LMWPc; cd00115 640510004793 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 640510004794 active site 640510004795 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 640510004796 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510004797 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 640510004798 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510004799 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 640510004800 Bacterial sugar transferase; Region: Bac_transf; cl00939 640510004801 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 640510004802 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 640510004803 Substrate binding site; other site 640510004804 Cupin domain; Region: Cupin_2; cl09118 640510004805 DDE superfamily endonuclease; Region: DDE_4; cl15789 640510004806 YCII-related domain; Region: YCII; cl00999 640510004807 psiF repeat; Region: PsiF_repeat; pfam07769 640510004808 psiF repeat; Region: PsiF_repeat; pfam07769 640510004809 Domain of unknown function DUF221; Region: DUF221; pfam02714 640510004810 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 640510004811 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 640510004812 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640510004813 putative ADP-binding pocket [chemical binding]; other site 640510004814 Predicted ATPase [General function prediction only]; Region: COG4637 640510004815 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510004816 Walker A/P-loop; other site 640510004817 ATP binding site [chemical binding]; other site 640510004818 Q-loop/lid; other site 640510004819 ABC transporter signature motif; other site 640510004820 Walker B; other site 640510004821 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 640510004822 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 640510004823 active site 640510004824 homotetramer interface [polypeptide binding]; other site 640510004825 Mechanosensitive ion channel; Region: MS_channel; pfam00924 640510004826 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 640510004827 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 640510004828 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 640510004829 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 640510004830 active site 640510004831 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 640510004832 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 640510004833 DNA polymerase III subunit delta'; Validated; Region: PRK06964 640510004834 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510004835 thymidylate kinase; Validated; Region: tmk; PRK00698 640510004836 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 640510004837 TMP-binding site; other site 640510004838 ATP-binding site [chemical binding]; other site 640510004839 YceG-like family; Region: YceG; pfam02618 640510004840 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 640510004841 dimerization interface [polypeptide binding]; other site 640510004842 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 640510004843 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 640510004844 NRDE protein; Region: NRDE; cl01315 640510004845 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 640510004846 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 640510004847 substrate binding pocket [chemical binding]; other site 640510004848 hypothetical protein; Provisional; Region: PRK06194 640510004849 classical (c) SDRs; Region: SDR_c; cd05233 640510004850 NAD(P) binding site [chemical binding]; other site 640510004851 active site 640510004852 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 640510004853 Prostaglandin dehydrogenases; Region: PGDH; cd05288 640510004854 NAD(P) binding site [chemical binding]; other site 640510004855 substrate binding site [chemical binding]; other site 640510004856 dimer interface [polypeptide binding]; other site 640510004857 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 640510004858 CoenzymeA binding site [chemical binding]; other site 640510004859 subunit interaction site [polypeptide binding]; other site 640510004860 PHB binding site; other site 640510004861 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 640510004862 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510004863 DNA-binding site [nucleotide binding]; DNA binding site 640510004864 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 640510004865 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510004866 homodimer interface [polypeptide binding]; other site 640510004867 catalytic residue [active] 640510004868 Late embryogenesis abundant protein; Region: LEA_2; cl12118 640510004869 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 640510004870 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 640510004871 dimer interface [polypeptide binding]; other site 640510004872 active site 640510004873 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 640510004874 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 640510004875 substrate binding site [chemical binding]; other site 640510004876 oxyanion hole (OAH) forming residues; other site 640510004877 trimer interface [polypeptide binding]; other site 640510004878 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510004879 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 640510004880 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 640510004881 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 640510004882 AMP-binding enzyme; Region: AMP-binding; cl15778 640510004883 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 640510004884 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 640510004885 Uncharacterized ACR, YdiU/UPF0061 family; Region: UPF0061; pfam02696 640510004886 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 640510004887 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 640510004888 Intracellular septation protein A; Region: IspA; cl01098 640510004889 BolA-like protein; Region: BolA; cl00386 640510004890 SurA N-terminal domain; Region: SurA_N_3; cl07813 640510004891 PPIC-type PPIASE domain; Region: Rotamase; cl08278 640510004892 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 640510004893 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 640510004894 dimerization interface [polypeptide binding]; other site 640510004895 ATP binding site [chemical binding]; other site 640510004896 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 640510004897 dimerization interface [polypeptide binding]; other site 640510004898 ATP binding site [chemical binding]; other site 640510004899 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 640510004900 putative active site [active] 640510004901 catalytic triad [active] 640510004902 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 640510004903 putative carbohydrate kinase; Provisional; Region: PRK10565 640510004904 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 640510004905 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 640510004906 putative substrate binding site [chemical binding]; other site 640510004907 putative ATP binding site [chemical binding]; other site 640510004908 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 640510004909 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 640510004910 active site 640510004911 dimer interface [polypeptide binding]; other site 640510004912 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 640510004913 dimer interface [polypeptide binding]; other site 640510004914 active site 640510004915 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 640510004916 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 640510004917 Walker A/P-loop; other site 640510004918 ATP binding site [chemical binding]; other site 640510004919 Q-loop/lid; other site 640510004920 ABC transporter signature motif; other site 640510004921 Walker B; other site 640510004922 D-loop; other site 640510004923 H-loop/switch region; other site 640510004924 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 640510004925 active site 640510004926 catalytic triad [active] 640510004927 oxyanion hole [active] 640510004928 switch loop; other site 640510004929 SurA N-terminal domain; Region: SurA_N_3; cl07813 640510004930 periplasmic folding chaperone; Provisional; Region: PRK10788 640510004931 PPIC-type PPIASE domain; Region: Rotamase; cl08278 640510004932 PPIC-type PPIASE domain; Region: Rotamase; cl08278 640510004933 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 640510004934 IHF dimer interface [polypeptide binding]; other site 640510004935 IHF - DNA interface [nucleotide binding]; other site 640510004936 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 640510004937 Found in ATP-dependent protease La (LON); Region: LON; smart00464 640510004938 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 640510004939 Walker A motif; other site 640510004940 ATP binding site [chemical binding]; other site 640510004941 Walker B motif; other site 640510004942 arginine finger; other site 640510004943 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 640510004944 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 640510004945 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 640510004946 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 640510004947 Walker A motif; other site 640510004948 ATP binding site [chemical binding]; other site 640510004949 Walker B motif; other site 640510004950 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 640510004951 Clp protease; Region: CLP_protease; pfam00574 640510004952 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 640510004953 oligomer interface [polypeptide binding]; other site 640510004954 active site residues [active] 640510004955 trigger factor; Provisional; Region: tig; PRK01490 640510004956 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 640510004957 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 640510004958 Glycerate kinase family; Region: Gly_kinase; cl00841 640510004959 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640510004960 Helix-turn-helix domains; Region: HTH; cl00088 640510004961 Helix-turn-helix domains; Region: HTH; cl00088 640510004962 Protein of unknown function (DUF3999); Region: DUF3999; pfam13163 640510004963 Protein of unknown function (DUF3999); Region: DUF3999; pfam13163 640510004964 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 640510004965 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 640510004966 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 640510004967 active site lid residues [active] 640510004968 substrate binding pocket [chemical binding]; other site 640510004969 catalytic residues [active] 640510004970 substrate-Mg2+ binding site; other site 640510004971 aspartate-rich region 1; other site 640510004972 aspartate-rich region 2; other site 640510004973 osmolarity response regulator; Provisional; Region: ompR; PRK09468 640510004974 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510004975 active site 640510004976 phosphorylation site [posttranslational modification] 640510004977 intermolecular recognition site; other site 640510004978 dimerization interface [polypeptide binding]; other site 640510004979 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 640510004980 DNA binding site [nucleotide binding] 640510004981 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 640510004982 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 640510004983 dimer interface [polypeptide binding]; other site 640510004984 phosphorylation site [posttranslational modification] 640510004985 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510004986 ATP binding site [chemical binding]; other site 640510004987 Mg2+ binding site [ion binding]; other site 640510004988 G-X-G motif; other site 640510004989 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 640510004990 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 640510004991 dimer interface [polypeptide binding]; other site 640510004992 decamer (pentamer of dimers) interface [polypeptide binding]; other site 640510004993 catalytic triad [active] 640510004994 peroxidatic and resolving cysteines [active] 640510004995 alkylhydroperoxidase, AhpD family; Region: ahpD; TIGR00777 640510004996 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 640510004997 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 640510004998 homotrimer interaction site [polypeptide binding]; other site 640510004999 zinc binding site [ion binding]; other site 640510005000 CDP-binding sites; other site 640510005001 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 640510005002 substrate binding site; other site 640510005003 dimer interface; other site 640510005004 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 640510005005 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 640510005006 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 640510005007 ATP binding site [chemical binding]; other site 640510005008 putative Mg++ binding site [ion binding]; other site 640510005009 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 640510005010 nucleotide binding region [chemical binding]; other site 640510005011 ATP-binding site [chemical binding]; other site 640510005012 TRCF domain; Region: TRCF; cl04088 640510005013 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 640510005014 acetylornithine deacetylase (ArgE); Region: AcOrn-deacetyl; TIGR01892 640510005015 metal binding site [ion binding]; metal-binding site 640510005016 putative dimer interface [polypeptide binding]; other site 640510005017 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 640510005018 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 640510005019 tetramer interface [polypeptide binding]; other site 640510005020 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510005021 catalytic residue [active] 640510005022 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 640510005023 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 640510005024 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 640510005025 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510005026 active site 640510005027 phosphorylation site [posttranslational modification] 640510005028 intermolecular recognition site; other site 640510005029 dimerization interface [polypeptide binding]; other site 640510005030 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 640510005031 PAS fold; Region: PAS_3; pfam08447 640510005032 putative active site [active] 640510005033 heme pocket [chemical binding]; other site 640510005034 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 640510005035 dimer interface [polypeptide binding]; other site 640510005036 phosphorylation site [posttranslational modification] 640510005037 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510005038 ATP binding site [chemical binding]; other site 640510005039 Mg2+ binding site [ion binding]; other site 640510005040 G-X-G motif; other site 640510005041 Response regulator receiver domain; Region: Response_reg; pfam00072 640510005042 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510005043 active site 640510005044 phosphorylation site [posttranslational modification] 640510005045 intermolecular recognition site; other site 640510005046 dimerization interface [polypeptide binding]; other site 640510005047 Response regulator receiver domain; Region: Response_reg; pfam00072 640510005048 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510005049 active site 640510005050 phosphorylation site [posttranslational modification] 640510005051 intermolecular recognition site; other site 640510005052 dimerization interface [polypeptide binding]; other site 640510005053 CHASE3 domain; Region: CHASE3; cl05000 640510005054 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640510005055 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 640510005056 dimer interface [polypeptide binding]; other site 640510005057 phosphorylation site [posttranslational modification] 640510005058 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510005059 ATP binding site [chemical binding]; other site 640510005060 Mg2+ binding site [ion binding]; other site 640510005061 G-X-G motif; other site 640510005062 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 640510005063 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 640510005064 AsmA-like C-terminal region; Region: AsmA_2; cl15864 640510005065 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4619 640510005066 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510005067 Walker A/P-loop; other site 640510005068 ATP binding site [chemical binding]; other site 640510005069 Q-loop/lid; other site 640510005070 ABC transporter signature motif; other site 640510005071 Walker B; other site 640510005072 D-loop; other site 640510005073 H-loop/switch region; other site 640510005074 Uncharacterized protein family (UPF0014); Region: UPF0014; cl00424 640510005075 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 640510005076 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 640510005077 putative NAD(P) binding site [chemical binding]; other site 640510005078 dimer interface [polypeptide binding]; other site 640510005079 transcriptional activator TtdR; Provisional; Region: PRK09801 640510005080 Helix-turn-helix domains; Region: HTH; cl00088 640510005081 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 640510005082 putative effector binding pocket; other site 640510005083 dimerization interface [polypeptide binding]; other site 640510005084 DNA polymerase Ligase (LigD); Region: LigD_N; cl11819 640510005085 DNA polymerase LigD, ligase domain; Region: NHEJ_ligase_lig; TIGR02779 640510005086 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 640510005087 active site 640510005088 DNA binding site [nucleotide binding] 640510005089 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 640510005090 DNA binding site [nucleotide binding] 640510005091 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 640510005092 nucleotide binding site [chemical binding]; other site 640510005093 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 640510005094 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 640510005095 putative DNA binding site [nucleotide binding]; other site 640510005096 putative homodimer interface [polypeptide binding]; other site 640510005097 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 640510005098 Domain of unknown function (DUF4072); Region: DUF4072; pfam13284 640510005099 phosphoserine phosphatase SerB; Region: serB; TIGR00338 640510005100 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 640510005101 motif II; other site 640510005102 cystathionine beta-lyase; Provisional; Region: PRK07050 640510005103 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 640510005104 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640510005105 catalytic residue [active] 640510005106 beta-ketothiolase; Provisional; Region: PRK09051 640510005107 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 640510005108 dimer interface [polypeptide binding]; other site 640510005109 active site 640510005110 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 640510005111 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 640510005112 substrate binding site [chemical binding]; other site 640510005113 ATP binding site [chemical binding]; other site 640510005114 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 640510005115 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 640510005116 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 640510005117 catalytic residues [active] 640510005118 catalytic nucleophile [active] 640510005119 Recombinase; Region: Recombinase; pfam07508 640510005120 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 640510005121 Predicted transcriptional regulator [Transcription]; Region: COG4190 640510005122 Helix-turn-helix domains; Region: HTH; cl00088 640510005123 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 640510005124 PAAR motif; Region: PAAR_motif; cl15808 640510005125 Protein of unknown function DUF72; Region: DUF72; cl00777 640510005126 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 640510005127 active site 640510005128 DNA binding site [nucleotide binding] 640510005129 DNA ligase D; Region: NHEJ_ligase_prk; TIGR02776 640510005130 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 640510005131 DNA binding site [nucleotide binding] 640510005132 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 640510005133 nucleotide binding site [chemical binding]; other site 640510005134 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 640510005135 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 640510005136 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3440 640510005137 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 640510005138 Predicted ATP-binding protein involved in virulence [General function prediction only]; Region: COG3950 640510005139 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510005140 EcoKI restriction-modification system protein HsdS; Provisional; Region: PRK09737 640510005141 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 640510005142 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 640510005143 HsdM N-terminal domain; Region: HsdM_N; pfam12161 640510005144 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 640510005145 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 640510005146 type I restriction enzyme EcoKI subunit R; Provisional; Region: hsdR; PRK11448 640510005147 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 640510005148 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 640510005149 ATP binding site [chemical binding]; other site 640510005150 putative Mg++ binding site [ion binding]; other site 640510005151 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 640510005152 nucleotide binding region [chemical binding]; other site 640510005153 ATP-binding site [chemical binding]; other site 640510005154 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 640510005155 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 640510005156 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 640510005157 active site 640510005158 metal binding site [ion binding]; metal-binding site 640510005159 interdomain interaction site; other site 640510005160 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510005161 Walker A motif; other site 640510005162 ATP binding site [chemical binding]; other site 640510005163 Walker B motif; other site 640510005164 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 640510005165 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 640510005166 Domain of unknown function (DUF4325); Region: DUF4325; pfam14213 640510005167 Histidine kinase-like ATPases; This family includes several ATP-binding 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 640510005168 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 640510005169 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 640510005170 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 640510005171 acetyacetyl-CoA reductase; Provisional; Region: PRK12938 640510005172 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 640510005173 NAD(P) binding site [chemical binding]; other site 640510005174 homotetramer interface [polypeptide binding]; other site 640510005175 homodimer interface [polypeptide binding]; other site 640510005176 active site 640510005177 putative acyltransferase; Provisional; Region: PRK05790 640510005178 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 640510005179 dimer interface [polypeptide binding]; other site 640510005180 active site 640510005181 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 640510005182 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 640510005183 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 640510005184 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 640510005185 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 640510005186 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 640510005187 RNA binding surface [nucleotide binding]; other site 640510005188 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 640510005189 active site 640510005190 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 640510005191 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 640510005192 TRAM domain; Region: TRAM; cl01282 640510005193 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 640510005194 S-adenosylmethionine binding site [chemical binding]; other site 640510005195 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 640510005196 active site 640510005197 catalytic site [active] 640510005198 substrate binding site [chemical binding]; other site 640510005199 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 640510005200 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 640510005201 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 640510005202 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640510005203 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 640510005204 DNA binding residues [nucleotide binding] 640510005205 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 640510005206 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 640510005207 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 640510005208 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 640510005209 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 640510005210 S-adenosylmethionine binding site [chemical binding]; other site 640510005211 Survival protein SurE; Region: SurE; cl00448 640510005212 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 640510005213 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 640510005214 NAD(P) binding site [chemical binding]; other site 640510005215 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 640510005216 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510005217 dimer interface [polypeptide binding]; other site 640510005218 conserved gate region; other site 640510005219 putative PBP binding loops; other site 640510005220 ABC-ATPase subunit interface; other site 640510005221 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 640510005222 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 640510005223 Walker A/P-loop; other site 640510005224 ATP binding site [chemical binding]; other site 640510005225 Q-loop/lid; other site 640510005226 ABC transporter signature motif; other site 640510005227 Walker B; other site 640510005228 D-loop; other site 640510005229 H-loop/switch region; other site 640510005230 NMT1-like family; Region: NMT1_2; cl15260 640510005231 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 640510005232 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 640510005233 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640510005234 recombination protein RecR; Reviewed; Region: recR; PRK00076 640510005235 RecR protein; Region: RecR; pfam02132 640510005236 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 640510005237 putative active site [active] 640510005238 putative metal-binding site [ion binding]; other site 640510005239 tetramer interface [polypeptide binding]; other site 640510005240 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 640510005241 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 640510005242 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 640510005243 Walker A motif; other site 640510005244 ATP binding site [chemical binding]; other site 640510005245 Walker B motif; other site 640510005246 arginine finger; other site 640510005247 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 640510005248 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07003 640510005249 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 640510005250 catalytic residues [active] 640510005251 transcription termination factor Rho; Provisional; Region: rho; PRK09376 640510005252 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 640510005253 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 640510005254 RNA binding site [nucleotide binding]; other site 640510005255 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 640510005256 multimer interface [polypeptide binding]; other site 640510005257 Walker A motif; other site 640510005258 ATP binding site [chemical binding]; other site 640510005259 Walker B motif; other site 640510005260 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 640510005261 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 640510005262 DNA binding residues [nucleotide binding] 640510005263 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510005264 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 640510005265 putative substrate translocation pore; other site 640510005266 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; cl01267 640510005267 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 640510005268 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 640510005269 multidrug efflux protein; Reviewed; Region: PRK01766 640510005270 MatE; Region: MatE; cl10513 640510005271 MatE; Region: MatE; cl10513 640510005272 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 640510005273 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 640510005274 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 640510005275 DNA binding residues [nucleotide binding] 640510005276 putative dimer interface [polypeptide binding]; other site 640510005277 Protein of unknown function, DUF655; Region: DUF655; pfam04919 640510005278 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 640510005279 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 640510005280 Clp amino terminal domain; Region: Clp_N; pfam02861 640510005281 Clp amino terminal domain; Region: Clp_N; pfam02861 640510005282 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 640510005283 Walker A motif; other site 640510005284 ATP binding site [chemical binding]; other site 640510005285 Walker B motif; other site 640510005286 arginine finger; other site 640510005287 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 640510005288 Walker A motif; other site 640510005289 ATP binding site [chemical binding]; other site 640510005290 Walker B motif; other site 640510005291 arginine finger; other site 640510005292 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 640510005293 Helix-turn-helix domains; Region: HTH; cl00088 640510005294 Rrf2 family protein; Region: rrf2_super; TIGR00738 640510005295 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 640510005296 apolar tunnel; other site 640510005297 heme binding site [chemical binding]; other site 640510005298 dimerization interface [polypeptide binding]; other site 640510005299 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 640510005300 MoaE homodimer interface [polypeptide binding]; other site 640510005301 MoaD interaction [polypeptide binding]; other site 640510005302 active site residues [active] 640510005303 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 640510005304 MoaE interaction surface [polypeptide binding]; other site 640510005305 MoeB interaction surface [polypeptide binding]; other site 640510005306 thiocarboxylated glycine; other site 640510005307 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 640510005308 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 640510005309 dimer interface [polypeptide binding]; other site 640510005310 putative functional site; other site 640510005311 putative MPT binding site; other site 640510005312 Transposase; Region: DEDD_Tnp_IS110; pfam01548 640510005313 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 640510005314 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 640510005315 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 640510005316 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510005317 catalytic residue [active] 640510005318 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510005319 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 640510005320 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 640510005321 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 640510005322 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 640510005323 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510005324 homodimer interface [polypeptide binding]; other site 640510005325 catalytic residue [active] 640510005326 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 640510005327 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 640510005328 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 640510005329 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 640510005330 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 640510005331 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 640510005332 inhibitor-cofactor binding pocket; inhibition site 640510005333 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510005334 catalytic residue [active] 640510005335 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 640510005336 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 640510005337 Ligand binding site; other site 640510005338 Putative Catalytic site; other site 640510005339 DXD motif; other site 640510005340 putative formyltransferase; Provisional; Region: PRK06988 640510005341 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 640510005342 active site 640510005343 substrate binding site [chemical binding]; other site 640510005344 cosubstrate binding site; other site 640510005345 catalytic site [active] 640510005346 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 640510005347 active site 640510005348 hexamer interface [polypeptide binding]; other site 640510005349 NAD-dependent epimerase/dehydratase family protein; Provisional; Region: PRK11908 640510005350 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 640510005351 NAD binding site [chemical binding]; other site 640510005352 substrate binding site [chemical binding]; other site 640510005353 active site 640510005354 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 640510005355 Catalytic domain of Escherichia coli 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD and other bacterial homologs; Region: CE4_ArnD; cd10939 640510005356 putative active site [active] 640510005357 putative catalytic site [active] 640510005358 putative Zn binding site [ion binding]; other site 640510005359 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 640510005360 catalytic triad [active] 640510005361 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 640510005362 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 640510005363 putative active site [active] 640510005364 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510005365 NlpC/P60 family; Region: NLPC_P60; cl11438 640510005366 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 640510005367 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 640510005368 putative ribose interaction site [chemical binding]; other site 640510005369 putative ADP binding site [chemical binding]; other site 640510005370 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640510005371 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510005372 NAD(P) binding site [chemical binding]; other site 640510005373 active site 640510005374 Phosphate transporter family; Region: PHO4; cl00396 640510005375 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 640510005376 replicative DNA helicase; Provisional; Region: PRK07004 640510005377 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 640510005378 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 640510005379 Walker A motif; other site 640510005380 ATP binding site [chemical binding]; other site 640510005381 Walker B motif; other site 640510005382 DNA binding loops [nucleotide binding] 640510005383 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 640510005384 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 640510005385 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 640510005386 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 640510005387 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 640510005388 Putative zinc-finger; Region: zf-HC2; cl15806 640510005389 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 640510005390 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 640510005391 RNA polymerase sigma factor; Provisional; Region: PRK11924 640510005392 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640510005393 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 640510005394 DNA binding residues [nucleotide binding] 640510005395 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510005396 Helix-turn-helix domains; Region: HTH; cl00088 640510005397 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 640510005398 putative effector binding pocket; other site 640510005399 dimerization interface [polypeptide binding]; other site 640510005400 glyoxylate carboligase; Provisional; Region: PRK11269 640510005401 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 640510005402 PYR/PP interface [polypeptide binding]; other site 640510005403 dimer interface [polypeptide binding]; other site 640510005404 TPP binding site [chemical binding]; other site 640510005405 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 640510005406 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 640510005407 TPP-binding site [chemical binding]; other site 640510005408 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 640510005409 tartronate semialdehyde reductase; Provisional; Region: PRK15059 640510005410 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510005411 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 640510005412 BON domain; Region: BON; cl02771 640510005413 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 640510005414 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 640510005415 active site 640510005416 homodimer interface [polypeptide binding]; other site 640510005417 homotetramer interface [polypeptide binding]; other site 640510005418 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12683 640510005419 Helix-turn-helix domains; Region: HTH; cl00088 640510005420 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 640510005421 substrate binding site [chemical binding]; other site 640510005422 dimerization interface [polypeptide binding]; other site 640510005423 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 640510005424 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 640510005425 Walker A/P-loop; other site 640510005426 ATP binding site [chemical binding]; other site 640510005427 Q-loop/lid; other site 640510005428 ABC transporter signature motif; other site 640510005429 Walker B; other site 640510005430 D-loop; other site 640510005431 H-loop/switch region; other site 640510005432 TOBE-like domain; Region: TOBE_3; pfam12857 640510005433 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510005434 dimer interface [polypeptide binding]; other site 640510005435 conserved gate region; other site 640510005436 putative PBP binding loops; other site 640510005437 ABC-ATPase subunit interface; other site 640510005438 sulfate transport protein; Provisional; Region: cysT; CHL00187 640510005439 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510005440 dimer interface [polypeptide binding]; other site 640510005441 conserved gate region; other site 640510005442 putative PBP binding loops; other site 640510005443 ABC-ATPase subunit interface; other site 640510005444 The 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 640510005445 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 640510005446 LexA repressor; Validated; Region: PRK00215 640510005447 Helix-turn-helix domains; Region: HTH; cl00088 640510005448 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 640510005449 Catalytic site [active] 640510005450 Protein of unknown function (DUF2939); Region: DUF2939; pfam11159 640510005451 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 640510005452 Ligand Binding Site [chemical binding]; other site 640510005453 nodulation ABC transporter NodI; Provisional; Region: PRK13537 640510005454 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 640510005455 Walker A/P-loop; other site 640510005456 ATP binding site [chemical binding]; other site 640510005457 Q-loop/lid; other site 640510005458 ABC transporter signature motif; other site 640510005459 Walker B; other site 640510005460 D-loop; other site 640510005461 H-loop/switch region; other site 640510005462 ABC-2 type transporter; Region: ABC2_membrane; cl11417 640510005463 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 640510005464 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 640510005465 active site 640510005466 catalytic tetrad [active] 640510005467 Protein of unknown function (DUF3820); Region: DUF3820; cl01411 640510005468 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 640510005469 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 640510005470 FMN binding site [chemical binding]; other site 640510005471 active site 640510005472 catalytic residues [active] 640510005473 substrate binding site [chemical binding]; other site 640510005474 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 640510005475 dimer interface [polypeptide binding]; other site 640510005476 ligand binding site [chemical binding]; other site 640510005477 TOBE domain; Region: TOBE_2; cl01440 640510005478 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 640510005479 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 640510005480 Walker A/P-loop; other site 640510005481 ATP binding site [chemical binding]; other site 640510005482 Q-loop/lid; other site 640510005483 ABC transporter signature motif; other site 640510005484 Walker B; other site 640510005485 D-loop; other site 640510005486 H-loop/switch region; other site 640510005487 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 640510005488 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510005489 dimer interface [polypeptide binding]; other site 640510005490 conserved gate region; other site 640510005491 putative PBP binding loops; other site 640510005492 ABC-ATPase subunit interface; other site 640510005493 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 640510005494 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 640510005495 active site 640510005496 dimer interface [polypeptide binding]; other site 640510005497 non-prolyl cis peptide bond; other site 640510005498 insertion regions; other site 640510005499 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 640510005500 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 640510005501 substrate binding site [chemical binding]; other site 640510005502 oxyanion hole (OAH) forming residues; other site 640510005503 trimer interface [polypeptide binding]; other site 640510005504 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 640510005505 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 640510005506 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 640510005507 Domain of unknown function (DUF336); Region: DUF336; cl01249 640510005508 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 640510005509 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 640510005510 Surface antigen; Region: Bac_surface_Ag; cl03097 640510005511 haemagglutination activity domain; Region: Haemagg_act; cl05436 640510005512 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 640510005513 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 640510005514 Ribosomal protein S27a; Region: Ribosomal_S27; cl00876 640510005515 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 640510005516 nudix motif; other site 640510005517 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 640510005518 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 640510005519 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 640510005520 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 640510005521 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 640510005522 quinone interaction residues [chemical binding]; other site 640510005523 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 640510005524 active site 640510005525 catalytic residues [active] 640510005526 FMN binding site [chemical binding]; other site 640510005527 substrate binding site [chemical binding]; other site 640510005528 cystine transporter subunit; Provisional; Region: PRK11260 640510005529 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 640510005530 substrate binding pocket [chemical binding]; other site 640510005531 membrane-bound complex binding site; other site 640510005532 hinge residues; other site 640510005533 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510005534 dimer interface [polypeptide binding]; other site 640510005535 conserved gate region; other site 640510005536 putative PBP binding loops; other site 640510005537 ABC-ATPase subunit interface; other site 640510005538 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 640510005539 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510005540 Transcriptional regulators [Transcription]; Region: FadR; COG2186 640510005541 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510005542 DNA-binding site [nucleotide binding]; DNA binding site 640510005543 FCD domain; Region: FCD; cl11656 640510005544 Flavin Reductases; Region: FlaRed; cl00801 640510005545 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 640510005546 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 640510005547 S-adenosylmethionine binding site [chemical binding]; other site 640510005548 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 640510005549 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640510005550 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 640510005551 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 640510005552 active site 640510005553 MatE; Region: MatE; cl10513 640510005554 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640510005555 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 640510005556 putative ADP-binding pocket [chemical binding]; other site 640510005557 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 640510005558 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640510005559 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 640510005560 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 640510005561 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 640510005562 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 640510005563 Phosphopantetheine attachment site; Region: PP-binding; cl09936 640510005564 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 640510005565 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640510005566 active site 640510005567 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 640510005568 motif 1; other site 640510005569 dimer interface [polypeptide binding]; other site 640510005570 active site 640510005571 motif 2; other site 640510005572 motif 3; other site 640510005573 Domain of unknown function (DUF1839); Region: DUF1839; pfam08893 640510005574 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 640510005575 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; cl15381 640510005576 Hydrogenase specific C-terminal endopeptidases, also called Hydrogen Maturation Proteases (H2MP). These enzymes belong to the peptidase family M52. Maturation of [FeNi] hydrogenases includes formation of the nickel metallocenter, proteolytic processing...; Region: H2MP; cl00477 640510005577 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 640510005578 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 640510005579 ligand binding site [chemical binding]; other site 640510005580 flexible hinge region; other site 640510005581 Helix-turn-helix domains; Region: HTH; cl00088 640510005582 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 640510005583 Bacterial sugar transferase; Region: Bac_transf; cl00939 640510005584 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 640510005585 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 640510005586 active site 640510005587 polysaccharide export protein Wza; Provisional; Region: PRK15078 640510005588 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 640510005589 tyrosine kinase; Provisional; Region: PRK11519 640510005590 Chain length determinant protein; Region: Wzz; cl15801 640510005591 Chain length determinant protein; Region: Wzz; cl15801 640510005592 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510005593 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 640510005594 Nucleotide binding site [chemical binding]; other site 640510005595 DTAP/Switch II; other site 640510005596 Switch I; other site 640510005597 Predicted transcription regulator containing HTH domain [Transcription]; Region: COG5499 640510005598 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 640510005599 non-specific DNA binding site [nucleotide binding]; other site 640510005600 salt bridge; other site 640510005601 sequence-specific DNA binding site [nucleotide binding]; other site 640510005602 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 640510005603 putative ADP-binding pocket [chemical binding]; other site 640510005604 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 640510005605 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 640510005606 tetramer (dimer of dimers) interface [polypeptide binding]; other site 640510005607 active site 640510005608 dimer interface [polypeptide binding]; other site 640510005609 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 640510005610 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 640510005611 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 640510005612 ribonuclease R; Region: RNase_R; TIGR02063 640510005613 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 640510005614 RNB domain; Region: RNB; pfam00773 640510005615 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 640510005616 RNA binding site [nucleotide binding]; other site 640510005617 integrase; Provisional; Region: PRK09692 640510005618 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 640510005619 active site 640510005620 Int/Topo IB signature motif; other site 640510005621 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 640510005622 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 640510005623 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 640510005624 putative active site [active] 640510005625 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 640510005626 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 640510005627 Nucleotidyltransferase (NT) domain of 2'5'-oligoadenylate (2-5A)synthetase (2-5OAS) and class I CCA-adding enzyme; Region: NT_2-5OAS_ClassI-CCAase; cd05400 640510005628 active site 640510005629 NTP binding site [chemical binding]; other site 640510005630 metal binding triad [ion binding]; metal-binding site 640510005631 WYL domain; Region: WYL; cl14852 640510005632 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 640510005633 Domain of unknown function (DUF4400); Region: DUF4400; cl14023 640510005634 conjugative coupling factor TraD, TOL family; Region: conj_TOL_TraD; TIGR03754 640510005635 Domain of unknown function DUF87; Region: DUF87; pfam01935 640510005636 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 640510005637 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 640510005638 Putative helicase; Region: TraI_2; pfam07514 640510005639 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07003 640510005640 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 640510005641 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 640510005642 N-acetyl-D-glucosamine binding site [chemical binding]; other site 640510005643 catalytic residue [active] 640510005644 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 640510005645 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 640510005646 Walker A motif; other site 640510005647 hexamer interface [polypeptide binding]; other site 640510005648 ATP binding site [chemical binding]; other site 640510005649 Walker B motif; other site 640510005650 Type IV secretory pathway, VirB4 components [Intracellular trafficking and secretion]; Region: VirB4; COG3451 640510005651 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 640510005652 VirB8 protein; Region: VirB8; cl01500 640510005653 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 640510005654 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 640510005655 VirB7 interaction site; other site 640510005656 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 640510005657 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 640510005658 VirB7 interaction site; other site 640510005659 Abortive infection C-terminus; Region: Abi_C; pfam14355 640510005660 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510005661 ACT domain; Region: ACT_3; pfam10000 640510005662 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3602 640510005663 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 640510005664 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 640510005665 non-specific DNA binding site [nucleotide binding]; other site 640510005666 salt bridge; other site 640510005667 sequence-specific DNA binding site [nucleotide binding]; other site 640510005668 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 640510005669 Antirestriction protein; Region: Antirestrict; pfam03230 640510005670 Protein of unknown function (DUF3275); Region: DUF3275; pfam11679 640510005671 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 640510005672 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510005673 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510005674 Protein of unknown function (DUF3085); Region: DUF3085; pfam11284 640510005675 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 640510005676 active site 640510005677 catalytic triad [active] 640510005678 dimer interface [polypeptide binding]; other site 640510005679 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 640510005680 IHF dimer interface [polypeptide binding]; other site 640510005681 IHF - DNA interface [nucleotide binding]; other site 640510005682 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 640510005683 dimer interface [polypeptide binding]; other site 640510005684 ssDNA binding site [nucleotide binding]; other site 640510005685 tetramer (dimer of dimers) interface [polypeptide binding]; other site 640510005686 Domain of unknown function (DUF1845); Region: DUF1845; cl07481 640510005687 integrating conjugative element, PFGI_1 class, ParB family protein; Region: ICE_PFGI_1_parB; TIGR03764 640510005688 ParB-like nuclease domain; Region: ParBc; cl02129 640510005689 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 640510005690 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510005691 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 640510005692 Magnesium ion binding site [ion binding]; other site 640510005693 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 640510005694 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 640510005695 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 640510005696 non-specific DNA binding site [nucleotide binding]; other site 640510005697 salt bridge; other site 640510005698 sequence-specific DNA binding site [nucleotide binding]; other site 640510005699 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 640510005700 Fatty acid desaturase; Region: FA_desaturase; pfam00487 640510005701 putative di-iron ligands [ion binding]; other site 640510005702 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 640510005703 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 640510005704 LysE type translocator; Region: LysE; cl00565 640510005705 chromosome replication initiation inhibitor protein; Provisional; Region: PRK13348 640510005706 Helix-turn-helix domains; Region: HTH; cl00088 640510005707 The 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 640510005708 dimerization interface [polypeptide binding]; other site 640510005709 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 640510005710 FAD binding domain; Region: FAD_binding_4; pfam01565 640510005711 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 640510005712 Cysteine-rich domain; Region: CCG; pfam02754 640510005713 Domain of unknown function (DUF1338); Region: DUF1338; cl02226 640510005714 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640510005715 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 640510005716 tetramerization interface [polypeptide binding]; other site 640510005717 NAD(P) binding site [chemical binding]; other site 640510005718 catalytic residues [active] 640510005719 Cupin domain; Region: Cupin_2; cl09118 640510005720 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 640510005721 putative FMN binding site [chemical binding]; other site 640510005722 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 640510005723 Helix-turn-helix domains; Region: HTH; cl00088 640510005724 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 640510005725 putative dimerization interface [polypeptide binding]; other site 640510005726 Flavin Reductases; Region: FlaRed; cl00801 640510005727 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 640510005728 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 640510005729 active site 640510005730 non-prolyl cis peptide bond; other site 640510005731 metabolite-proton symporter; Region: 2A0106; TIGR00883 640510005732 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510005733 putative substrate translocation pore; other site 640510005734 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640510005735 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510005736 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 640510005737 catalytic triad [active] 640510005738 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 640510005739 trimer interface [polypeptide binding]; other site 640510005740 eyelet of channel; other site 640510005741 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 640510005742 amidohydrolase; Region: amidohydrolases; TIGR01891 640510005743 putative metal binding site [ion binding]; other site 640510005744 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510005745 metabolite-proton symporter; Region: 2A0106; TIGR00883 640510005746 putative substrate translocation pore; other site 640510005747 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 640510005748 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 640510005749 Amidase; Region: Amidase; cl11426 640510005750 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 640510005751 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510005752 dimer interface [polypeptide binding]; other site 640510005753 conserved gate region; other site 640510005754 putative PBP binding loops; other site 640510005755 ABC-ATPase subunit interface; other site 640510005756 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 640510005757 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510005758 dimer interface [polypeptide binding]; other site 640510005759 conserved gate region; other site 640510005760 putative PBP binding loops; other site 640510005761 ABC-ATPase subunit interface; other site 640510005762 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 640510005763 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 640510005764 Walker A/P-loop; other site 640510005765 ATP binding site [chemical binding]; other site 640510005766 Q-loop/lid; other site 640510005767 ABC transporter signature motif; other site 640510005768 Walker B; other site 640510005769 D-loop; other site 640510005770 H-loop/switch region; other site 640510005771 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 640510005772 Walker A/P-loop; other site 640510005773 ATP binding site [chemical binding]; other site 640510005774 Q-loop/lid; other site 640510005775 ABC transporter signature motif; other site 640510005776 Walker B; other site 640510005777 D-loop; other site 640510005778 H-loop/switch region; other site 640510005779 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640510005780 Transposase domain (DUF772); Region: DUF772; pfam05598 640510005781 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 640510005782 DDE superfamily endonuclease; Region: DDE_4; cl15789 640510005783 DDE superfamily endonuclease; Region: DDE_4; cl15789 640510005784 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 640510005785 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 640510005786 The 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 640510005787 chromosome replication initiation inhibitor protein; Provisional; Region: PRK13348 640510005788 Helix-turn-helix domains; Region: HTH; cl00088 640510005789 The 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 640510005790 dimerization interface [polypeptide binding]; other site 640510005791 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 640510005792 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 640510005793 metal binding site [ion binding]; metal-binding site 640510005794 substrate binding pocket [chemical binding]; other site 640510005795 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 640510005796 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 640510005797 substrate binding pocket [chemical binding]; other site 640510005798 membrane-bound complex binding site; other site 640510005799 hinge residues; other site 640510005800 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 640510005801 homotrimer interaction site [polypeptide binding]; other site 640510005802 putative active site [active] 640510005803 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 640510005804 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 640510005805 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 640510005806 FAD dependent oxidoreductase; Region: DAO; pfam01266 640510005807 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 640510005808 Helix-turn-helix domains; Region: HTH; cl00088 640510005809 The 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 640510005810 dimerization interface [polypeptide binding]; other site 640510005811 histidine ABC transporter substrate-binding protein HisJ; Provisional; Region: PRK15437 640510005812 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 640510005813 substrate binding pocket [chemical binding]; other site 640510005814 membrane-bound complex binding site; other site 640510005815 hinge residues; other site 640510005816 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640510005817 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510005818 dimer interface [polypeptide binding]; other site 640510005819 conserved gate region; other site 640510005820 putative PBP binding loops; other site 640510005821 ABC-ATPase subunit interface; other site 640510005822 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640510005823 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510005824 dimer interface [polypeptide binding]; other site 640510005825 conserved gate region; other site 640510005826 putative PBP binding loops; other site 640510005827 ABC-ATPase subunit interface; other site 640510005828 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 640510005829 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 640510005830 Walker A/P-loop; other site 640510005831 ATP binding site [chemical binding]; other site 640510005832 Q-loop/lid; other site 640510005833 ABC transporter signature motif; other site 640510005834 Walker B; other site 640510005835 D-loop; other site 640510005836 H-loop/switch region; other site 640510005837 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 640510005838 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 640510005839 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640510005840 catalytic residue [active] 640510005841 allantoate amidohydrolase; Reviewed; Region: PRK12890 640510005842 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 640510005843 active site 640510005844 metal binding site [ion binding]; metal-binding site 640510005845 dimer interface [polypeptide binding]; other site 640510005846 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 640510005847 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 640510005848 metal binding site [ion binding]; metal-binding site 640510005849 putative dimer interface [polypeptide binding]; other site 640510005850 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 640510005851 Helix-turn-helix domains; Region: HTH; cl00088 640510005852 AsnC family; Region: AsnC_trans_reg; pfam01037 640510005853 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 640510005854 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 640510005855 dimerization interface [polypeptide binding]; other site 640510005856 ligand binding site [chemical binding]; other site 640510005857 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 640510005858 Helix-turn-helix domains; Region: HTH; cl00088 640510005859 The 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 640510005860 dimerization interface [polypeptide binding]; other site 640510005861 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510005862 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640510005863 putative substrate translocation pore; other site 640510005864 StaR_like; a well-conserved protein found in bacteria, plants, and animals. A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been...; Region: StaR_like; cd05804 640510005865 Cupin domain; Region: Cupin_2; cl09118 640510005866 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 640510005867 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510005868 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 640510005869 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 640510005870 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 640510005871 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510005872 homodimer interface [polypeptide binding]; other site 640510005873 catalytic residue [active] 640510005874 osmolarity response regulator; Provisional; Region: ompR; PRK09468 640510005875 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510005876 active site 640510005877 phosphorylation site [posttranslational modification] 640510005878 intermolecular recognition site; other site 640510005879 dimerization interface [polypeptide binding]; other site 640510005880 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 640510005881 DNA binding site [nucleotide binding] 640510005882 Cupin domain; Region: Cupin_2; cl09118 640510005883 Cupin domain; Region: Cupin_2; cl09118 640510005884 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 640510005885 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 640510005886 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640510005887 catalytic residue [active] 640510005888 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510005889 metabolite-proton symporter; Region: 2A0106; TIGR00883 640510005890 putative substrate translocation pore; other site 640510005891 hypothetical protein; Provisional; Region: PRK07079 640510005892 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_2; cd05679 640510005893 metal binding site [ion binding]; metal-binding site 640510005894 putative dimer interface [polypeptide binding]; other site 640510005895 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510005896 Helix-turn-helix domains; Region: HTH; cl00088 640510005897 The 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 640510005898 dimerization interface [polypeptide binding]; other site 640510005899 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 640510005900 trimer interface [polypeptide binding]; other site 640510005901 eyelet of channel; other site 640510005902 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 640510005903 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 640510005904 dimerization interface [polypeptide binding]; other site 640510005905 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 640510005906 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640510005907 dimer interface [polypeptide binding]; other site 640510005908 putative CheW interface [polypeptide binding]; other site 640510005909 kynureninase; Region: kynureninase; TIGR01814 640510005910 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 640510005911 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640510005912 catalytic residue [active] 640510005913 aspartate carbamoyltransferase; Provisional; Region: PRK11891 640510005914 Helix-turn-helix domain; Region: HTH_18; pfam12833 640510005915 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 640510005916 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 640510005917 catalytic loop [active] 640510005918 iron binding site [ion binding]; other site 640510005919 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 640510005920 FAD binding pocket [chemical binding]; other site 640510005921 FAD binding motif [chemical binding]; other site 640510005922 phosphate binding motif [ion binding]; other site 640510005923 beta-alpha-beta structure motif; other site 640510005924 NAD binding pocket [chemical binding]; other site 640510005925 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 640510005926 inter-subunit interface; other site 640510005927 anthranilate 1,2-dioxygenase, large subunit; Region: anthran_1_2_A; TIGR03228 640510005928 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 640510005929 iron-sulfur cluster [ion binding]; other site 640510005930 [2Fe-2S] cluster binding site [ion binding]; other site 640510005931 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 640510005932 putative alpha subunit interface [polypeptide binding]; other site 640510005933 putative active site [active] 640510005934 putative substrate binding site [chemical binding]; other site 640510005935 Fe binding site [ion binding]; other site 640510005936 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 640510005937 glutamine ABC transporter periplasmic protein; Reviewed; Region: glnH; PRK09495 640510005938 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 640510005939 substrate binding pocket [chemical binding]; other site 640510005940 membrane-bound complex binding site; other site 640510005941 hinge residues; other site 640510005942 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640510005943 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510005944 dimer interface [polypeptide binding]; other site 640510005945 conserved gate region; other site 640510005946 putative PBP binding loops; other site 640510005947 ABC-ATPase subunit interface; other site 640510005948 glutamine ABC transporter ATP-binding protein; Reviewed; Region: glnQ; PRK09493 640510005949 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 640510005950 Walker A/P-loop; other site 640510005951 ATP binding site [chemical binding]; other site 640510005952 Q-loop/lid; other site 640510005953 ABC transporter signature motif; other site 640510005954 Walker B; other site 640510005955 D-loop; other site 640510005956 H-loop/switch region; other site 640510005957 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 640510005958 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 640510005959 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 640510005960 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 640510005961 putative active site [active] 640510005962 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 640510005963 Transcriptional regulators [Transcription]; Region: FadR; COG2186 640510005964 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510005965 DNA-binding site [nucleotide binding]; DNA binding site 640510005966 FCD domain; Region: FCD; cl11656 640510005967 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 640510005968 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 640510005969 Walker A/P-loop; other site 640510005970 ATP binding site [chemical binding]; other site 640510005971 Q-loop/lid; other site 640510005972 ABC transporter signature motif; other site 640510005973 Walker B; other site 640510005974 D-loop; other site 640510005975 H-loop/switch region; other site 640510005976 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 640510005977 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 640510005978 TM-ABC transporter signature motif; other site 640510005979 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 640510005980 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640510005981 putative ligand binding site [chemical binding]; other site 640510005982 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 640510005983 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 640510005984 putative NAD(P) binding site [chemical binding]; other site 640510005985 catalytic Zn binding site [ion binding]; other site 640510005986 structural Zn binding site [ion binding]; other site 640510005987 altronate oxidoreductase; Provisional; Region: PRK03643 640510005988 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 640510005989 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 640510005990 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510005991 D-galactonate transporter; Region: 2A0114; TIGR00893 640510005992 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510005993 ectoine utilization protein EutE; Region: ectoine_eutE; TIGR02994 640510005994 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_2; cd06252 640510005995 putative active site [active] 640510005996 Zn binding site [ion binding]; other site 640510005997 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 640510005998 Helix-turn-helix domains; Region: HTH; cl00088 640510005999 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 640510006000 dimerization interface [polypeptide binding]; other site 640510006001 substrate binding pocket [chemical binding]; other site 640510006002 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640510006003 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 640510006004 PAS domain; Region: PAS_9; pfam13426 640510006005 putative active site [active] 640510006006 heme pocket [chemical binding]; other site 640510006007 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 640510006008 dimer interface [polypeptide binding]; other site 640510006009 phosphorylation site [posttranslational modification] 640510006010 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510006011 ATP binding site [chemical binding]; other site 640510006012 Mg2+ binding site [ion binding]; other site 640510006013 G-X-G motif; other site 640510006014 Response regulator receiver domain; Region: Response_reg; pfam00072 640510006015 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510006016 active site 640510006017 phosphorylation site [posttranslational modification] 640510006018 intermolecular recognition site; other site 640510006019 dimerization interface [polypeptide binding]; other site 640510006020 Malonate transporter MadL subunit; Region: MadL; cl04273 640510006021 Malonate/sodium symporter MadM subunit; Region: MadM; cl04274 640510006022 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510006023 Helix-turn-helix domains; Region: HTH; cl00088 640510006024 The C-terminal substrate-binding domian of LysR-type transcriptional regulator MdcR, which involved in the malonate catabolism contains the type 2 periplasmic binding fold; Region: PBP2_MdcR; cd08416 640510006025 putative dimerization interface [polypeptide binding]; other site 640510006026 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 640510006027 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 640510006028 [4Fe-4S] binding site [ion binding]; other site 640510006029 molybdopterin cofactor binding site; other site 640510006030 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 640510006031 molybdopterin cofactor binding site; other site 640510006032 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 640510006033 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 640510006034 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 640510006035 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640510006036 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 640510006037 nitrite reductase subunit NirD; Provisional; Region: PRK14989 640510006038 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640510006039 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 640510006040 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 640510006041 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 640510006042 nitrate transmembrane transporter; Provisional; Region: PLN00028 640510006043 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 640510006044 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 640510006045 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510006046 active site 640510006047 phosphorylation site [posttranslational modification] 640510006048 intermolecular recognition site; other site 640510006049 dimerization interface [polypeptide binding]; other site 640510006050 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 640510006051 Walker A motif; other site 640510006052 ATP binding site [chemical binding]; other site 640510006053 Walker B motif; other site 640510006054 arginine finger; other site 640510006055 Helix-turn-helix domains; Region: HTH; cl00088 640510006056 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 640510006057 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 640510006058 dimer interface [polypeptide binding]; other site 640510006059 phosphorylation site [posttranslational modification] 640510006060 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510006061 ATP binding site [chemical binding]; other site 640510006062 Mg2+ binding site [ion binding]; other site 640510006063 G-X-G motif; other site 640510006064 2-hydroxycarboxylate transporter family; Region: 2HCT; cl01386 640510006065 short chain dehydrogenase; Provisional; Region: PRK06180 640510006066 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 640510006067 NADP binding site [chemical binding]; other site 640510006068 active site 640510006069 steroid binding site; other site 640510006070 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 640510006071 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 640510006072 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 640510006073 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 640510006074 substrate binding pocket [chemical binding]; other site 640510006075 membrane-bound complex binding site; other site 640510006076 hinge residues; other site 640510006077 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 640510006078 dimer interface [polypeptide binding]; other site 640510006079 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 640510006080 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 640510006081 Na binding site [ion binding]; other site 640510006082 Protein of unknown function, DUF485; Region: DUF485; cl01231 640510006083 OsmC-like protein; Region: OsmC; cl00767 640510006084 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640510006085 Helix-turn-helix domains; Region: HTH; cl00088 640510006086 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 640510006087 Helix-turn-helix domains; Region: HTH; cl00088 640510006088 Bacterial transcriptional regulator; Region: IclR; pfam01614 640510006089 crotonobetaine/carnitine-CoA ligase; Provisional; Region: PRK06155 640510006090 AMP-binding enzyme; Region: AMP-binding; cl15778 640510006091 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 640510006092 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510006093 dimer interface [polypeptide binding]; other site 640510006094 conserved gate region; other site 640510006095 putative PBP binding loops; other site 640510006096 ABC-ATPase subunit interface; other site 640510006097 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510006098 dimer interface [polypeptide binding]; other site 640510006099 conserved gate region; other site 640510006100 putative PBP binding loops; other site 640510006101 ABC-ATPase subunit interface; other site 640510006102 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 640510006103 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510006104 Walker A/P-loop; other site 640510006105 ATP binding site [chemical binding]; other site 640510006106 Q-loop/lid; other site 640510006107 ABC transporter signature motif; other site 640510006108 Walker B; other site 640510006109 D-loop; other site 640510006110 H-loop/switch region; other site 640510006111 TOBE domain; Region: TOBE_2; cl01440 640510006112 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 640510006113 The 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 640510006114 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 640510006115 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 640510006116 substrate binding site [chemical binding]; other site 640510006117 oxyanion hole (OAH) forming residues; other site 640510006118 trimer interface [polypeptide binding]; other site 640510006119 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 640510006120 putative metal binding site; other site 640510006121 benzoate transport; Region: 2A0115; TIGR00895 640510006122 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510006123 putative substrate translocation pore; other site 640510006124 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510006125 Protein of unknown function (DUF3303); Region: DUF3303; pfam11746 640510006126 GMP synthase; Reviewed; Region: guaA; PRK00074 640510006127 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 640510006128 AMP/PPi binding site [chemical binding]; other site 640510006129 candidate oxyanion hole; other site 640510006130 catalytic triad [active] 640510006131 potential glutamine specificity residues [chemical binding]; other site 640510006132 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 640510006133 ATP Binding subdomain [chemical binding]; other site 640510006134 Ligand Binding sites [chemical binding]; other site 640510006135 Dimerization subdomain; other site 640510006136 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 640510006137 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 640510006138 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 640510006139 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 640510006140 active site 640510006141 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 640510006142 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 640510006143 putative coenzyme Q binding site [chemical binding]; other site 640510006144 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 640510006145 SmpB-tmRNA interface; other site 640510006146 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 640510006147 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 640510006148 phosphoenolpyruvate synthase; Validated; Region: PRK06464 640510006149 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 640510006150 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 640510006151 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 640510006152 Kinase/pyrophosphorylase; Region: Kinase-PPPase; cl00780 640510006153 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 640510006154 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 640510006155 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 640510006156 RNA/DNA hybrid binding site [nucleotide binding]; other site 640510006157 active site 640510006158 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 640510006159 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 640510006160 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 640510006161 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 640510006162 active site 640510006163 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 640510006164 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 640510006165 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 640510006166 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 640510006167 trimer interface [polypeptide binding]; other site 640510006168 active site 640510006169 UDP-GlcNAc binding site [chemical binding]; other site 640510006170 lipid binding site [chemical binding]; lipid-binding site 640510006171 periplasmic chaperone; Provisional; Region: PRK10780 640510006172 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 640510006173 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 640510006174 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 640510006175 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 640510006176 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 640510006177 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 640510006178 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 640510006179 Surface antigen; Region: Bac_surface_Ag; cl03097 640510006180 zinc metallopeptidase RseP; Provisional; Region: PRK10779 640510006181 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 640510006182 active site 640510006183 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 640510006184 protein binding site [polypeptide binding]; other site 640510006185 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 640510006186 putative substrate binding region [chemical binding]; other site 640510006187 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 640510006188 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 640510006189 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 640510006190 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 640510006191 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 640510006192 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 640510006193 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 640510006194 catalytic residue [active] 640510006195 putative FPP diphosphate binding site; other site 640510006196 putative FPP binding hydrophobic cleft; other site 640510006197 dimer interface [polypeptide binding]; other site 640510006198 putative IPP diphosphate binding site; other site 640510006199 ribosome recycling factor; Reviewed; Region: frr; PRK00083 640510006200 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 640510006201 hinge region; other site 640510006202 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 640510006203 putative nucleotide binding site [chemical binding]; other site 640510006204 uridine monophosphate binding site [chemical binding]; other site 640510006205 homohexameric interface [polypeptide binding]; other site 640510006206 elongation factor Ts; Provisional; Region: tsf; PRK09377 640510006207 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 640510006208 Elongation factor TS; Region: EF_TS; pfam00889 640510006209 Elongation factor TS; Region: EF_TS; pfam00889 640510006210 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 640510006211 rRNA interaction site [nucleotide binding]; other site 640510006212 S8 interaction site; other site 640510006213 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 640510006214 active site 640510006215 PII uridylyl-transferase; Provisional; Region: PRK03059 640510006216 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 640510006217 metal binding triad; other site 640510006218 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 640510006219 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 640510006220 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 640510006221 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 640510006222 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 640510006223 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 640510006224 RNA binding surface [nucleotide binding]; other site 640510006225 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 640510006226 active site 640510006227 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 640510006228 active site 640510006229 catalytic residues [active] 640510006230 metal binding site [ion binding]; metal-binding site 640510006231 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 640510006232 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 640510006233 nucleotide binding pocket [chemical binding]; other site 640510006234 K-X-D-G motif; other site 640510006235 catalytic site [active] 640510006236 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 640510006237 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 640510006238 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 640510006239 Dimer interface [polypeptide binding]; other site 640510006240 BRCT sequence motif; other site 640510006241 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 640510006242 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 640510006243 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 640510006244 Walker A/P-loop; other site 640510006245 ATP binding site [chemical binding]; other site 640510006246 Q-loop/lid; other site 640510006247 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 640510006248 Q-loop/lid; other site 640510006249 ABC transporter signature motif; other site 640510006250 Walker B; other site 640510006251 D-loop; other site 640510006252 H-loop/switch region; other site 640510006253 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 640510006254 EamA-like transporter family; Region: EamA; cl01037 640510006255 succinyldiaminopimelate transaminase; Region: DapC_gpp; TIGR03538 640510006256 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 640510006257 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510006258 homodimer interface [polypeptide binding]; other site 640510006259 catalytic residue [active] 640510006260 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 640510006261 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 640510006262 trimer interface [polypeptide binding]; other site 640510006263 active site 640510006264 substrate binding site [chemical binding]; other site 640510006265 CoA binding site [chemical binding]; other site 640510006266 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 640510006267 ArsC family; Region: ArsC; pfam03960 640510006268 putative catalytic residues [active] 640510006269 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 640510006270 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 640510006271 metal binding site [ion binding]; metal-binding site 640510006272 dimer interface [polypeptide binding]; other site 640510006273 HemK family putative methylases; Region: hemK_fam; TIGR00536 640510006274 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 640510006275 S-adenosylmethionine binding site [chemical binding]; other site 640510006276 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 640510006277 Putative catalytic domain, repeat 1, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_1; cd09155 640510006278 putative active site [active] 640510006279 catalytic site [active] 640510006280 Putative catalytic domain, repeat 2, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_2; cd09161 640510006281 putative active site [active] 640510006282 catalytic site [active] 640510006283 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 640510006284 catalytic residues [active] 640510006285 dimer interface [polypeptide binding]; other site 640510006286 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 640510006287 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 640510006288 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 640510006289 ABC transporter; Region: ABC_tran_2; pfam12848 640510006290 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 640510006291 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 640510006292 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640510006293 Protein of unknown function (DUF2866); Region: DUF2866; pfam11065 640510006294 DNA repair protein RadA; Provisional; Region: PRK11823 640510006295 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 640510006296 Walker A motif/ATP binding site; other site 640510006297 ATP binding site [chemical binding]; other site 640510006298 Walker B motif; other site 640510006299 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 640510006300 alanine racemase; Reviewed; Region: alr; PRK00053 640510006301 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 640510006302 active site 640510006303 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 640510006304 substrate binding site [chemical binding]; other site 640510006305 catalytic residues [active] 640510006306 dimer interface [polypeptide binding]; other site 640510006307 lysophospholipid transporter LplT; Provisional; Region: PRK11195 640510006308 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 640510006309 dimer interface [polypeptide binding]; other site 640510006310 substrate binding site [chemical binding]; other site 640510006311 ATP binding site [chemical binding]; other site 640510006312 Domain of unknown function (DUF1853); Region: DUF1853; cl01545 640510006313 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 640510006314 Fe-S cluster binding site [ion binding]; other site 640510006315 active site 640510006316 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 640510006317 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 640510006318 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 640510006319 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 640510006320 acyl-CoA binding pocket [chemical binding]; other site 640510006321 CoA binding site [chemical binding]; other site 640510006322 helicase 45; Provisional; Region: PTZ00424 640510006323 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 640510006324 ATP binding site [chemical binding]; other site 640510006325 Mg++ binding site [ion binding]; other site 640510006326 motif III; other site 640510006327 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 640510006328 nucleotide binding region [chemical binding]; other site 640510006329 ATP-binding site [chemical binding]; other site 640510006330 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 640510006331 tetramer interface [polypeptide binding]; other site 640510006332 active site 640510006333 Mg2+/Mn2+ binding site [ion binding]; other site 640510006334 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 640510006335 Ligand Binding Site [chemical binding]; other site 640510006336 transcriptional regulator; Provisional; Region: PRK10632 640510006337 Helix-turn-helix domains; Region: HTH; cl00088 640510006338 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 640510006339 putative effector binding pocket; other site 640510006340 dimerization interface [polypeptide binding]; other site 640510006341 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 640510006342 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 640510006343 motif II; other site 640510006344 malate synthase A; Region: malate_syn_A; TIGR01344 640510006345 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 640510006346 active site 640510006347 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 640510006348 Cupin domain; Region: Cupin_2; cl09118 640510006349 Helix-turn-helix domain; Region: HTH_18; pfam12833 640510006350 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510006351 Predicted acetyltransferase [General function prediction only]; Region: COG3393 640510006352 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640510006353 Coenzyme A binding pocket [chemical binding]; other site 640510006354 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 640510006355 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 640510006356 active site 640510006357 HIGH motif; other site 640510006358 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 640510006359 active site 640510006360 KMSKS motif; other site 640510006361 hypothetical protein; Provisional; Region: PRK10279 640510006362 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 640510006363 nucleophile elbow; other site 640510006364 NlpC/P60 family; Region: NLPC_P60; cl11438 640510006365 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 640510006366 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 640510006367 Walker A/P-loop; other site 640510006368 ATP binding site [chemical binding]; other site 640510006369 Q-loop/lid; other site 640510006370 ABC transporter signature motif; other site 640510006371 Walker B; other site 640510006372 D-loop; other site 640510006373 H-loop/switch region; other site 640510006374 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640510006375 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 640510006376 Walker A/P-loop; other site 640510006377 ATP binding site [chemical binding]; other site 640510006378 Q-loop/lid; other site 640510006379 ABC transporter signature motif; other site 640510006380 Walker B; other site 640510006381 D-loop; other site 640510006382 H-loop/switch region; other site 640510006383 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640510006384 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 640510006385 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510006386 dimer interface [polypeptide binding]; other site 640510006387 conserved gate region; other site 640510006388 putative PBP binding loops; other site 640510006389 ABC-ATPase subunit interface; other site 640510006390 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 640510006391 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510006392 dimer interface [polypeptide binding]; other site 640510006393 conserved gate region; other site 640510006394 putative PBP binding loops; other site 640510006395 ABC-ATPase subunit interface; other site 640510006396 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 640510006397 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 640510006398 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510006399 D-galactonate transporter; Region: 2A0114; TIGR00893 640510006400 putative substrate translocation pore; other site 640510006401 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 640510006402 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 640510006403 Glycosyl hydrolase family 31 (GH31) domain of a bacterial protein family represented by Escherichia coli protein Aec37. The gene encoding Aec37 (aec-37) is located within a genomic island (AGI-3) isolated from the extraintestinal avian pathogenic...; Region: GH31_glycosidase_Aec37; cd06599 640510006404 putative active site [active] 640510006405 putative catalytic site [active] 640510006406 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 640510006407 trimer interface [polypeptide binding]; other site 640510006408 eyelet of channel; other site 640510006409 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 640510006410 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510006411 DNA-binding site [nucleotide binding]; DNA binding site 640510006412 UTRA domain; Region: UTRA; cl01230 640510006413 putative oxidoreductase; Provisional; Region: PRK08275 640510006414 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 640510006415 Ferredoxin [Energy production and conversion]; Region: COG1146 640510006416 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 640510006417 putative oxidoreductase/HEAT repeat-containing protein; Provisional; Region: PRK13800 640510006418 Protein of unknown function (DUF971); Region: DUF971; cl01414 640510006419 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 640510006420 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 640510006421 S-adenosylmethionine binding site [chemical binding]; other site 640510006422 aspartate kinase; Reviewed; Region: PRK06635 640510006423 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 640510006424 putative nucleotide binding site [chemical binding]; other site 640510006425 putative catalytic residues [active] 640510006426 putative Mg ion binding site [ion binding]; other site 640510006427 putative aspartate binding site [chemical binding]; other site 640510006428 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 640510006429 putative allosteric regulatory site; other site 640510006430 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 640510006431 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 640510006432 Ligand Binding Site [chemical binding]; other site 640510006433 TilS substrate binding domain; Region: TilS; pfam09179 640510006434 B3/4 domain; Region: B3_4; cl11458 640510006435 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 640510006436 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 640510006437 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 640510006438 endonuclease III; Region: ENDO3c; smart00478 640510006439 minor groove reading motif; other site 640510006440 helix-hairpin-helix signature motif; other site 640510006441 substrate binding pocket [chemical binding]; other site 640510006442 active site 640510006443 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 640510006444 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 640510006445 active site 640510006446 HIGH motif; other site 640510006447 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 640510006448 KMSKS motif; other site 640510006449 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 640510006450 tRNA binding surface [nucleotide binding]; other site 640510006451 anticodon binding site; other site 640510006452 TPR repeat; Region: TPR_11; pfam13414 640510006453 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 640510006454 binding surface 640510006455 TPR motif; other site 640510006456 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 640510006457 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 640510006458 substrate binding site [chemical binding]; other site 640510006459 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 640510006460 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 640510006461 substrate binding site [chemical binding]; other site 640510006462 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 640510006463 putative active site [active] 640510006464 putative metal binding site [ion binding]; other site 640510006465 serine O-acetyltransferase; Region: cysE; TIGR01172 640510006466 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 640510006467 trimer interface [polypeptide binding]; other site 640510006468 active site 640510006469 substrate binding site [chemical binding]; other site 640510006470 CoA binding site [chemical binding]; other site 640510006471 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 640510006472 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 640510006473 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 640510006474 active site 640510006475 dimerization interface [polypeptide binding]; other site 640510006476 lysophospholipid transporter LplT; Provisional; Region: PRK11195 640510006477 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 640510006478 MutS domain I; Region: MutS_I; pfam01624 640510006479 MutS domain II; Region: MutS_II; pfam05188 640510006480 MutS family domain IV; Region: MutS_IV; pfam05190 640510006481 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 640510006482 Walker A/P-loop; other site 640510006483 ATP binding site [chemical binding]; other site 640510006484 Q-loop/lid; other site 640510006485 ABC transporter signature motif; other site 640510006486 Walker B; other site 640510006487 D-loop; other site 640510006488 H-loop/switch region; other site 640510006489 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 640510006490 Uncharacterized conserved protein [Function unknown]; Region: COG2850 640510006491 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 640510006492 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510006493 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510006494 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 640510006495 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 640510006496 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 640510006497 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 640510006498 RNA binding site [nucleotide binding]; other site 640510006499 K+ potassium transporter; Region: K_trans; cl15781 640510006500 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 640510006501 active site 640510006502 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 640510006503 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 640510006504 GDP-binding site [chemical binding]; other site 640510006505 ACT binding site; other site 640510006506 IMP binding site; other site 640510006507 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 640510006508 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 640510006509 dimer interface [polypeptide binding]; other site 640510006510 motif 1; other site 640510006511 active site 640510006512 motif 2; other site 640510006513 motif 3; other site 640510006514 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; cl01275 640510006515 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 640510006516 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 640510006517 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 640510006518 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 640510006519 HflK protein; Region: hflK; TIGR01933 640510006520 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 640510006521 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 640510006522 HflX GTPase family; Region: HflX; cd01878 640510006523 G1 box; other site 640510006524 GTP/Mg2+ binding site [chemical binding]; other site 640510006525 Switch I region; other site 640510006526 G2 box; other site 640510006527 G3 box; other site 640510006528 Switch II region; other site 640510006529 G4 box; other site 640510006530 G5 box; other site 640510006531 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 640510006532 Sm1 motif; other site 640510006533 intra - hexamer interaction site; other site 640510006534 inter - hexamer interaction site [polypeptide binding]; other site 640510006535 nucleotide binding pocket [chemical binding]; other site 640510006536 Sm2 motif; other site 640510006537 GTP-binding protein Der; Reviewed; Region: PRK00093 640510006538 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 640510006539 G1 box; other site 640510006540 GTP/Mg2+ binding site [chemical binding]; other site 640510006541 Switch I region; other site 640510006542 G2 box; other site 640510006543 Switch II region; other site 640510006544 G3 box; other site 640510006545 G4 box; other site 640510006546 G5 box; other site 640510006547 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 640510006548 G1 box; other site 640510006549 GTP/Mg2+ binding site [chemical binding]; other site 640510006550 Switch I region; other site 640510006551 G2 box; other site 640510006552 G3 box; other site 640510006553 Switch II region; other site 640510006554 G4 box; other site 640510006555 G5 box; other site 640510006556 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 640510006557 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 640510006558 Trp docking motif [polypeptide binding]; other site 640510006559 active site 640510006560 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 640510006561 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 640510006562 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 640510006563 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 640510006564 dimer interface [polypeptide binding]; other site 640510006565 motif 1; other site 640510006566 active site 640510006567 motif 2; other site 640510006568 motif 3; other site 640510006569 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 640510006570 anticodon binding site; other site 640510006571 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 640510006572 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 640510006573 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 640510006574 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 640510006575 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 640510006576 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 640510006577 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 640510006578 FeS/SAM binding site; other site 640510006579 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 640510006580 active site 640510006581 multimer interface [polypeptide binding]; other site 640510006582 YccA-like proteins; Region: YccA_like; cd10433 640510006583 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 640510006584 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 640510006585 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 640510006586 dihydrodipicolinate synthase; Region: dapA; TIGR00674 640510006587 dimer interface [polypeptide binding]; other site 640510006588 active site 640510006589 catalytic residue [active] 640510006590 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 640510006591 S-adenosylmethionine binding site [chemical binding]; other site 640510006592 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 640510006593 active site 640510006594 HIGH motif; other site 640510006595 dimer interface [polypeptide binding]; other site 640510006596 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 640510006597 active site 640510006598 KMSKS motif; other site 640510006599 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 640510006600 active site 640510006601 putative substrate binding region [chemical binding]; other site 640510006602 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 640510006603 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 640510006604 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 640510006605 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640510006606 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 640510006607 dinuclear metal binding motif [ion binding]; other site 640510006608 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 640510006609 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 640510006610 trimer interface [polypeptide binding]; other site 640510006611 putative metal binding site [ion binding]; other site 640510006612 Disulfide bond chaperones of the HSP33 family [Posttranslational modification, protein turnover, chaperones]; Region: COG1281 640510006613 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 640510006614 dimerization interface [polypeptide binding]; other site 640510006615 domain crossover interface; other site 640510006616 redox-dependent activation switch; other site 640510006617 Septum formation initiator; Region: DivIC; cl11433 640510006618 enolase; Provisional; Region: eno; PRK00077 640510006619 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 640510006620 dimer interface [polypeptide binding]; other site 640510006621 metal binding site [ion binding]; metal-binding site 640510006622 substrate binding pocket [chemical binding]; other site 640510006623 NeuB family; Region: NeuB; cl00496 640510006624 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 640510006625 CTP synthetase; Validated; Region: pyrG; PRK05380 640510006626 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 640510006627 Catalytic site [active] 640510006628 active site 640510006629 UTP binding site [chemical binding]; other site 640510006630 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 640510006631 active site 640510006632 putative oxyanion hole; other site 640510006633 catalytic triad [active] 640510006634 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640510006635 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 640510006636 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 640510006637 Competence protein; Region: Competence; cl00471 640510006638 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 640510006639 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 640510006640 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 640510006641 active site 640510006642 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 640510006643 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 640510006644 Walker A/P-loop; other site 640510006645 ATP binding site [chemical binding]; other site 640510006646 Q-loop/lid; other site 640510006647 ABC transporter signature motif; other site 640510006648 Walker B; other site 640510006649 D-loop; other site 640510006650 H-loop/switch region; other site 640510006651 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 640510006652 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 640510006653 FtsX-like permease family; Region: FtsX; cl15850 640510006654 Sulfatase; Region: Sulfatase; cl10460 640510006655 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 640510006656 DHH family; Region: DHH; pfam01368 640510006657 DHHA1 domain; Region: DHHA1; pfam02272 640510006658 peptide chain release factor 2; Validated; Region: prfB; PRK00578 640510006659 RF-1 domain; Region: RF-1; cl02875 640510006660 RF-1 domain; Region: RF-1; cl02875 640510006661 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 640510006662 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 640510006663 dimer interface [polypeptide binding]; other site 640510006664 putative anticodon binding site; other site 640510006665 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 640510006666 motif 1; other site 640510006667 active site 640510006668 motif 2; other site 640510006669 motif 3; other site 640510006670 Iron-sulphur cluster assembly; Region: Fe-S_assembly; cl01123 640510006671 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 640510006672 catalytic loop [active] 640510006673 iron binding site [ion binding]; other site 640510006674 chaperone protein HscA; Provisional; Region: hscA; PRK05183 640510006675 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 640510006676 co-chaperone HscB; Provisional; Region: hscB; PRK03578 640510006677 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 640510006678 HSP70 interaction site [polypeptide binding]; other site 640510006679 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 640510006680 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 640510006681 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 640510006682 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 640510006683 trimerization site [polypeptide binding]; other site 640510006684 active site 640510006685 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 640510006686 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 640510006687 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640510006688 catalytic residue [active] 640510006689 Helix-turn-helix domains; Region: HTH; cl00088 640510006690 Rrf2 family protein; Region: rrf2_super; TIGR00738 640510006691 Low molecular weight phosphatase family; Region: LMWPc; cd00115 640510006692 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 640510006693 active site 640510006694 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 640510006695 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 640510006696 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 640510006697 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 640510006698 Cysteine-rich domain; Region: CCG; pfam02754 640510006699 Cysteine-rich domain; Region: CCG; pfam02754 640510006700 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640510006701 Helix-turn-helix domains; Region: HTH; cl00088 640510006702 Bacterial transcriptional regulator; Region: IclR; pfam01614 640510006703 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 640510006704 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 640510006705 Phasin protein; Region: Phasin_2; cl11491 640510006706 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 640510006707 E3 interaction surface; other site 640510006708 lipoyl attachment site [posttranslational modification]; other site 640510006709 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 640510006710 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640510006711 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 640510006712 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 640510006713 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 640510006714 E3 interaction surface; other site 640510006715 lipoyl attachment site [posttranslational modification]; other site 640510006716 e3 binding domain; Region: E3_binding; pfam02817 640510006717 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 640510006718 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 640510006719 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 640510006720 dimer interface [polypeptide binding]; other site 640510006721 TPP-binding site [chemical binding]; other site 640510006722 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 640510006723 PAS domain S-box; Region: sensory_box; TIGR00229 640510006724 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 640510006725 putative active site [active] 640510006726 heme pocket [chemical binding]; other site 640510006727 two-component VirA-like sensor kinase; Provisional; Region: PRK13837 640510006728 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 640510006729 dimer interface [polypeptide binding]; other site 640510006730 phosphorylation site [posttranslational modification] 640510006731 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510006732 ATP binding site [chemical binding]; other site 640510006733 Mg2+ binding site [ion binding]; other site 640510006734 G-X-G motif; other site 640510006735 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 640510006736 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510006737 active site 640510006738 phosphorylation site [posttranslational modification] 640510006739 intermolecular recognition site; other site 640510006740 dimerization interface [polypeptide binding]; other site 640510006741 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 640510006742 DNA binding residues [nucleotide binding] 640510006743 dimerization interface [polypeptide binding]; other site 640510006744 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14189 640510006745 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 640510006746 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 640510006747 homodimer interface [polypeptide binding]; other site 640510006748 NADP binding site [chemical binding]; other site 640510006749 substrate binding site [chemical binding]; other site 640510006750 Transposase; Region: DEDD_Tnp_IS110; pfam01548 640510006751 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 640510006752 OpgC protein; Region: OpgC_C; cl00792 640510006753 Acyltransferase family; Region: Acyl_transf_3; pfam01757 640510006754 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 640510006755 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 640510006756 active site 640510006757 Zn binding site [ion binding]; other site 640510006758 cytosine deaminase; Validated; Region: PRK07572 640510006759 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 640510006760 active site 640510006761 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 640510006762 Domain of unknown function (DUF4285); Region: DUF4285; pfam14113 640510006763 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 640510006764 putative catalytic site [active] 640510006765 putative phosphate binding site [ion binding]; other site 640510006766 active site 640510006767 metal binding site A [ion binding]; metal-binding site 640510006768 DNA binding site [nucleotide binding] 640510006769 putative AP binding site [nucleotide binding]; other site 640510006770 putative metal binding site B [ion binding]; other site 640510006771 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 640510006772 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 640510006773 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 640510006774 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510006775 active site 640510006776 phosphorylation site [posttranslational modification] 640510006777 intermolecular recognition site; other site 640510006778 dimerization interface [polypeptide binding]; other site 640510006779 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 640510006780 Walker A motif; other site 640510006781 ATP binding site [chemical binding]; other site 640510006782 Walker B motif; other site 640510006783 arginine finger; other site 640510006784 Helix-turn-helix domains; Region: HTH; cl00088 640510006785 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 640510006786 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 640510006787 dimer interface [polypeptide binding]; other site 640510006788 phosphorylation site [posttranslational modification] 640510006789 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510006790 ATP binding site [chemical binding]; other site 640510006791 Mg2+ binding site [ion binding]; other site 640510006792 G-X-G motif; other site 640510006793 glutamine synthetase; Provisional; Region: glnA; PRK09469 640510006794 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 640510006795 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 640510006796 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 640510006797 active site residue [active] 640510006798 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 640510006799 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 640510006800 putative MPT binding site; other site 640510006801 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 640510006802 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 640510006803 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 640510006804 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 640510006805 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 640510006806 tail fiber protein; Region: PHA00430 640510006807 Haemagglutinin; Region: HIM; pfam05662 640510006808 Haemagglutinin; Region: HIM; pfam05662 640510006809 Haemagglutinin; Region: HIM; pfam05662 640510006810 YadA-like C-terminal region; Region: YadA; pfam03895 640510006811 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 640510006812 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 640510006813 ATP binding site [chemical binding]; other site 640510006814 putative Mg++ binding site [ion binding]; other site 640510006815 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 640510006816 nucleotide binding region [chemical binding]; other site 640510006817 ATP-binding site [chemical binding]; other site 640510006818 Helicase associated domain (HA2); Region: HA2; cl04503 640510006819 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 640510006820 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 640510006821 N-acetylglutamate synthase; Validated; Region: PRK05279 640510006822 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 640510006823 putative feedback inhibition sensing region; other site 640510006824 putative nucleotide binding site [chemical binding]; other site 640510006825 putative substrate binding site [chemical binding]; other site 640510006826 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640510006827 Coenzyme A binding pocket [chemical binding]; other site 640510006828 Bacterial Fe(2+) trafficking; Region: Iron_traffic; cl01104 640510006829 proline/glycine betaine transporter; Provisional; Region: PRK10642 640510006830 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510006831 putative substrate translocation pore; other site 640510006832 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 640510006833 active site 640510006834 metal binding site [ion binding]; metal-binding site 640510006835 homotetramer interface [polypeptide binding]; other site 640510006836 Protein of unknown function (DUF1211); Region: DUF1211; cl01421 640510006837 mercuric reductase; Validated; Region: PRK06370 640510006838 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510006839 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640510006840 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 640510006841 GAF domain; Region: GAF_2; pfam13185 640510006842 GAF domain; Region: GAF; cl15785 640510006843 PAS domain S-box; Region: sensory_box; TIGR00229 640510006844 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 640510006845 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640510006846 metal binding site [ion binding]; metal-binding site 640510006847 active site 640510006848 I-site; other site 640510006849 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 640510006850 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 640510006851 Helix-turn-helix domains; Region: HTH; cl00088 640510006852 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 640510006853 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510006854 DNA-binding site [nucleotide binding]; DNA binding site 640510006855 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 640510006856 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510006857 homodimer interface [polypeptide binding]; other site 640510006858 catalytic residue [active] 640510006859 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 640510006860 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 640510006861 putative molybdopterin cofactor binding site [chemical binding]; other site 640510006862 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 640510006863 putative molybdopterin cofactor binding site; other site 640510006864 Protein of unknown function DUF45; Region: DUF45; cl00636 640510006865 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 640510006866 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 640510006867 putative active site pocket [active] 640510006868 metal binding site [ion binding]; metal-binding site 640510006869 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 640510006870 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640510006871 putative ligand binding site [chemical binding]; other site 640510006872 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 640510006873 TM-ABC transporter signature motif; other site 640510006874 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 640510006875 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 640510006876 Walker A/P-loop; other site 640510006877 ATP binding site [chemical binding]; other site 640510006878 Q-loop/lid; other site 640510006879 ABC transporter signature motif; other site 640510006880 Walker B; other site 640510006881 D-loop; other site 640510006882 H-loop/switch region; other site 640510006883 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 640510006884 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640510006885 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640510006886 DNA binding site [nucleotide binding] 640510006887 domain linker motif; other site 640510006888 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 640510006889 putative dimerization interface [polypeptide binding]; other site 640510006890 putative ligand binding site [chemical binding]; other site 640510006891 The 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 640510006892 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 640510006893 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 640510006894 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 640510006895 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 640510006896 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510006897 dimer interface [polypeptide binding]; other site 640510006898 conserved gate region; other site 640510006899 putative PBP binding loops; other site 640510006900 ABC-ATPase subunit interface; other site 640510006901 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 640510006902 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510006903 Walker A/P-loop; other site 640510006904 ATP binding site [chemical binding]; other site 640510006905 Q-loop/lid; other site 640510006906 ABC transporter signature motif; other site 640510006907 Walker B; other site 640510006908 D-loop; other site 640510006909 H-loop/switch region; other site 640510006910 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 640510006911 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 640510006912 active site 640510006913 metal binding site [ion binding]; metal-binding site 640510006914 hexamer interface [polypeptide binding]; other site 640510006915 Protein of unknown function (DUF2569); Region: DUF2569; pfam10754 640510006916 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 640510006917 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510006918 Response regulator receiver domain; Region: Response_reg; pfam00072 640510006919 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510006920 active site 640510006921 phosphorylation site [posttranslational modification] 640510006922 intermolecular recognition site; other site 640510006923 dimerization interface [polypeptide binding]; other site 640510006924 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640510006925 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510006926 active site 640510006927 phosphorylation site [posttranslational modification] 640510006928 intermolecular recognition site; other site 640510006929 dimerization interface [polypeptide binding]; other site 640510006930 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 640510006931 DNA binding residues [nucleotide binding] 640510006932 dimerization interface [polypeptide binding]; other site 640510006933 Ferritin-like domain; Region: Ferritin; pfam00210 640510006934 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 640510006935 dinuclear metal binding motif [ion binding]; other site 640510006936 Histidine kinase; Region: HisKA_3; pfam07730 640510006937 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510006938 ATP binding site [chemical binding]; other site 640510006939 Mg2+ binding site [ion binding]; other site 640510006940 G-X-G motif; other site 640510006941 Entericidin EcnA/B family; Region: Entericidin; cl02322 640510006942 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 640510006943 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 640510006944 active site 640510006945 FMN binding site [chemical binding]; other site 640510006946 2,4-decadienoyl-CoA binding site; other site 640510006947 catalytic residue [active] 640510006948 4Fe-4S cluster binding site [ion binding]; other site 640510006949 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 640510006950 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510006951 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 640510006952 EamA-like transporter family; Region: EamA; cl01037 640510006953 EamA-like transporter family; Region: EamA; cl01037 640510006954 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 640510006955 Moco binding site; other site 640510006956 metal coordination site [ion binding]; other site 640510006957 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 640510006958 Protein of unknown function (DUF1223); Region: DUF1223; cl10501 640510006959 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 640510006960 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 640510006961 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 640510006962 ThiC-associated domain; Region: ThiC-associated; pfam13667 640510006963 ThiC family; Region: ThiC; cl08031 640510006964 L-lactate permease; Region: Lactate_perm; cl00701 640510006965 EamA-like transporter family; Region: EamA; cl01037 640510006966 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 640510006967 EamA-like transporter family; Region: EamA; cl01037 640510006968 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 640510006969 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 640510006970 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 640510006971 Protein of unknown function (DUF2844); Region: DUF2844; pfam11005 640510006972 Protein of unknown function (DUF3443); Region: DUF3443; pfam11925 640510006973 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 640510006974 2-isopropylmalate synthase; Validated; Region: PRK03739 640510006975 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 640510006976 active site 640510006977 catalytic residues [active] 640510006978 metal binding site [ion binding]; metal-binding site 640510006979 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 640510006980 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 640510006981 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 640510006982 Walker A/P-loop; other site 640510006983 ATP binding site [chemical binding]; other site 640510006984 Q-loop/lid; other site 640510006985 ABC transporter signature motif; other site 640510006986 Walker B; other site 640510006987 D-loop; other site 640510006988 H-loop/switch region; other site 640510006989 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640510006990 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510006991 dimer interface [polypeptide binding]; other site 640510006992 conserved gate region; other site 640510006993 putative PBP binding loops; other site 640510006994 ABC-ATPase subunit interface; other site 640510006995 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 640510006996 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 640510006997 substrate binding pocket [chemical binding]; other site 640510006998 membrane-bound complex binding site; other site 640510006999 hinge residues; other site 640510007000 phenylhydantoinase; Validated; Region: PRK08323 640510007001 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 640510007002 tetramer interface [polypeptide binding]; other site 640510007003 active site 640510007004 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily, YbbW-like; solute-binding domain; Region: SLC-NCS1sbd_YbbW-like; cd11485 640510007005 Na binding site [ion binding]; other site 640510007006 putative substrate binding site [chemical binding]; other site 640510007007 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 640510007008 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 640510007009 homodimer interface [polypeptide binding]; other site 640510007010 active site 640510007011 FMN binding site [chemical binding]; other site 640510007012 substrate binding site [chemical binding]; other site 640510007013 4Fe-4S binding domain; Region: Fer4; cl02805 640510007014 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 640510007015 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510007016 allantoate amidohydrolase; Reviewed; Region: PRK09290 640510007017 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 640510007018 active site 640510007019 metal binding site [ion binding]; metal-binding site 640510007020 dimer interface [polypeptide binding]; other site 640510007021 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 640510007022 Helix-turn-helix domains; Region: HTH; cl00088 640510007023 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 640510007024 benzoyl-CoA oxygenase/reductase, BoxA protein; Region: benzo_boxA; TIGR03224 640510007025 4Fe-4S binding domain; Region: Fer4; cl02805 640510007026 4Fe-4S binding domain; Region: Fer4; cl02805 640510007027 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 640510007028 dimerization interface [polypeptide binding]; other site 640510007029 FAD binding pocket [chemical binding]; other site 640510007030 FAD binding motif [chemical binding]; other site 640510007031 catalytic residues [active] 640510007032 NAD binding pocket [chemical binding]; other site 640510007033 phosphate binding motif [ion binding]; other site 640510007034 beta-alpha-beta structure motif; other site 640510007035 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 640510007036 benzoyl-CoA-dihydrodiol lyase; Provisional; Region: PRK08184 640510007037 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 640510007038 substrate binding site [chemical binding]; other site 640510007039 oxyanion hole (OAH) forming residues; other site 640510007040 trimer interface [polypeptide binding]; other site 640510007041 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 640510007042 substrate binding site [chemical binding]; other site 640510007043 oxyanion hole (OAH) forming residues; other site 640510007044 trimer interface [polypeptide binding]; other site 640510007045 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 640510007046 non-specific DNA binding site [nucleotide binding]; other site 640510007047 salt bridge; other site 640510007048 sequence-specific DNA binding site [nucleotide binding]; other site 640510007049 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 640510007050 Shikimate kinase; Region: SKI; pfam01202 640510007051 ADP binding site [chemical binding]; other site 640510007052 magnesium binding site [ion binding]; other site 640510007053 putative shikimate binding site; other site 640510007054 aldehyde dehydrogenase; Provisional; Region: PRK11903 640510007055 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 640510007056 NAD(P) binding site [chemical binding]; other site 640510007057 catalytic residues [active] 640510007058 benzoate-CoA ligase family; Region: benz_CoA_lig; TIGR02262 640510007059 AMP-binding enzyme; Region: AMP-binding; cl15778 640510007060 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 640510007061 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640510007062 CRISPR/Cas system-associated RAMP superfamily protein Csy2; Region: Csy2_I-F; cl12127 640510007063 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 640510007064 Phosphoesterase family; Region: Phosphoesterase; cl15450 640510007065 Domain of unknown function (DUF756); Region: DUF756; pfam05506 640510007066 Domain of unknown function (DUF756); Region: DUF756; pfam05506 640510007067 Cache domain; Region: Cache_1; pfam02743 640510007068 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 640510007069 dimerization interface [polypeptide binding]; other site 640510007070 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640510007071 dimer interface [polypeptide binding]; other site 640510007072 putative CheW interface [polypeptide binding]; other site 640510007073 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510007074 Helix-turn-helix domains; Region: HTH; cl00088 640510007075 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 640510007076 putative effector binding pocket; other site 640510007077 dimerization interface [polypeptide binding]; other site 640510007078 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 640510007079 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 640510007080 substrate binding site [chemical binding]; other site 640510007081 oxyanion hole (OAH) forming residues; other site 640510007082 trimer interface [polypeptide binding]; other site 640510007083 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510007084 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 640510007085 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 640510007086 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640510007087 active site 640510007088 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 640510007089 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 640510007090 active site 640510007091 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 640510007092 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 640510007093 DNA binding residues [nucleotide binding] 640510007094 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 640510007095 IHF dimer interface [polypeptide binding]; other site 640510007096 IHF - DNA interface [nucleotide binding]; other site 640510007097 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 640510007098 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 640510007099 putative tRNA-binding site [nucleotide binding]; other site 640510007100 B3/4 domain; Region: B3_4; cl11458 640510007101 tRNA synthetase B5 domain; Region: B5; cl08394 640510007102 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 640510007103 dimer interface [polypeptide binding]; other site 640510007104 motif 1; other site 640510007105 motif 3; other site 640510007106 motif 2; other site 640510007107 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 640510007108 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 640510007109 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 640510007110 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 640510007111 dimer interface [polypeptide binding]; other site 640510007112 motif 1; other site 640510007113 active site 640510007114 motif 2; other site 640510007115 motif 3; other site 640510007116 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 640510007117 23S rRNA binding site [nucleotide binding]; other site 640510007118 L21 binding site [polypeptide binding]; other site 640510007119 L13 binding site [polypeptide binding]; other site 640510007120 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 640510007121 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 640510007122 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 640510007123 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 640510007124 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 640510007125 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 640510007126 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 640510007127 active site 640510007128 dimer interface [polypeptide binding]; other site 640510007129 motif 1; other site 640510007130 motif 2; other site 640510007131 motif 3; other site 640510007132 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 640510007133 anticodon binding site; other site 640510007134 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 640510007135 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 640510007136 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 640510007137 synthetase active site [active] 640510007138 NTP binding site [chemical binding]; other site 640510007139 metal binding site [ion binding]; metal-binding site 640510007140 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 640510007141 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 640510007142 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 640510007143 homotrimer interaction site [polypeptide binding]; other site 640510007144 putative active site [active] 640510007145 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 640510007146 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640510007147 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 640510007148 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 640510007149 PAS domain; Region: PAS_9; pfam13426 640510007150 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 640510007151 putative active site [active] 640510007152 heme pocket [chemical binding]; other site 640510007153 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 640510007154 DNA binding residues [nucleotide binding] 640510007155 dimerization interface [polypeptide binding]; other site 640510007156 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 640510007157 active site 640510007158 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 640510007159 classical (c) SDRs; Region: SDR_c; cd05233 640510007160 NAD(P) binding site [chemical binding]; other site 640510007161 active site 640510007162 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510007163 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 640510007164 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 640510007165 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 640510007166 TPR repeat; Region: TPR_11; pfam13414 640510007167 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 640510007168 TPR motif; other site 640510007169 binding surface 640510007170 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 640510007171 Tetramer interface [polypeptide binding]; other site 640510007172 active site 640510007173 FMN-binding site [chemical binding]; other site 640510007174 lysophospholipid transporter LplT; Provisional; Region: PRK11195 640510007175 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510007176 putative substrate translocation pore; other site 640510007177 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 640510007178 putative acyl-acceptor binding pocket; other site 640510007179 FOG: CBS domain [General function prediction only]; Region: COG0517 640510007180 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 640510007181 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK08134 640510007182 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 640510007183 homodimer interface [polypeptide binding]; other site 640510007184 substrate-cofactor binding pocket; other site 640510007185 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510007186 catalytic residue [active] 640510007187 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 640510007188 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640510007189 Protein of unknown function (DUF962); Region: DUF962; cl01879 640510007190 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 640510007191 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 640510007192 Predicted membrane protein (DUF2069); Region: DUF2069; cl01299 640510007193 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 640510007194 FAD binding domain; Region: FAD_binding_4; pfam01565 640510007195 Microscilla MS158 and related proteins, metallophosphatase domain; Region: MPP_MS158; cd07404 640510007196 putative active site [active] 640510007197 putative metal binding site [ion binding]; other site 640510007198 transcriptional regulator; Provisional; Region: PRK10632 640510007199 Helix-turn-helix domains; Region: HTH; cl00088 640510007200 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 640510007201 putative effector binding pocket; other site 640510007202 dimerization interface [polypeptide binding]; other site 640510007203 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640510007204 Fusaric acid resistance protein family; Region: FUSC; pfam04632 640510007205 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 640510007206 Protein of unknown function (DUF1656); Region: DUF1656; cl11658 640510007207 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 640510007208 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 640510007209 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 640510007210 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 640510007211 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640510007212 dimer interface [polypeptide binding]; other site 640510007213 putative CheW interface [polypeptide binding]; other site 640510007214 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510007215 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640510007216 putative substrate translocation pore; other site 640510007217 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 640510007218 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 640510007219 AMP-binding enzyme; Region: AMP-binding; cl15778 640510007220 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 640510007221 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 640510007222 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 640510007223 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510007224 Family description; Region: UvrD_C_2; cl15862 640510007225 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 640510007226 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 640510007227 HIGH motif; other site 640510007228 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 640510007229 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 640510007230 active site 640510007231 KMSKS motif; other site 640510007232 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 640510007233 tRNA binding surface [nucleotide binding]; other site 640510007234 anticodon binding site; other site 640510007235 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 640510007236 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 640510007237 active site 640510007238 tetramer interface; other site 640510007239 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 640510007240 CPxP motif; other site 640510007241 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 640510007242 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510007243 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 640510007244 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 640510007245 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510007246 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 640510007247 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 640510007248 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 640510007249 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 640510007250 putative active site [active] 640510007251 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_4; cd06312 640510007252 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640510007253 putative ligand binding site [chemical binding]; other site 640510007254 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 640510007255 TM-ABC transporter signature motif; other site 640510007256 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 640510007257 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510007258 Walker A/P-loop; other site 640510007259 ATP binding site [chemical binding]; other site 640510007260 Q-loop/lid; other site 640510007261 ABC transporter signature motif; other site 640510007262 Walker B; other site 640510007263 D-loop; other site 640510007264 H-loop/switch region; other site 640510007265 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 640510007266 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 640510007267 substrate binding site [chemical binding]; other site 640510007268 ATP binding site [chemical binding]; other site 640510007269 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 640510007270 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 640510007271 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 640510007272 PYR/PP interface [polypeptide binding]; other site 640510007273 dimer interface [polypeptide binding]; other site 640510007274 TPP binding site [chemical binding]; other site 640510007275 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 640510007276 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 640510007277 TPP-binding site [chemical binding]; other site 640510007278 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 640510007279 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 640510007280 KduI/IolB family; Region: KduI; cl01508 640510007281 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 640510007282 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 640510007283 Walker A/P-loop; other site 640510007284 ATP binding site [chemical binding]; other site 640510007285 Q-loop/lid; other site 640510007286 ABC transporter signature motif; other site 640510007287 Walker B; other site 640510007288 D-loop; other site 640510007289 H-loop/switch region; other site 640510007290 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 640510007291 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 640510007292 Walker A/P-loop; other site 640510007293 ATP binding site [chemical binding]; other site 640510007294 Q-loop/lid; other site 640510007295 ABC transporter signature motif; other site 640510007296 Walker B; other site 640510007297 D-loop; other site 640510007298 H-loop/switch region; other site 640510007299 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 640510007300 TM-ABC transporter signature motif; other site 640510007301 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 640510007302 TM-ABC transporter signature motif; other site 640510007303 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 640510007304 active site 640510007305 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 640510007306 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 640510007307 nudix motif; other site 640510007308 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 640510007309 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 640510007310 tetramer interface [polypeptide binding]; other site 640510007311 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510007312 catalytic residue [active] 640510007313 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 640510007314 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510007315 Helix-turn-helix domains; Region: HTH; cl00088 640510007316 The C-terminal substrate binding domain of LysR-type transcriptional regulators, YofA and SoxR, contains the type 2 periplasmic binding fold; Region: PBP2_YofA_SoxR_like; cd08442 640510007317 putative dimerization interface [polypeptide binding]; other site 640510007318 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 640510007319 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 640510007320 motif 1; other site 640510007321 active site 640510007322 motif 2; other site 640510007323 motif 3; other site 640510007324 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 640510007325 DHHA1 domain; Region: DHHA1; pfam02272 640510007326 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 640510007327 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640510007328 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 640510007329 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 640510007330 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 640510007331 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 640510007332 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 640510007333 active site 640510007334 HIGH motif; other site 640510007335 nucleotide binding site [chemical binding]; other site 640510007336 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 640510007337 KMSKS motif; other site 640510007338 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 640510007339 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 640510007340 nudix motif; other site 640510007341 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 640510007342 Phospholipase C [Cell envelope biogenesis, outer membrane]; Region: PlcC; COG3511 640510007343 Phosphoesterase family; Region: Phosphoesterase; cl15450 640510007344 Bacitracin resistance protein BacA; Region: BacA; cl00858 640510007345 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 640510007346 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 640510007347 active site 640510007348 catalytic residues [active] 640510007349 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 640510007350 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 640510007351 Protein of unknown function (DUF2288); Region: DUF2288; cl02399 640510007352 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 640510007353 MatE; Region: MatE; cl10513 640510007354 Protein of unknown function (DUF3309); Region: DUF3309; pfam11752 640510007355 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 640510007356 catalytic core [active] 640510007357 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 640510007358 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 640510007359 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 640510007360 polyphosphate kinase; Provisional; Region: PRK05443 640510007361 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 640510007362 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 640510007363 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 640510007364 putative active site [active] 640510007365 catalytic site [active] 640510007366 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 640510007367 putative domain interface [polypeptide binding]; other site 640510007368 putative active site [active] 640510007369 catalytic site [active] 640510007370 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 640510007371 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 640510007372 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 640510007373 dimer interface [polypeptide binding]; other site 640510007374 phosphorylation site [posttranslational modification] 640510007375 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510007376 ATP binding site [chemical binding]; other site 640510007377 Mg2+ binding site [ion binding]; other site 640510007378 G-X-G motif; other site 640510007379 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 640510007380 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510007381 active site 640510007382 phosphorylation site [posttranslational modification] 640510007383 intermolecular recognition site; other site 640510007384 dimerization interface [polypeptide binding]; other site 640510007385 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 640510007386 DNA binding site [nucleotide binding] 640510007387 transcriptional regulator PhoU; Provisional; Region: PRK11115 640510007388 PhoU domain; Region: PhoU; pfam01895 640510007389 PhoU domain; Region: PhoU; pfam01895 640510007390 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 640510007391 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 640510007392 Walker A/P-loop; other site 640510007393 ATP binding site [chemical binding]; other site 640510007394 Q-loop/lid; other site 640510007395 ABC transporter signature motif; other site 640510007396 Walker B; other site 640510007397 D-loop; other site 640510007398 H-loop/switch region; other site 640510007399 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 640510007400 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510007401 dimer interface [polypeptide binding]; other site 640510007402 conserved gate region; other site 640510007403 putative PBP binding loops; other site 640510007404 ABC-ATPase subunit interface; other site 640510007405 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 640510007406 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510007407 dimer interface [polypeptide binding]; other site 640510007408 conserved gate region; other site 640510007409 putative PBP binding loops; other site 640510007410 ABC-ATPase subunit interface; other site 640510007411 The 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 640510007412 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 640510007413 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 640510007414 active site 640510007415 substrate binding site [chemical binding]; other site 640510007416 metal binding site [ion binding]; metal-binding site 640510007417 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 640510007418 dihydropteroate synthase; Region: DHPS; TIGR01496 640510007419 substrate binding pocket [chemical binding]; other site 640510007420 dimer interface [polypeptide binding]; other site 640510007421 inhibitor binding site; inhibition site 640510007422 FtsH Extracellular; Region: FtsH_ext; pfam06480 640510007423 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 640510007424 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 640510007425 Walker A motif; other site 640510007426 ATP binding site [chemical binding]; other site 640510007427 Walker B motif; other site 640510007428 arginine finger; other site 640510007429 Peptidase family M41; Region: Peptidase_M41; pfam01434 640510007430 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 640510007431 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 640510007432 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 640510007433 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 640510007434 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 640510007435 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 640510007436 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 640510007437 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 640510007438 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 640510007439 ATP-grasp domain; Region: ATP-grasp_4; cl03087 640510007440 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 640510007441 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 640510007442 ATP-grasp domain; Region: ATP-grasp_4; cl03087 640510007443 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 640510007444 IMP binding site; other site 640510007445 dimer interface [polypeptide binding]; other site 640510007446 interdomain contacts; other site 640510007447 partial ornithine binding site; other site 640510007448 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 640510007449 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 640510007450 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 640510007451 catalytic site [active] 640510007452 subunit interface [polypeptide binding]; other site 640510007453 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 640510007454 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 640510007455 N-acetyl-D-glucosamine binding site [chemical binding]; other site 640510007456 catalytic residue [active] 640510007457 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 640510007458 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 640510007459 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 640510007460 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 640510007461 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 640510007462 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 640510007463 RNA/DNA hybrid binding site [nucleotide binding]; other site 640510007464 active site 640510007465 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 640510007466 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 640510007467 active site 640510007468 catalytic site [active] 640510007469 substrate binding site [chemical binding]; other site 640510007470 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 640510007471 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 640510007472 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 640510007473 Walker A/P-loop; other site 640510007474 ATP binding site [chemical binding]; other site 640510007475 Q-loop/lid; other site 640510007476 ABC transporter signature motif; other site 640510007477 Walker B; other site 640510007478 D-loop; other site 640510007479 H-loop/switch region; other site 640510007480 Predicted membrane protein (DUF2214); Region: DUF2214; cl01427 640510007481 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 640510007482 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640510007483 putative ADP-binding pocket [chemical binding]; other site 640510007484 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 640510007485 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 640510007486 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510007487 Walker A/P-loop; other site 640510007488 ATP binding site [chemical binding]; other site 640510007489 Q-loop/lid; other site 640510007490 ABC transporter signature motif; other site 640510007491 Walker B; other site 640510007492 D-loop; other site 640510007493 H-loop/switch region; other site 640510007494 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 640510007495 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 640510007496 active site 640510007497 homotetramer interface [polypeptide binding]; other site 640510007498 Trehalose-6-phosphatase [Carbohydrate transport and metabolism]; Region: OtsB; COG1877 640510007499 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 640510007500 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 640510007501 Cu(I) binding site [ion binding]; other site 640510007502 Protein of unknown function (DUF461); Region: DUF461; cl01071 640510007503 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; cl09173 640510007504 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 640510007505 TraB family; Region: TraB; cl12050 640510007506 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 640510007507 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 640510007508 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 640510007509 GIY-YIG motif/motif A; other site 640510007510 active site 640510007511 catalytic site [active] 640510007512 putative DNA binding site [nucleotide binding]; other site 640510007513 metal binding site [ion binding]; metal-binding site 640510007514 UvrB/uvrC motif; Region: UVR; pfam02151 640510007515 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 640510007516 ERCC4-type nuclease [DNA replication, recombination, and repair]; Region: MUS81; COG1948 640510007517 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; cl01823 640510007518 elongation factor P; Validated; Region: PRK00529 640510007519 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 640510007520 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 640510007521 RNA binding site [nucleotide binding]; other site 640510007522 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 640510007523 RNA binding site [nucleotide binding]; other site 640510007524 CsbD-like; Region: CsbD; cl15799 640510007525 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 640510007526 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510007527 active site 640510007528 phosphorylation site [posttranslational modification] 640510007529 intermolecular recognition site; other site 640510007530 dimerization interface [polypeptide binding]; other site 640510007531 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 640510007532 Walker A motif; other site 640510007533 ATP binding site [chemical binding]; other site 640510007534 Walker B motif; other site 640510007535 Helix-turn-helix domains; Region: HTH; cl00088 640510007536 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 640510007537 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 640510007538 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 640510007539 active site 640510007540 hydrophilic channel; other site 640510007541 dimerization interface [polypeptide binding]; other site 640510007542 catalytic residues [active] 640510007543 active site lid [active] 640510007544 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 640510007545 Recombination protein O N terminal; Region: RecO_N; cl15812 640510007546 Recombination protein O C terminal; Region: RecO_C; pfam02565 640510007547 GTPase Era; Reviewed; Region: era; PRK00089 640510007548 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 640510007549 G1 box; other site 640510007550 GTP/Mg2+ binding site [chemical binding]; other site 640510007551 Switch I region; other site 640510007552 G2 box; other site 640510007553 Switch II region; other site 640510007554 G3 box; other site 640510007555 G4 box; other site 640510007556 G5 box; other site 640510007557 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 640510007558 ribonuclease III; Reviewed; Region: PRK12372 640510007559 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 640510007560 dimerization interface [polypeptide binding]; other site 640510007561 active site 640510007562 metal binding site [ion binding]; metal-binding site 640510007563 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 640510007564 signal peptidase I; Provisional; Region: PRK10861 640510007565 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 640510007566 Catalytic site [active] 640510007567 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 640510007568 GTP-binding protein LepA; Provisional; Region: PRK05433 640510007569 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 640510007570 G1 box; other site 640510007571 putative GEF interaction site [polypeptide binding]; other site 640510007572 GTP/Mg2+ binding site [chemical binding]; other site 640510007573 Switch I region; other site 640510007574 G2 box; other site 640510007575 G3 box; other site 640510007576 Switch II region; other site 640510007577 G4 box; other site 640510007578 G5 box; other site 640510007579 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 640510007580 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 640510007581 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 640510007582 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 640510007583 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 640510007584 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 640510007585 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 640510007586 protein binding site [polypeptide binding]; other site 640510007587 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 640510007588 protein binding site [polypeptide binding]; other site 640510007589 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 640510007590 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 640510007591 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 640510007592 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 640510007593 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640510007594 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 640510007595 DNA binding residues [nucleotide binding] 640510007596 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 640510007597 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 640510007598 dimer interface [polypeptide binding]; other site 640510007599 active site 640510007600 Phosphopantetheine attachment site; Region: PP-binding; cl09936 640510007601 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 640510007602 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 640510007603 NAD(P) binding site [chemical binding]; other site 640510007604 homotetramer interface [polypeptide binding]; other site 640510007605 homodimer interface [polypeptide binding]; other site 640510007606 active site 640510007607 Acyl transferase domain; Region: Acyl_transf_1; cl08282 640510007608 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 640510007609 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 640510007610 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 640510007611 dimer interface [polypeptide binding]; other site 640510007612 active site 640510007613 CoA binding pocket [chemical binding]; other site 640510007614 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 640510007615 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 640510007616 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 640510007617 Maf-like protein; Region: Maf; pfam02545 640510007618 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 640510007619 active site 640510007620 dimer interface [polypeptide binding]; other site 640510007621 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 640510007622 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 640510007623 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 640510007624 tandem repeat interface [polypeptide binding]; other site 640510007625 oligomer interface [polypeptide binding]; other site 640510007626 active site residues [active] 640510007627 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 640510007628 iron-sulfur cluster [ion binding]; other site 640510007629 [2Fe-2S] cluster binding site [ion binding]; other site 640510007630 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 640510007631 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 640510007632 motif II; other site 640510007633 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 640510007634 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 640510007635 RNA binding surface [nucleotide binding]; other site 640510007636 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 640510007637 active site 640510007638 ribonuclease E; Reviewed; Region: rne; PRK10811 640510007639 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 640510007640 homodimer interface [polypeptide binding]; other site 640510007641 oligonucleotide binding site [chemical binding]; other site 640510007642 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 640510007643 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 640510007644 FeS/SAM binding site; other site 640510007645 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 640510007646 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 640510007647 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 640510007648 GTP binding site; other site 640510007649 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 640510007650 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 640510007651 dimer interface [polypeptide binding]; other site 640510007652 putative functional site; other site 640510007653 putative MPT binding site; other site 640510007654 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 640510007655 RmuC family; Region: RmuC; pfam02646 640510007656 glyoxylate reductase; Reviewed; Region: PRK13243 640510007657 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510007658 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 640510007659 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 640510007660 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 640510007661 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 640510007662 active site 640510007663 Ferredoxin [Energy production and conversion]; Region: COG1146 640510007664 4Fe-4S binding domain; Region: Fer4; cl02805 640510007665 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 640510007666 CreA protein; Region: CreA; pfam05981 640510007667 Cupin domain; Region: Cupin_2; cl09118 640510007668 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510007669 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640510007670 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510007671 AzlC protein; Region: AzlC; cl00570 640510007672 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 640510007673 Protein of unknown function (DUF4088); Region: DUF4088; pfam13317 640510007674 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 640510007675 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510007676 Family description; Region: UvrD_C_2; cl15862 640510007677 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 640510007678 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 640510007679 RNA binding surface [nucleotide binding]; other site 640510007680 multidrug efflux protein; Reviewed; Region: PRK01766 640510007681 MatE; Region: MatE; cl10513 640510007682 MatE; Region: MatE; cl10513 640510007683 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 640510007684 Membrane transport protein; Region: Mem_trans; cl09117 640510007685 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 640510007686 PLD-like domain; Region: PLDc_2; pfam13091 640510007687 putative active site [active] 640510007688 catalytic site [active] 640510007689 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 640510007690 PLD-like domain; Region: PLDc_2; pfam13091 640510007691 putative active site [active] 640510007692 catalytic site [active] 640510007693 fumarate hydratase; Reviewed; Region: fumC; PRK00485 640510007694 Class II fumarases; Region: Fumarase_classII; cd01362 640510007695 active site 640510007696 tetramer interface [polypeptide binding]; other site 640510007697 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 640510007698 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 640510007699 conserved cys residue [active] 640510007700 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640510007701 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510007702 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640510007703 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510007704 putative substrate translocation pore; other site 640510007705 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 640510007706 dimerization interface [polypeptide binding]; other site 640510007707 putative DNA binding site [nucleotide binding]; other site 640510007708 putative Zn2+ binding site [ion binding]; other site 640510007709 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 640510007710 dimerization interface [polypeptide binding]; other site 640510007711 active site 640510007712 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 640510007713 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 640510007714 Walker A motif; other site 640510007715 ATP binding site [chemical binding]; other site 640510007716 Walker B motif; other site 640510007717 arginine finger; other site 640510007718 Helix-turn-helix domains; Region: HTH; cl00088 640510007719 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 640510007720 folate binding site [chemical binding]; other site 640510007721 NADP+ binding site [chemical binding]; other site 640510007722 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 640510007723 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 640510007724 Protein of unknown function (DUF615); Region: DUF615; cl01147 640510007725 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 640510007726 MPT binding site; other site 640510007727 trimer interface [polypeptide binding]; other site 640510007728 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 640510007729 catalytic site [active] 640510007730 putative active site [active] 640510007731 putative substrate binding site [chemical binding]; other site 640510007732 dimer interface [polypeptide binding]; other site 640510007733 Peptidase family M48; Region: Peptidase_M48; cl12018 640510007734 GTPase RsgA; Reviewed; Region: PRK00098 640510007735 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 640510007736 RNA binding site [nucleotide binding]; other site 640510007737 homodimer interface [polypeptide binding]; other site 640510007738 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 640510007739 GTPase/Zn-binding domain interface [polypeptide binding]; other site 640510007740 GTP/Mg2+ binding site [chemical binding]; other site 640510007741 G4 box; other site 640510007742 G5 box; other site 640510007743 G1 box; other site 640510007744 Switch I region; other site 640510007745 G2 box; other site 640510007746 G3 box; other site 640510007747 Switch II region; other site 640510007748 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 640510007749 CobD/Cbib protein; Region: CobD_Cbib; cl00561 640510007750 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 640510007751 putative active site [active] 640510007752 putative CoA binding site [chemical binding]; other site 640510007753 nudix motif; other site 640510007754 metal binding site [ion binding]; metal-binding site 640510007755 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 640510007756 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 640510007757 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 640510007758 RimM N-terminal domain; Region: RimM; pfam01782 640510007759 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 640510007760 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 640510007761 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 640510007762 Domain of unknown function (DUF373); Region: DUF373; cl12079 640510007763 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 640510007764 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 640510007765 FeS/SAM binding site; other site 640510007766 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 640510007767 Helix-turn-helix domains; Region: HTH; cl00088 640510007768 AsnC family; Region: AsnC_trans_reg; pfam01037 640510007769 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 640510007770 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 640510007771 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 640510007772 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640510007773 active site 640510007774 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 640510007775 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 640510007776 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 640510007777 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 640510007778 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 640510007779 Ligand binding site [chemical binding]; other site 640510007780 Electron transfer flavoprotein domain; Region: ETF; pfam01012 640510007781 NMT1-like family; Region: NMT1_2; cl15260 640510007782 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510007783 dimer interface [polypeptide binding]; other site 640510007784 conserved gate region; other site 640510007785 ABC-ATPase subunit interface; other site 640510007786 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 640510007787 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 640510007788 Walker A/P-loop; other site 640510007789 ATP binding site [chemical binding]; other site 640510007790 Q-loop/lid; other site 640510007791 ABC transporter signature motif; other site 640510007792 Walker B; other site 640510007793 D-loop; other site 640510007794 H-loop/switch region; other site 640510007795 NIL domain; Region: NIL; cl09633 640510007796 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 640510007797 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 640510007798 enoyl-CoA hydratase; Validated; Region: PRK08139 640510007799 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 640510007800 substrate binding site [chemical binding]; other site 640510007801 oxyanion hole (OAH) forming residues; other site 640510007802 trimer interface [polypeptide binding]; other site 640510007803 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 640510007804 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 640510007805 Transglycosylase SLT domain; Region: SLT_2; pfam13406 640510007806 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 640510007807 cysteine synthase B; Region: cysM; TIGR01138 640510007808 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 640510007809 dimer interface [polypeptide binding]; other site 640510007810 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510007811 catalytic residue [active] 640510007812 Protein of unknown function, DUF655; Region: DUF655; pfam04919 640510007813 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 640510007814 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 640510007815 NADP binding site [chemical binding]; other site 640510007816 homopentamer interface [polypeptide binding]; other site 640510007817 substrate binding site [chemical binding]; other site 640510007818 active site 640510007819 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 640510007820 putative ribose interaction site [chemical binding]; other site 640510007821 putative ADP binding site [chemical binding]; other site 640510007822 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 640510007823 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510007824 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 640510007825 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510007826 tetratricopeptide repeat protein; Provisional; Region: PRK11788 640510007827 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 640510007828 binding surface 640510007829 TPR motif; other site 640510007830 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 640510007831 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 640510007832 IHF dimer interface [polypeptide binding]; other site 640510007833 IHF - DNA interface [nucleotide binding]; other site 640510007834 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 640510007835 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 640510007836 RNA binding site [nucleotide binding]; other site 640510007837 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 640510007838 RNA binding site [nucleotide binding]; other site 640510007839 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 640510007840 RNA binding site [nucleotide binding]; other site 640510007841 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 640510007842 RNA binding site [nucleotide binding]; other site 640510007843 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 640510007844 RNA binding site [nucleotide binding]; other site 640510007845 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 640510007846 RNA binding site [nucleotide binding]; other site 640510007847 cytidylate kinase; Provisional; Region: cmk; PRK00023 640510007848 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 640510007849 CMP-binding site; other site 640510007850 3-phosphoshikimate 1-carboxyvinyltransferase; Region: PLN02338 640510007851 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 640510007852 hinge; other site 640510007853 active site 640510007854 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510007855 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 640510007856 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 640510007857 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510007858 homodimer interface [polypeptide binding]; other site 640510007859 catalytic residue [active] 640510007860 Chorismate mutase type II; Region: CM_2; cl00693 640510007861 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 640510007862 Prephenate dehydratase; Region: PDT; pfam00800 640510007863 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 640510007864 putative L-Phe binding site [chemical binding]; other site 640510007865 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 640510007866 homodimer interface [polypeptide binding]; other site 640510007867 substrate-cofactor binding pocket; other site 640510007868 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510007869 catalytic residue [active] 640510007870 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 640510007871 DNA gyrase subunit A; Validated; Region: PRK05560 640510007872 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 640510007873 CAP-like domain; other site 640510007874 active site 640510007875 primary dimer interface [polypeptide binding]; other site 640510007876 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 640510007877 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 640510007878 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 640510007879 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 640510007880 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 640510007881 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 640510007882 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640510007883 ligand binding site [chemical binding]; other site 640510007884 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 640510007885 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 640510007886 S-adenosylmethionine binding site [chemical binding]; other site 640510007887 phosphoglycolate phosphatase; Provisional; Region: PRK13222 640510007888 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 640510007889 motif II; other site 640510007890 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 640510007891 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 640510007892 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 640510007893 putative active site [active] 640510007894 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 640510007895 The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a...; Region: ABCC_MRP_Like; cd03228 640510007896 Walker A/P-loop; other site 640510007897 ATP binding site [chemical binding]; other site 640510007898 Q-loop/lid; other site 640510007899 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 640510007900 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 640510007901 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 640510007902 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 640510007903 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 640510007904 Helix-turn-helix domains; Region: HTH; cl00088 640510007905 putative molybdopterin biosynthesis protein MoeA/LysR substrate binding-domain-containing protein; Provisional; Region: PRK14498 640510007906 The 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 640510007907 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 640510007908 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 640510007909 putative dimer interface [polypeptide binding]; other site 640510007910 [2Fe-2S] cluster binding site [ion binding]; other site 640510007911 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 640510007912 putative dimer interface [polypeptide binding]; other site 640510007913 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 640510007914 SLBB domain; Region: SLBB; pfam10531 640510007915 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 640510007916 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 640510007917 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 640510007918 catalytic loop [active] 640510007919 iron binding site [ion binding]; other site 640510007920 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 640510007921 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 640510007922 [4Fe-4S] binding site [ion binding]; other site 640510007923 molybdopterin cofactor binding site; other site 640510007924 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 640510007925 molybdopterin cofactor binding site; other site 640510007926 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 640510007927 hypothetical protein; Provisional; Region: PRK06184 640510007928 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510007929 Cation efflux family; Region: Cation_efflux; cl00316 640510007930 Helix-turn-helix domains; Region: HTH; cl00088 640510007931 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 640510007932 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 640510007933 binding surface 640510007934 TPR motif; other site 640510007935 Tetratricopeptide repeat; Region: TPR_12; pfam13424 640510007936 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 640510007937 binding surface 640510007938 TPR motif; other site 640510007939 TPR repeat; Region: TPR_11; pfam13414 640510007940 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 640510007941 binding surface 640510007942 TPR motif; other site 640510007943 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 640510007944 binding surface 640510007945 Tetratricopeptide repeat; Region: TPR_16; pfam13432 640510007946 TPR motif; other site 640510007947 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 640510007948 ADP-heptose:LPS heptosyltransferase II; Provisional; Region: PRK10916; cl15782 640510007949 citrate-proton symporter; Provisional; Region: PRK15075 640510007950 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510007951 putative substrate translocation pore; other site 640510007952 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 640510007953 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640510007954 Coenzyme A binding pocket [chemical binding]; other site 640510007955 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 640510007956 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 640510007957 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 640510007958 catalytic triad [active] 640510007959 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 640510007960 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 640510007961 Protein of unknown function (DUF2848); Region: DUF2848; pfam11010 640510007962 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510007963 D-galactonate transporter; Region: 2A0114; TIGR00893 640510007964 putative substrate translocation pore; other site 640510007965 Transcriptional regulators [Transcription]; Region: GntR; COG1802 640510007966 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510007967 DNA-binding site [nucleotide binding]; DNA binding site 640510007968 FCD domain; Region: FCD; cl11656 640510007969 amidase; Provisional; Region: PRK07056 640510007970 Amidase; Region: Amidase; cl11426 640510007971 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 640510007972 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 640510007973 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 640510007974 catalytic loop [active] 640510007975 iron binding site [ion binding]; other site 640510007976 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 640510007977 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 640510007978 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 640510007979 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 640510007980 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640510007981 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 640510007982 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 640510007983 XdhC Rossmann domain; Region: XdhC_C; pfam13478 640510007984 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 640510007985 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 640510007986 active site 640510007987 purine riboside binding site [chemical binding]; other site 640510007988 guanine deaminase; Provisional; Region: PRK09228 640510007989 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 640510007990 active site 640510007991 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 640510007992 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510007993 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 640510007994 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 640510007995 S-adenosylmethionine binding site [chemical binding]; other site 640510007996 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 640510007997 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 640510007998 dimer interface [polypeptide binding]; other site 640510007999 active site 640510008000 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 640510008001 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 640510008002 dimer interface [polypeptide binding]; other site 640510008003 active site 640510008004 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640510008005 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510008006 NAD(P) binding site [chemical binding]; other site 640510008007 active site 640510008008 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 640510008009 putative active site 1 [active] 640510008010 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 640510008011 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 640510008012 dimer interface [polypeptide binding]; other site 640510008013 active site 640510008014 Predicted exporter [General function prediction only]; Region: COG4258 640510008015 Protein export membrane protein; Region: SecD_SecF; cl14618 640510008016 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 640510008017 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 640510008018 active site 640510008019 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 640510008020 active sites [active] 640510008021 tetramer interface [polypeptide binding]; other site 640510008022 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 640510008023 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 640510008024 Ligand binding site; other site 640510008025 Putative Catalytic site; other site 640510008026 DXD motif; other site 640510008027 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 640510008028 putative acyl-acceptor binding pocket; other site 640510008029 AMP-binding enzyme; Region: AMP-binding; cl15778 640510008030 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 640510008031 active site 2 [active] 640510008032 dimer interface [polypeptide binding]; other site 640510008033 active site 1 [active] 640510008034 Predicted membrane protein [Function unknown]; Region: COG4648 640510008035 Phosphopantetheine attachment site; Region: PP-binding; cl09936 640510008036 Phosphopantetheine attachment site; Region: PP-binding; cl09936 640510008037 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 640510008038 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 640510008039 putative acyl-acceptor binding pocket; other site 640510008040 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 640510008041 Predicted membrane protein [Function unknown]; Region: COG2119 640510008042 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 640510008043 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 640510008044 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 640510008045 aminopeptidase N; Provisional; Region: pepN; PRK14015 640510008046 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 640510008047 active site 640510008048 Zn binding site [ion binding]; other site 640510008049 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 640510008050 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 640510008051 fructose-1,6-bisphosphatase family protein; Region: PLN02628 640510008052 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 640510008053 AMP binding site [chemical binding]; other site 640510008054 metal binding site [ion binding]; metal-binding site 640510008055 active site 640510008056 Chorismate mutase type II; Region: CM_2; cl00693 640510008057 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 640510008058 active site 640510008059 catalytic site [active] 640510008060 substrate binding site [chemical binding]; other site 640510008061 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 640510008062 GIY-YIG motif/motif A; other site 640510008063 active site 640510008064 catalytic site [active] 640510008065 putative DNA binding site [nucleotide binding]; other site 640510008066 metal binding site [ion binding]; metal-binding site 640510008067 nucleotide excision repair endonuclease; Provisional; Region: PRK10545 640510008068 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 640510008069 DNA-binding site [nucleotide binding]; DNA binding site 640510008070 RNA-binding motif; other site 640510008071 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 640510008072 trimer interface [polypeptide binding]; other site 640510008073 eyelet of channel; other site 640510008074 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 640510008075 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 640510008076 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 640510008077 Protein of unknown function (DUF2591); Region: DUF2591; cl11584 640510008078 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 640510008079 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 640510008080 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 640510008081 synthetase active site [active] 640510008082 NTP binding site [chemical binding]; other site 640510008083 metal binding site [ion binding]; metal-binding site 640510008084 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 640510008085 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 640510008086 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 640510008087 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 640510008088 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 640510008089 catalytic site [active] 640510008090 G-X2-G-X-G-K; other site 640510008091 hypothetical protein; Provisional; Region: PRK11820 640510008092 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 640510008093 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 640510008094 ribonuclease PH; Reviewed; Region: rph; PRK00173 640510008095 Ribonuclease PH; Region: RNase_PH_bact; cd11362 640510008096 hexamer interface [polypeptide binding]; other site 640510008097 active site 640510008098 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 640510008099 active site 640510008100 dimerization interface [polypeptide binding]; other site 640510008101 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 640510008102 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 640510008103 FeS/SAM binding site; other site 640510008104 HemN C-terminal domain; Region: HemN_C; pfam06969 640510008105 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510008106 putative substrate translocation pore; other site 640510008107 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 640510008108 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 640510008109 inhibitor-cofactor binding pocket; inhibition site 640510008110 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510008111 catalytic residue [active] 640510008112 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 640510008113 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 640510008114 catalytic motif [active] 640510008115 Zn binding site [ion binding]; other site 640510008116 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 640510008117 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 640510008118 Lumazine binding domain; Region: Lum_binding; pfam00677 640510008119 Lumazine binding domain; Region: Lum_binding; pfam00677 640510008120 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 640510008121 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 640510008122 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 640510008123 dimerization interface [polypeptide binding]; other site 640510008124 active site 640510008125 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 640510008126 homopentamer interface [polypeptide binding]; other site 640510008127 active site 640510008128 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 640510008129 putative RNA binding site [nucleotide binding]; other site 640510008130 aminotransferase; Validated; Region: PRK07337 640510008131 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 640510008132 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510008133 homodimer interface [polypeptide binding]; other site 640510008134 catalytic residue [active] 640510008135 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 640510008136 N-acetyl-D-glucosamine binding site [chemical binding]; other site 640510008137 catalytic residue [active] 640510008138 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 640510008139 LysE type translocator; Region: LysE; cl00565 640510008140 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 640510008141 tetramer interface [polypeptide binding]; other site 640510008142 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 640510008143 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510008144 catalytic residue [active] 640510008145 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510008146 Uncharacterized conserved protein [Function unknown]; Region: COG5495 640510008147 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 640510008148 Stress responsive A/B Barrel Domain; Region: Dabb; cl15807 640510008149 YGGT family; Region: YGGT; cl00508 640510008150 YGGT family; Region: YGGT; cl00508 640510008151 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 640510008152 S-adenosylmethionine binding site [chemical binding]; other site 640510008153 Bacitracin resistance protein BacA; Region: BacA; cl00858 640510008154 Protein of unknown function (DUF1439); Region: DUF1439; cl06345 640510008155 Flagellin N-methylase; Region: FliB; cl00497 640510008156 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 640510008157 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 640510008158 FeS/SAM binding site; other site 640510008159 HemN C-terminal domain; Region: HemN_C; pfam06969 640510008160 conserved hypothetical protein; Region: Lon_rel_chp; TIGR02653 640510008161 Putative ATP-dependent Lon protease; Region: Lon_2; cl11979 640510008162 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 640510008163 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 640510008164 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 640510008165 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 640510008166 Restriction endonuclease [Defense mechanisms]; Region: Mrr; COG1715 640510008167 Mrr N-terminal domain; Region: Mrr_N; pfam14338 640510008168 Restriction endonuclease; Region: Mrr_cat; cl00516 640510008169 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 640510008170 generic binding surface II; other site 640510008171 generic binding surface I; other site 640510008172 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 640510008173 non-specific DNA binding site [nucleotide binding]; other site 640510008174 salt bridge; other site 640510008175 sequence-specific DNA binding site [nucleotide binding]; other site 640510008176 Domain of unknown function (DUF955); Region: DUF955; cl01076 640510008177 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 640510008178 Domain of unknown function (DUF4102); Region: DUF4102; pfam13356 640510008179 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 640510008180 active site 640510008181 DNA binding site [nucleotide binding] 640510008182 Int/Topo IB signature motif; other site 640510008183 aromatic amino acid transporter; Provisional; Region: PRK10238 640510008184 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 640510008185 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640510008186 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_1; cd08663 640510008187 SxDxEG motif; other site 640510008188 active site 640510008189 metal binding site [ion binding]; metal-binding site 640510008190 homopentamer interface [polypeptide binding]; other site 640510008191 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 640510008192 homodimer interface [polypeptide binding]; other site 640510008193 homotetramer interface [polypeptide binding]; other site 640510008194 active site pocket [active] 640510008195 cleavage site 640510008196 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 640510008197 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 640510008198 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510008199 dimer interface [polypeptide binding]; other site 640510008200 conserved gate region; other site 640510008201 putative PBP binding loops; other site 640510008202 ABC-ATPase subunit interface; other site 640510008203 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 640510008204 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510008205 dimer interface [polypeptide binding]; other site 640510008206 conserved gate region; other site 640510008207 putative PBP binding loops; other site 640510008208 ABC-ATPase subunit interface; other site 640510008209 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 640510008210 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 640510008211 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 640510008212 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 640510008213 Walker A/P-loop; other site 640510008214 ATP binding site [chemical binding]; other site 640510008215 Q-loop/lid; other site 640510008216 ABC transporter signature motif; other site 640510008217 Walker B; other site 640510008218 D-loop; other site 640510008219 H-loop/switch region; other site 640510008220 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640510008221 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 640510008222 Walker A/P-loop; other site 640510008223 ATP binding site [chemical binding]; other site 640510008224 Q-loop/lid; other site 640510008225 ABC transporter signature motif; other site 640510008226 Walker B; other site 640510008227 D-loop; other site 640510008228 H-loop/switch region; other site 640510008229 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640510008230 Ntn-hydrolase superfamily, L-Asparaginase type 2-like enzymes. This family includes Glycosylasparaginase, Taspase 1 and L-Asparaginase type 2 enzymes. Glycosylasparaginase catalyzes the hydrolysis of the glycosylamide bond of asparagine-linked...; Region: Ntn_Asparaginase_2_like; cl00635 640510008231 active site 640510008232 dimer interface [polypeptide binding]; other site 640510008233 catalytic nucleophile [active] 640510008234 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 640510008235 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 640510008236 putative active site [active] 640510008237 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 640510008238 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 640510008239 active site 640510008240 uracil binding [chemical binding]; other site 640510008241 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 640510008242 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510008243 NAD(P) binding site [chemical binding]; other site 640510008244 active site 640510008245 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 640510008246 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 640510008247 catalytic loop [active] 640510008248 iron binding site [ion binding]; other site 640510008249 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 640510008250 FAD binding pocket [chemical binding]; other site 640510008251 FAD binding motif [chemical binding]; other site 640510008252 phosphate binding motif [ion binding]; other site 640510008253 beta-alpha-beta structure motif; other site 640510008254 NAD binding pocket [chemical binding]; other site 640510008255 acetylornithine transaminase protein; Provisional; Region: argD; PRK03715 640510008256 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 640510008257 inhibitor-cofactor binding pocket; inhibition site 640510008258 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510008259 catalytic residue [active] 640510008260 putative acetyltransferase; Provisional; Region: PRK03624 640510008261 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640510008262 Coenzyme A binding pocket [chemical binding]; other site 640510008263 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 640510008264 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 640510008265 Walker A/P-loop; other site 640510008266 ATP binding site [chemical binding]; other site 640510008267 Q-loop/lid; other site 640510008268 ABC transporter signature motif; other site 640510008269 Walker B; other site 640510008270 D-loop; other site 640510008271 H-loop/switch region; other site 640510008272 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 640510008273 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 640510008274 Walker A/P-loop; other site 640510008275 ATP binding site [chemical binding]; other site 640510008276 Q-loop/lid; other site 640510008277 ABC transporter signature motif; other site 640510008278 Walker B; other site 640510008279 D-loop; other site 640510008280 H-loop/switch region; other site 640510008281 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 640510008282 TM-ABC transporter signature motif; other site 640510008283 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 640510008284 TM-ABC transporter signature motif; other site 640510008285 leucine ABC transporter subunit substrate-binding protein LivK; Provisional; Region: PRK15404 640510008286 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 640510008287 dimerization interface [polypeptide binding]; other site 640510008288 ligand binding site [chemical binding]; other site 640510008289 LytB protein; Region: LYTB; cl00507 640510008290 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 640510008291 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 640510008292 hypothetical protein; Reviewed; Region: PRK00024 640510008293 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 640510008294 MPN+ (JAMM) motif; other site 640510008295 Zinc-binding site [ion binding]; other site 640510008296 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 640510008297 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 640510008298 L-aspartate oxidase; Provisional; Region: PRK09077 640510008299 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510008300 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 640510008301 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06978 640510008302 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 640510008303 dimerization interface [polypeptide binding]; other site 640510008304 active site 640510008305 Quinolinate synthetase A protein; Region: NadA; cl00420 640510008306 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 640510008307 Di-iron ligands [ion binding]; other site 640510008308 Transposase; Region: DDE_Tnp_ISL3; pfam01610 640510008309 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 640510008310 Mechanosensitive ion channel; Region: MS_channel; pfam00924 640510008311 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 640510008312 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 640510008313 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 640510008314 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 640510008315 active site 640510008316 substrate binding site [chemical binding]; other site 640510008317 cosubstrate binding site; other site 640510008318 catalytic site [active] 640510008319 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 640510008320 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 640510008321 active site 640510008322 Riboflavin kinase; Region: Flavokinase; cl03312 640510008323 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 640510008324 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 640510008325 active site 640510008326 HIGH motif; other site 640510008327 nucleotide binding site [chemical binding]; other site 640510008328 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 640510008329 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 640510008330 active site 640510008331 KMSKS motif; other site 640510008332 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 640510008333 tRNA binding surface [nucleotide binding]; other site 640510008334 anticodon binding site; other site 640510008335 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 640510008336 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 640510008337 lipoprotein signal peptidase; Provisional; Region: PRK14787 640510008338 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 640510008339 Flavoprotein; Region: Flavoprotein; cl08021 640510008340 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 640510008341 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 640510008342 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 640510008343 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 640510008344 trimer interface [polypeptide binding]; other site 640510008345 active site 640510008346 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 640510008347 Clp amino terminal domain; Region: Clp_N; pfam02861 640510008348 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 640510008349 Walker A motif; other site 640510008350 ATP binding site [chemical binding]; other site 640510008351 Walker B motif; other site 640510008352 arginine finger; other site 640510008353 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 640510008354 Walker A motif; other site 640510008355 ATP binding site [chemical binding]; other site 640510008356 Walker B motif; other site 640510008357 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 640510008358 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 640510008359 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 640510008360 DNA-binding site [nucleotide binding]; DNA binding site 640510008361 RNA-binding motif; other site 640510008362 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 640510008363 putative effector binding pocket; other site 640510008364 putative dimerization interface [polypeptide binding]; other site 640510008365 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 640510008366 PAAR motif; Region: PAAR_motif; cl15808 640510008367 isocitrate dehydrogenase; Validated; Region: PRK07362 640510008368 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 640510008369 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 640510008370 pseudouridine synthase; Region: TIGR00093 640510008371 active site 640510008372 Uncharacterized ACR, COG1430; Region: DUF192; cl00627 640510008373 elongation factor G; Reviewed; Region: PRK00007 640510008374 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 640510008375 G1 box; other site 640510008376 putative GEF interaction site [polypeptide binding]; other site 640510008377 GTP/Mg2+ binding site [chemical binding]; other site 640510008378 Switch I region; other site 640510008379 G2 box; other site 640510008380 G3 box; other site 640510008381 Switch II region; other site 640510008382 G4 box; other site 640510008383 G5 box; other site 640510008384 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 640510008385 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 640510008386 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 640510008387 Cupin domain; Region: Cupin_2; cl09118 640510008388 High-affinity nickel-transport protein; Region: NicO; cl00964 640510008389 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 640510008390 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 640510008391 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 640510008392 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510008393 dimer interface [polypeptide binding]; other site 640510008394 conserved gate region; other site 640510008395 putative PBP binding loops; other site 640510008396 ABC-ATPase subunit interface; other site 640510008397 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 640510008398 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510008399 putative PBP binding loops; other site 640510008400 dimer interface [polypeptide binding]; other site 640510008401 ABC-ATPase subunit interface; other site 640510008402 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 640510008403 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 640510008404 Walker A/P-loop; other site 640510008405 ATP binding site [chemical binding]; other site 640510008406 Q-loop/lid; other site 640510008407 ABC transporter signature motif; other site 640510008408 Walker B; other site 640510008409 D-loop; other site 640510008410 H-loop/switch region; other site 640510008411 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640510008412 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 640510008413 Walker A/P-loop; other site 640510008414 ATP binding site [chemical binding]; other site 640510008415 Q-loop/lid; other site 640510008416 ABC transporter signature motif; other site 640510008417 Walker B; other site 640510008418 D-loop; other site 640510008419 H-loop/switch region; other site 640510008420 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640510008421 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 640510008422 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 640510008423 active site 640510008424 catalytic tetrad [active] 640510008425 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 640510008426 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510008427 DNA-binding site [nucleotide binding]; DNA binding site 640510008428 UTRA domain; Region: UTRA; cl01230 640510008429 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 640510008430 mesaconyl-CoA isomerase; Region: mesacon_CoA_iso; TIGR04253 640510008431 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640510008432 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 640510008433 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 640510008434 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 640510008435 dimer interface [polypeptide binding]; other site 640510008436 active site 640510008437 oxalacetate/citrate binding site [chemical binding]; other site 640510008438 citrylCoA binding site [chemical binding]; other site 640510008439 coenzyme A binding site [chemical binding]; other site 640510008440 catalytic triad [active] 640510008441 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 640510008442 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 640510008443 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510008444 DNA-binding site [nucleotide binding]; DNA binding site 640510008445 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 640510008446 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510008447 homodimer interface [polypeptide binding]; other site 640510008448 catalytic residue [active] 640510008449 putative transporter; Provisional; Region: PRK10504 640510008450 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510008451 putative substrate translocation pore; other site 640510008452 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 640510008453 RNA polymerase sigma-70 factor, TIGR02957 family; Region: SigX4 640510008454 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 640510008455 Clp protease; Region: CLP_protease; pfam00574 640510008456 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 640510008457 oligomer interface [polypeptide binding]; other site 640510008458 active site residues [active] 640510008459 Uncharacterized conserved protein [Function unknown]; Region: COG1432 640510008460 LabA_like proteins; Region: LabA_like; cd06167 640510008461 putative metal binding site [ion binding]; other site 640510008462 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 640510008463 Glycine-zipper containing OmpA-like membrane domain; Region: Gly-zipper_OmpA; pfam13436 640510008464 superoxide dismutase; Provisional; Region: PRK10543 640510008465 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 640510008466 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 640510008467 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 640510008468 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 640510008469 generic binding surface II; other site 640510008470 generic binding surface I; other site 640510008471 tetraacyldisaccharide 4'-kinase; Provisional; Region: PRK01906 640510008472 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 640510008473 Trm112p-like protein; Region: Trm112p; cl01066 640510008474 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 640510008475 Ligand binding site; other site 640510008476 oligomer interface; other site 640510008477 adenylate kinase; Reviewed; Region: adk; PRK00279 640510008478 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 640510008479 AMP-binding site [chemical binding]; other site 640510008480 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 640510008481 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 640510008482 NAD binding site [chemical binding]; other site 640510008483 homodimer interface [polypeptide binding]; other site 640510008484 homotetramer interface [polypeptide binding]; other site 640510008485 active site 640510008486 Uncharacterized conserved protein [Function unknown]; Region: COG2912 640510008487 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 640510008488 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 640510008489 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 640510008490 ornithine carbamoyltransferase; Provisional; Region: PRK00779 640510008491 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 640510008492 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510008493 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 640510008494 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 640510008495 ANP binding site [chemical binding]; other site 640510008496 Substrate Binding Site II [chemical binding]; other site 640510008497 Substrate Binding Site I [chemical binding]; other site 640510008498 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 640510008499 FAD binding domain; Region: FAD_binding_4; pfam01565 640510008500 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 640510008501 Protein of unknown function (DUF520); Region: DUF520; cl00723 640510008502 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 640510008503 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 640510008504 putative deacylase active site [active] 640510008505 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 640510008506 AMP-binding enzyme; Region: AMP-binding; cl15778 640510008507 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 640510008508 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 640510008509 active site 640510008510 Int/Topo IB signature motif; other site 640510008511 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 640510008512 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 640510008513 DNA binding site [nucleotide binding] 640510008514 active site 640510008515 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 640510008516 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 640510008517 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 640510008518 AMIN domain; Region: AMIN; pfam11741 640510008519 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 640510008520 active site 640510008521 metal binding site [ion binding]; metal-binding site 640510008522 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 640510008523 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 640510008524 oligomeric interface; other site 640510008525 putative active site [active] 640510008526 homodimer interface [polypeptide binding]; other site 640510008527 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 640510008528 Pirin-related protein [General function prediction only]; Region: COG1741 640510008529 Cupin domain; Region: Cupin_2; cl09118 640510008530 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 640510008531 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 640510008532 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 640510008533 catalytic residues [active] 640510008534 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 640510008535 putative ATP binding site [chemical binding]; other site 640510008536 putative substrate interface [chemical binding]; other site 640510008537 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 640510008538 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 640510008539 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 640510008540 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 640510008541 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 640510008542 S-adenosylmethionine binding site [chemical binding]; other site 640510008543 Protein of unknown function DUF72; Region: DUF72; cl00777 640510008544 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 640510008545 Flavin Reductases; Region: FlaRed; cl00801 640510008546 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 640510008547 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 640510008548 putative DNA binding site [nucleotide binding]; other site 640510008549 putative Zn2+ binding site [ion binding]; other site 640510008550 AsnC family; Region: AsnC_trans_reg; pfam01037 640510008551 Putative cyclase; Region: Cyclase; cl00814 640510008552 kynureninase; Region: kynureninase; TIGR01814 640510008553 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 640510008554 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640510008555 catalytic residue [active] 640510008556 Tryptophan 2,3-dioxygenase; Region: Trp_dioxygenase; cl03994 640510008557 short chain dehydrogenase; Provisional; Region: PRK07060 640510008558 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510008559 NAD(P) binding site [chemical binding]; other site 640510008560 active site 640510008561 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 640510008562 uncharacterized xylulose kinase-like proteins, subgroup 1; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_XK_like_1; cd07804 640510008563 N- and C-terminal domain interface [polypeptide binding]; other site 640510008564 putative active site [active] 640510008565 catalytic site [active] 640510008566 metal binding site [ion binding]; metal-binding site 640510008567 putative xylulose binding site [chemical binding]; other site 640510008568 putative ATP binding site [chemical binding]; other site 640510008569 putative homodimer interface [polypeptide binding]; other site 640510008570 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 640510008571 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH2; cd08256 640510008572 putative NAD(P) binding site [chemical binding]; other site 640510008573 catalytic Zn binding site [ion binding]; other site 640510008574 structural Zn binding site [ion binding]; other site 640510008575 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 640510008576 TM-ABC transporter signature motif; other site 640510008577 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 640510008578 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 640510008579 Walker A/P-loop; other site 640510008580 ATP binding site [chemical binding]; other site 640510008581 Q-loop/lid; other site 640510008582 ABC transporter signature motif; other site 640510008583 Walker B; other site 640510008584 D-loop; other site 640510008585 H-loop/switch region; other site 640510008586 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 640510008587 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_11; cd06321 640510008588 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640510008589 putative ligand binding site [chemical binding]; other site 640510008590 Cupin domain; Region: Cupin_2; cl09118 640510008591 Helix-turn-helix domain; Region: HTH_18; pfam12833 640510008592 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510008593 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 640510008594 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 640510008595 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 640510008596 D-xylulose kinases, Escherichia coli xylulokinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 640510008597 N- and C-terminal domain interface [polypeptide binding]; other site 640510008598 D-xylulose kinase; Region: XylB; TIGR01312 640510008599 active site 640510008600 catalytic site [active] 640510008601 metal binding site [ion binding]; metal-binding site 640510008602 xylulose binding site [chemical binding]; other site 640510008603 putative ATP binding site [chemical binding]; other site 640510008604 homodimer interface [polypeptide binding]; other site 640510008605 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 640510008606 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 640510008607 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 640510008608 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 640510008609 Walker A/P-loop; other site 640510008610 ATP binding site [chemical binding]; other site 640510008611 Q-loop/lid; other site 640510008612 ABC transporter signature motif; other site 640510008613 Walker B; other site 640510008614 D-loop; other site 640510008615 H-loop/switch region; other site 640510008616 TOBE domain; Region: TOBE_2; cl01440 640510008617 TOBE domain; Region: TOBE_2; cl01440 640510008618 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 640510008619 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 640510008620 active site 640510008621 motif I; other site 640510008622 motif II; other site 640510008623 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 640510008624 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510008625 dimer interface [polypeptide binding]; other site 640510008626 conserved gate region; other site 640510008627 putative PBP binding loops; other site 640510008628 ABC-ATPase subunit interface; other site 640510008629 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 640510008630 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510008631 ABC-ATPase subunit interface; other site 640510008632 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 640510008633 The 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 640510008634 sorbitol dehydrogenase; Provisional; Region: PRK07067 640510008635 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510008636 NAD(P) binding site [chemical binding]; other site 640510008637 active site 640510008638 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 640510008639 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 640510008640 metal binding site [ion binding]; metal-binding site 640510008641 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 640510008642 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 640510008643 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 640510008644 Predicted esterase [General function prediction only]; Region: COG0627 640510008645 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 640510008646 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 640510008647 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 640510008648 substrate binding site [chemical binding]; other site 640510008649 catalytic Zn binding site [ion binding]; other site 640510008650 NAD binding site [chemical binding]; other site 640510008651 structural Zn binding site [ion binding]; other site 640510008652 dimer interface [polypeptide binding]; other site 640510008653 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 640510008654 N- and C-terminal domain interface [polypeptide binding]; other site 640510008655 D-xylulose kinase; Region: XylB; TIGR01312 640510008656 active site 640510008657 MgATP binding site [chemical binding]; other site 640510008658 catalytic site [active] 640510008659 metal binding site [ion binding]; metal-binding site 640510008660 carbohydrate binding site [chemical binding]; other site 640510008661 xanthine permease; Region: pbuX; TIGR03173 640510008662 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640510008663 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 640510008664 Protein export membrane protein; Region: SecD_SecF; cl14618 640510008665 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 640510008666 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 640510008667 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 640510008668 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 640510008669 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 640510008670 Helix-turn-helix domains; Region: HTH; cl00088 640510008671 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 640510008672 Isochorismatase family; Region: Isochorismatase; pfam00857 640510008673 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 640510008674 catalytic triad [active] 640510008675 conserved cis-peptide bond; other site 640510008676 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 640510008677 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 640510008678 conserved cys residue [active] 640510008679 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 640510008680 putative hydrophobic ligand binding site [chemical binding]; other site 640510008681 Domain of unknown function (DUF427); Region: DUF427; cl00998 640510008682 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 640510008683 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 640510008684 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 640510008685 protein binding site [polypeptide binding]; other site 640510008686 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 640510008687 protein binding site [polypeptide binding]; other site 640510008688 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640510008689 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 640510008690 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 640510008691 dimer interface [polypeptide binding]; other site 640510008692 phosphorylation site [posttranslational modification] 640510008693 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510008694 ATP binding site [chemical binding]; other site 640510008695 Mg2+ binding site [ion binding]; other site 640510008696 G-X-G motif; other site 640510008697 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 640510008698 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510008699 active site 640510008700 phosphorylation site [posttranslational modification] 640510008701 intermolecular recognition site; other site 640510008702 dimerization interface [polypeptide binding]; other site 640510008703 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 640510008704 DNA binding site [nucleotide binding] 640510008705 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 640510008706 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 640510008707 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 640510008708 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 640510008709 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 640510008710 active site 640510008711 catalytic triad [active] 640510008712 oxyanion hole [active] 640510008713 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 640510008714 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 640510008715 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 640510008716 ATP-grasp domain; Region: ATP-grasp_4; cl03087 640510008717 AIR carboxylase; Region: AIRC; cl00310 640510008718 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 640510008719 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 640510008720 ATP binding site [chemical binding]; other site 640510008721 active site 640510008722 substrate binding site [chemical binding]; other site 640510008723 hypothetical protein; Provisional; Region: PRK08185 640510008724 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 640510008725 intersubunit interface [polypeptide binding]; other site 640510008726 active site 640510008727 zinc binding site [ion binding]; other site 640510008728 Na+ binding site [ion binding]; other site 640510008729 pyruvate kinase; Provisional; Region: PRK05826 640510008730 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 640510008731 domain interfaces; other site 640510008732 active site 640510008733 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 640510008734 Phosphoglycerate kinase; Region: PGK; pfam00162 640510008735 substrate binding site [chemical binding]; other site 640510008736 hinge regions; other site 640510008737 ADP binding site [chemical binding]; other site 640510008738 catalytic site [active] 640510008739 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 640510008740 AzlC protein; Region: AzlC; cl00570 640510008741 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 640510008742 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 640510008743 homodimer interface [polypeptide binding]; other site 640510008744 substrate-cofactor binding pocket; other site 640510008745 catalytic residue [active] 640510008746 Zinc-finger domain; Region: zf-CHCC; cl01821 640510008747 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 640510008748 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 640510008749 putative active site [active] 640510008750 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 640510008751 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 640510008752 Protein of unknown function (DUF2946); Region: DUF2944; pfam11161 640510008753 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 640510008754 Peptidase family M48; Region: Peptidase_M48; cl12018 640510008755 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 640510008756 trimer interface [polypeptide binding]; other site 640510008757 dimer interface [polypeptide binding]; other site 640510008758 putative active site [active] 640510008759 O-Antigen ligase; Region: Wzy_C; cl04850 640510008760 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 640510008761 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 640510008762 Pilin (bacterial filament); Region: Pilin; pfam00114 640510008763 Integral membrane protein TerC family; Region: TerC; cl10468 640510008764 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 640510008765 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510008766 CoA-ligase; Region: Ligase_CoA; cl02894 640510008767 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 640510008768 ATP-grasp domain; Region: ATP-grasp_4; cl03087 640510008769 CoA-ligase; Region: Ligase_CoA; cl02894 640510008770 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 640510008771 RecX family; Region: RecX; cl00936 640510008772 recombinase A; Provisional; Region: recA; PRK09354 640510008773 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 640510008774 hexamer interface [polypeptide binding]; other site 640510008775 Walker A motif; other site 640510008776 ATP binding site [chemical binding]; other site 640510008777 Walker B motif; other site 640510008778 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 640510008779 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510008780 active site 640510008781 phosphorylation site [posttranslational modification] 640510008782 intermolecular recognition site; other site 640510008783 dimerization interface [polypeptide binding]; other site 640510008784 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 640510008785 DNA binding site [nucleotide binding] 640510008786 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 640510008787 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640510008788 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 640510008789 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 640510008790 dimer interface [polypeptide binding]; other site 640510008791 phosphorylation site [posttranslational modification] 640510008792 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510008793 ATP binding site [chemical binding]; other site 640510008794 Mg2+ binding site [ion binding]; other site 640510008795 G-X-G motif; other site 640510008796 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510008797 putative substrate translocation pore; other site 640510008798 metabolite-proton symporter; Region: 2A0106; TIGR00883 640510008799 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640510008800 Helix-turn-helix domains; Region: HTH; cl00088 640510008801 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 640510008802 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510008803 putative substrate translocation pore; other site 640510008804 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510008805 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510008806 DNA-binding site [nucleotide binding]; DNA binding site 640510008807 FCD domain; Region: FCD; cl11656 640510008808 galactonate dehydratase; Provisional; Region: PRK14017 640510008809 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 640510008810 putative active site pocket [active] 640510008811 putative metal binding site [ion binding]; other site 640510008812 Bacterial Ig-like domain; Region: Big_5; cl01012 640510008813 Cytochrome c; Region: Cytochrom_C; cl11414 640510008814 Cytochrome c; Region: Cytochrom_C; cl11414 640510008815 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640510008816 Cytochrome c [Energy production and conversion]; Region: COG3258 640510008817 Cytochrome c; Region: Cytochrom_C; cl11414 640510008818 Haemolysin-III related; Region: HlyIII; cl03831 640510008819 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 640510008820 ATP binding site [chemical binding]; other site 640510008821 Mg++ binding site [ion binding]; other site 640510008822 motif III; other site 640510008823 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 640510008824 nucleotide binding region [chemical binding]; other site 640510008825 ATP-binding site [chemical binding]; other site 640510008826 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 640510008827 dinuclear metal binding motif [ion binding]; other site 640510008828 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 640510008829 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 640510008830 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 640510008831 Helix-turn-helix domains; Region: HTH; cl00088 640510008832 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 640510008833 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 640510008834 glycerol kinase; Provisional; Region: glpK; PRK00047 640510008835 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 640510008836 N- and C-terminal domain interface [polypeptide binding]; other site 640510008837 active site 640510008838 MgATP binding site [chemical binding]; other site 640510008839 catalytic site [active] 640510008840 metal binding site [ion binding]; metal-binding site 640510008841 glycerol binding site [chemical binding]; other site 640510008842 homotetramer interface [polypeptide binding]; other site 640510008843 homodimer interface [polypeptide binding]; other site 640510008844 FBP binding site [chemical binding]; other site 640510008845 protein IIAGlc interface [polypeptide binding]; other site 640510008846 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 640510008847 amphipathic channel; other site 640510008848 Asn-Pro-Ala signature motifs; other site 640510008849 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 640510008850 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 640510008851 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 640510008852 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 640510008853 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 640510008854 non-specific DNA binding site [nucleotide binding]; other site 640510008855 salt bridge; other site 640510008856 sequence-specific DNA binding site [nucleotide binding]; other site 640510008857 Cupin domain; Region: Cupin_2; cl09118 640510008858 MFS transport protein AraJ; Provisional; Region: PRK10091 640510008859 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510008860 putative substrate translocation pore; other site 640510008861 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 640510008862 dimer interface [polypeptide binding]; other site 640510008863 putative metal binding site [ion binding]; other site 640510008864 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510008865 Helix-turn-helix domains; Region: HTH; cl00088 640510008866 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 640510008867 putative effector binding pocket; other site 640510008868 dimerization interface [polypeptide binding]; other site 640510008869 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 640510008870 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 640510008871 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 640510008872 FeS/SAM binding site; other site 640510008873 TRAM domain; Region: TRAM; cl01282 640510008874 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 640510008875 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510008876 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 640510008877 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 640510008878 putative active site pocket [active] 640510008879 dimerization interface [polypeptide binding]; other site 640510008880 putative catalytic residue [active] 640510008881 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 640510008882 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 640510008883 Transporter associated domain; Region: CorC_HlyC; cl08393 640510008884 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 640510008885 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 640510008886 putative active site [active] 640510008887 catalytic triad [active] 640510008888 putative dimer interface [polypeptide binding]; other site 640510008889 Peptidase family M48; Region: Peptidase_M48; cl12018 640510008890 putative glutathione S-transferase; Provisional; Region: PRK10357 640510008891 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 640510008892 putative C-terminal domain interface [polypeptide binding]; other site 640510008893 putative GSH binding site (G-site) [chemical binding]; other site 640510008894 putative dimer interface [polypeptide binding]; other site 640510008895 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 640510008896 dimer interface [polypeptide binding]; other site 640510008897 N-terminal domain interface [polypeptide binding]; other site 640510008898 putative substrate binding pocket (H-site) [chemical binding]; other site 640510008899 Aminopeptidase P, N-terminal domain; Region: AMP_N; cl08433 640510008900 proline aminopeptidase P II; Provisional; Region: PRK10879 640510008901 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 640510008902 active site 640510008903 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510008904 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510008905 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 640510008906 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 640510008907 FMN binding site [chemical binding]; other site 640510008908 active site 640510008909 catalytic residues [active] 640510008910 substrate binding site [chemical binding]; other site 640510008911 Helix-turn-helix domains; Region: HTH; cl00088 640510008912 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 640510008913 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 640510008914 purine monophosphate binding site [chemical binding]; other site 640510008915 dimer interface [polypeptide binding]; other site 640510008916 putative catalytic residues [active] 640510008917 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 640510008918 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 640510008919 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 640510008920 active site 640510008921 putative DNA-binding cleft [nucleotide binding]; other site 640510008922 dimer interface [polypeptide binding]; other site 640510008923 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 640510008924 RuvA N terminal domain; Region: RuvA_N; pfam01330 640510008925 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 640510008926 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 640510008927 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 640510008928 Walker A motif; other site 640510008929 ATP binding site [chemical binding]; other site 640510008930 Walker B motif; other site 640510008931 arginine finger; other site 640510008932 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 640510008933 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 640510008934 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 640510008935 catalytic core [active] 640510008936 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 640510008937 putative active site [active] 640510008938 dimerization interface [polypeptide binding]; other site 640510008939 putative tRNAtyr binding site [nucleotide binding]; other site 640510008940 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 640510008941 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 640510008942 active site 640510008943 HIGH motif; other site 640510008944 dimer interface [polypeptide binding]; other site 640510008945 KMSKS motif; other site 640510008946 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 640510008947 RNA binding surface [nucleotide binding]; other site 640510008948 Uncharacterized protein family (UPF0075); Region: UPF0075; cl04217 640510008949 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 640510008950 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 640510008951 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 640510008952 23S rRNA interface [nucleotide binding]; other site 640510008953 L3 interface [polypeptide binding]; other site 640510008954 OsmC-like protein; Region: OsmC; cl00767 640510008955 Protein of unknown function (DUF3025); Region: DUF3025; pfam11227 640510008956 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 640510008957 active site 640510008958 substrate binding pocket [chemical binding]; other site 640510008959 dimer interface [polypeptide binding]; other site 640510008960 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 640510008961 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 640510008962 putative active site [active] 640510008963 putative dimer interface [polypeptide binding]; other site 640510008964 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 640510008965 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 640510008966 Walker A/P-loop; other site 640510008967 ATP binding site [chemical binding]; other site 640510008968 Q-loop/lid; other site 640510008969 ABC transporter signature motif; other site 640510008970 Walker B; other site 640510008971 D-loop; other site 640510008972 H-loop/switch region; other site 640510008973 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640510008974 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510008975 dimer interface [polypeptide binding]; other site 640510008976 conserved gate region; other site 640510008977 putative PBP binding loops; other site 640510008978 ABC-ATPase subunit interface; other site 640510008979 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640510008980 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510008981 dimer interface [polypeptide binding]; other site 640510008982 conserved gate region; other site 640510008983 putative PBP binding loops; other site 640510008984 ABC-ATPase subunit interface; other site 640510008985 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 640510008986 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 640510008987 substrate binding pocket [chemical binding]; other site 640510008988 membrane-bound complex binding site; other site 640510008989 hinge residues; other site 640510008990 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 640510008991 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 640510008992 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 640510008993 NAD(P) binding site [chemical binding]; other site 640510008994 cell density-dependent motility repressor; Provisional; Region: PRK10082 640510008995 Helix-turn-helix domains; Region: HTH; cl00088 640510008996 The 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 640510008997 dimerization interface [polypeptide binding]; other site 640510008998 adenylosuccinate lyase; Provisional; Region: PRK09285 640510008999 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 640510009000 tetramer interface [polypeptide binding]; other site 640510009001 active site 640510009002 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 640510009003 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 640510009004 ATP-binding site [chemical binding]; other site 640510009005 Gluconate-6-phosphate binding site [chemical binding]; other site 640510009006 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 640510009007 GntP family permease; Region: GntP_permease; pfam02447 640510009008 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 640510009009 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 640510009010 active site 640510009011 intersubunit interface [polypeptide binding]; other site 640510009012 catalytic residue [active] 640510009013 Dehydratase family; Region: ILVD_EDD; cl00340 640510009014 6-phosphogluconate dehydratase; Region: edd; TIGR01196 640510009015 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 640510009016 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 640510009017 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 640510009018 putative active site [active] 640510009019 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 640510009020 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 640510009021 ADP-heptose:LPS heptosyltransferase II; Provisional; Region: PRK10916; cl15782 640510009022 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 640510009023 Surface antigen; Region: Bac_surface_Ag; cl03097 640510009024 haemagglutination activity domain; Region: Haemagg_act; cl05436 640510009025 baseplate hub subunit and tail lysozyme; Provisional; Region: 5; PHA02596 640510009026 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 640510009027 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 640510009028 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 640510009029 putative catalytic cysteine [active] 640510009030 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 640510009031 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 640510009032 Lipopolysaccharide-assembly; Region: LptE; cl01125 640510009033 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 640510009034 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 640510009035 HIGH motif; other site 640510009036 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 640510009037 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 640510009038 active site 640510009039 KMSKS motif; other site 640510009040 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 640510009041 tRNA binding surface [nucleotide binding]; other site 640510009042 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 640510009043 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 640510009044 dihydrodipicolinate reductase; Provisional; Region: PRK00048 640510009045 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510009046 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 640510009047 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 640510009048 ferric uptake regulator; Provisional; Region: fur; PRK09462 640510009049 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 640510009050 metal binding site 2 [ion binding]; metal-binding site 640510009051 putative DNA binding helix; other site 640510009052 metal binding site 1 [ion binding]; metal-binding site 640510009053 dimer interface [polypeptide binding]; other site 640510009054 structural Zn2+ binding site [ion binding]; other site 640510009055 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 640510009056 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; cl01250 640510009057 allantoicase; Provisional; Region: PRK13257 640510009058 Allantoicase repeat; Region: Allantoicase; pfam03561 640510009059 Allantoicase repeat; Region: Allantoicase; pfam03561 640510009060 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 640510009061 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 640510009062 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510009063 DNA-binding site [nucleotide binding]; DNA binding site 640510009064 FCD domain; Region: FCD; cl11656 640510009065 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510009066 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 640510009067 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 640510009068 transketolase; Reviewed; Region: PRK12753 640510009069 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 640510009070 TPP-binding site [chemical binding]; other site 640510009071 dimer interface [polypeptide binding]; other site 640510009072 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 640510009073 PYR/PP interface [polypeptide binding]; other site 640510009074 dimer interface [polypeptide binding]; other site 640510009075 TPP binding site [chemical binding]; other site 640510009076 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 640510009077 spermidine synthase; Provisional; Region: PRK00811 640510009078 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 640510009079 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 640510009080 putative dimer interface [polypeptide binding]; other site 640510009081 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 640510009082 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 640510009083 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 640510009084 putative RNAase interaction site [polypeptide binding]; other site 640510009085 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 640510009086 active site 640510009087 barstar interaction site; other site 640510009088 malic enzyme; Reviewed; Region: PRK12862 640510009089 Malic enzyme, N-terminal domain; Region: malic; pfam00390 640510009090 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 640510009091 putative NAD(P) binding site [chemical binding]; other site 640510009092 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 640510009093 thiamine monophosphate kinase; Provisional; Region: PRK05731 640510009094 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 640510009095 ATP binding site [chemical binding]; other site 640510009096 dimerization interface [polypeptide binding]; other site 640510009097 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 640510009098 tetramer interfaces [polypeptide binding]; other site 640510009099 binuclear metal-binding site [ion binding]; other site 640510009100 Competence-damaged protein; Region: CinA; cl00666 640510009101 Cupin superfamily (DUF985); Region: Cupin_5; cl01418 640510009102 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 640510009103 active site 640510009104 dimer interface [polypeptide binding]; other site 640510009105 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 640510009106 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 640510009107 active site 640510009108 catalytic residues [active] 640510009109 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 640510009110 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 640510009111 classical (c) SDRs; Region: SDR_c; cd05233 640510009112 NAD(P) binding site [chemical binding]; other site 640510009113 active site 640510009114 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 640510009115 TM-ABC transporter signature motif; other site 640510009116 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 640510009117 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 640510009118 Walker A/P-loop; other site 640510009119 ATP binding site [chemical binding]; other site 640510009120 Q-loop/lid; other site 640510009121 ABC transporter signature motif; other site 640510009122 Walker B; other site 640510009123 D-loop; other site 640510009124 H-loop/switch region; other site 640510009125 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 640510009126 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 640510009127 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 640510009128 ligand binding site [chemical binding]; other site 640510009129 short chain dehydrogenase; Provisional; Region: PRK07063 640510009130 classical (c) SDRs; Region: SDR_c; cd05233 640510009131 NAD(P) binding site [chemical binding]; other site 640510009132 active site 640510009133 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 640510009134 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 640510009135 active site 640510009136 intersubunit interface [polypeptide binding]; other site 640510009137 catalytic residue [active] 640510009138 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 640510009139 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 640510009140 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640510009141 Helix-turn-helix domains; Region: HTH; cl00088 640510009142 Bacterial transcriptional regulator; Region: IclR; pfam01614 640510009143 Transglycosylase; Region: Transgly; cl07896 640510009144 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 640510009145 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 640510009146 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 640510009147 shikimate binding site; other site 640510009148 NAD(P) binding site [chemical binding]; other site 640510009149 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 640510009150 RNB domain; Region: RNB; pfam00773 640510009151 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 640510009152 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 640510009153 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 640510009154 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 640510009155 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 640510009156 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 640510009157 catalytic residues [active] 640510009158 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 640510009159 active site 640510009160 trimer interface [polypeptide binding]; other site 640510009161 dimer interface [polypeptide binding]; other site 640510009162 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 640510009163 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 640510009164 carboxyltransferase (CT) interaction site; other site 640510009165 biotinylation site [posttranslational modification]; other site 640510009166 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 640510009167 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 640510009168 ATP-grasp domain; Region: ATP-grasp_4; cl03087 640510009169 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 640510009170 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 640510009171 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 640510009172 S-adenosylmethionine binding site [chemical binding]; other site 640510009173 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 640510009174 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 640510009175 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 640510009176 dimer interface [polypeptide binding]; other site 640510009177 catalytic triad [active] 640510009178 peroxidatic and resolving cysteines [active] 640510009179 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 640510009180 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 640510009181 substrate binding site [chemical binding]; other site 640510009182 ATP binding site [chemical binding]; other site 640510009183 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 640510009184 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 640510009185 dimer interface [polypeptide binding]; other site 640510009186 putative radical transfer pathway; other site 640510009187 diiron center [ion binding]; other site 640510009188 tyrosyl radical; other site 640510009189 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 640510009190 ATP cone domain; Region: ATP-cone; pfam03477 640510009191 Class I ribonucleotide reductase; Region: RNR_I; cd01679 640510009192 active site 640510009193 dimer interface [polypeptide binding]; other site 640510009194 catalytic residues [active] 640510009195 effector binding site; other site 640510009196 R2 peptide binding site; other site 640510009197 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 640510009198 amidase catalytic site [active] 640510009199 Zn binding residues [ion binding]; other site 640510009200 substrate binding site [chemical binding]; other site 640510009201 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 640510009202 signal recognition particle protein; Provisional; Region: PRK10867 640510009203 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 640510009204 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 640510009205 P loop; other site 640510009206 GTP binding site [chemical binding]; other site 640510009207 Signal peptide binding domain; Region: SRP_SPB; pfam02978 640510009208 Methyl-coenzyme M reductase operon protein C; Region: MCR_C; cl01674 640510009209 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 640510009210 active site 640510009211 MarC family integral membrane protein; Region: MarC; cl00919 640510009212 prolyl-tRNA synthetase; Provisional; Region: PRK09194 640510009213 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 640510009214 dimer interface [polypeptide binding]; other site 640510009215 motif 1; other site 640510009216 active site 640510009217 motif 2; other site 640510009218 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 640510009219 putative deacylase active site [active] 640510009220 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 640510009221 active site 640510009222 motif 3; other site 640510009223 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 640510009224 anticodon binding site; other site 640510009225 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 640510009226 putative active site [active] 640510009227 Ap4A binding site [chemical binding]; other site 640510009228 nudix motif; other site 640510009229 putative metal binding site [ion binding]; other site 640510009230 CNP1-like family; Region: CNP1; pfam08750 640510009231 gamma-glutamyl kinase; Provisional; Region: PRK05429 640510009232 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 640510009233 nucleotide binding site [chemical binding]; other site 640510009234 homotetrameric interface [polypeptide binding]; other site 640510009235 putative phosphate binding site [ion binding]; other site 640510009236 putative allosteric binding site; other site 640510009237 PUA domain; Region: PUA; cl00607 640510009238 GTPase CgtA; Reviewed; Region: obgE; PRK12298 640510009239 GTP1/OBG; Region: GTP1_OBG; pfam01018 640510009240 Obg GTPase; Region: Obg; cd01898 640510009241 G1 box; other site 640510009242 GTP/Mg2+ binding site [chemical binding]; other site 640510009243 Switch I region; other site 640510009244 G2 box; other site 640510009245 G3 box; other site 640510009246 Switch II region; other site 640510009247 G4 box; other site 640510009248 G5 box; other site 640510009249 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 640510009250 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 640510009251 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 640510009252 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 640510009253 substrate binding pocket [chemical binding]; other site 640510009254 chain length determination region; other site 640510009255 substrate-Mg2+ binding site; other site 640510009256 catalytic residues [active] 640510009257 aspartate-rich region 1; other site 640510009258 active site lid residues [active] 640510009259 aspartate-rich region 2; other site 640510009260 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 640510009261 Domain of unknown function DUF21; Region: DUF21; pfam01595 640510009262 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 640510009263 Transporter associated domain; Region: CorC_HlyC; cl08393 640510009264 Type II/IV secretion system protein; Region: T2SE; pfam00437 640510009265 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 640510009266 Walker A motif; other site 640510009267 ATP binding site [chemical binding]; other site 640510009268 Walker B motif; other site 640510009269 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 640510009270 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 640510009271 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 640510009272 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 640510009273 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 640510009274 CoA-binding site [chemical binding]; other site 640510009275 ATP-binding [chemical binding]; other site 640510009276 Protein of unknown function (DUF1342); Region: DUF1342; cl01892 640510009277 Domain of unknown function (DUF329); Region: DUF329; cl01144 640510009278 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 640510009279 active site 640510009280 8-oxo-dGMP binding site [chemical binding]; other site 640510009281 nudix motif; other site 640510009282 metal binding site [ion binding]; metal-binding site 640510009283 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 640510009284 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 640510009285 Walker A motif; other site 640510009286 ATP binding site [chemical binding]; other site 640510009287 Walker B motif; other site 640510009288 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 640510009289 heterotetramer interface [polypeptide binding]; other site 640510009290 active site pocket [active] 640510009291 cleavage site 640510009292 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 640510009293 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 640510009294 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510009295 nucleotide binding region [chemical binding]; other site 640510009296 ATP-binding site [chemical binding]; other site 640510009297 hypothetical protein; Provisional; Region: PRK10396 640510009298 SEC-C motif; Region: SEC-C; pfam02810 640510009299 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 640510009300 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 640510009301 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 640510009302 catalytic triad [active] 640510009303 dimer interface [polypeptide binding]; other site 640510009304 cell division protein FtsZ; Validated; Region: PRK09330 640510009305 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 640510009306 nucleotide binding site [chemical binding]; other site 640510009307 SulA interaction site; other site 640510009308 cell division protein FtsA; Region: ftsA; TIGR01174 640510009309 Cell division protein FtsA; Region: FtsA; cl11496 640510009310 Cell division protein FtsA; Region: FtsA; cl11496 640510009311 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 640510009312 Cell division protein FtsQ; Region: FtsQ; pfam03799 640510009313 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 640510009314 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 640510009315 ATP-grasp domain; Region: ATP-grasp_4; cl03087 640510009316 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 640510009317 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 640510009318 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 640510009319 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 640510009320 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 640510009321 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 640510009322 active site 640510009323 homodimer interface [polypeptide binding]; other site 640510009324 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 640510009325 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02006 640510009326 The 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 640510009327 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 640510009328 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 640510009329 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 640510009330 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 640510009331 Mg++ binding site [ion binding]; other site 640510009332 putative catalytic motif [active] 640510009333 putative substrate binding site [chemical binding]; other site 640510009334 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 640510009335 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 640510009336 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 640510009337 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 640510009338 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 640510009339 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 640510009340 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 640510009341 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 640510009342 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 640510009343 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 640510009344 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 640510009345 Septum formation initiator; Region: DivIC; cl11433 640510009346 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 640510009347 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 640510009348 cell division protein MraZ; Reviewed; Region: PRK00326 640510009349 MraZ protein; Region: MraZ; pfam02381 640510009350 MraZ protein; Region: MraZ; pfam02381 640510009351 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 640510009352 diiron binding motif [ion binding]; other site 640510009353 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 640510009354 trimer interface [polypeptide binding]; other site 640510009355 eyelet of channel; other site 640510009356 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 640510009357 AMP-binding enzyme; Region: AMP-binding; cl15778 640510009358 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 640510009359 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 640510009360 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 640510009361 putative [4Fe-4S] binding site [ion binding]; other site 640510009362 putative molybdopterin cofactor binding site [chemical binding]; other site 640510009363 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 640510009364 putative molybdopterin cofactor binding site; other site 640510009365 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 640510009366 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 640510009367 metal binding site [ion binding]; metal-binding site 640510009368 putative dimer interface [polypeptide binding]; other site 640510009369 enoyl-CoA hydratase; Provisional; Region: PRK05862 640510009370 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 640510009371 substrate binding site [chemical binding]; other site 640510009372 oxyanion hole (OAH) forming residues; other site 640510009373 trimer interface [polypeptide binding]; other site 640510009374 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 640510009375 NAD(P) binding site [chemical binding]; other site 640510009376 catalytic residues [active] 640510009377 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 640510009378 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 640510009379 dimer interface [polypeptide binding]; other site 640510009380 active site 640510009381 enoyl-CoA hydratase; Provisional; Region: PRK08140 640510009382 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 640510009383 substrate binding site [chemical binding]; other site 640510009384 oxyanion hole (OAH) forming residues; other site 640510009385 trimer interface [polypeptide binding]; other site 640510009386 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 640510009387 CoenzymeA binding site [chemical binding]; other site 640510009388 subunit interaction site [polypeptide binding]; other site 640510009389 PHB binding site; other site 640510009390 AMP-binding enzyme; Region: AMP-binding; cl15778 640510009391 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 640510009392 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 640510009393 MltA specific insert domain; Region: MltA; cl08398 640510009394 3D domain; Region: 3D; cl01439 640510009395 Protein of unknown function (DUF525); Region: DUF525; cl01119 640510009396 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 640510009397 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 640510009398 substrate binding site [chemical binding]; other site 640510009399 hexamer interface [polypeptide binding]; other site 640510009400 metal binding site [ion binding]; metal-binding site 640510009401 phosphoglycolate phosphatase; Provisional; Region: PRK13222 640510009402 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 640510009403 motif II; other site 640510009404 anthranilate synthase component I; Provisional; Region: PRK13565 640510009405 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 640510009406 chorismate binding enzyme; Region: Chorismate_bind; cl10555 640510009407 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 640510009408 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 640510009409 glutamine binding [chemical binding]; other site 640510009410 catalytic triad [active] 640510009411 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 640510009412 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 640510009413 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 640510009414 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 640510009415 active site 640510009416 ribulose/triose binding site [chemical binding]; other site 640510009417 phosphate binding site [ion binding]; other site 640510009418 substrate (anthranilate) binding pocket [chemical binding]; other site 640510009419 product (indole) binding pocket [chemical binding]; other site 640510009420 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 640510009421 putative active site [active] 640510009422 putative metal binding residues [ion binding]; other site 640510009423 signature motif; other site 640510009424 putative triphosphate binding site [ion binding]; other site 640510009425 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 640510009426 ligand binding site [chemical binding]; other site 640510009427 active site 640510009428 UGI interface [polypeptide binding]; other site 640510009429 catalytic site [active] 640510009430 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 640510009431 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 640510009432 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 640510009433 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 640510009434 protein binding site [polypeptide binding]; other site 640510009435 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 640510009436 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 640510009437 dimerization domain [polypeptide binding]; other site 640510009438 dimer interface [polypeptide binding]; other site 640510009439 catalytic residues [active] 640510009440 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510009441 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 640510009442 GTP-binding protein YchF; Reviewed; Region: PRK09601 640510009443 YchF GTPase; Region: YchF; cd01900 640510009444 G1 box; other site 640510009445 GTP/Mg2+ binding site [chemical binding]; other site 640510009446 Switch I region; other site 640510009447 G2 box; other site 640510009448 Switch II region; other site 640510009449 G3 box; other site 640510009450 G4 box; other site 640510009451 G5 box; other site 640510009452 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 640510009453 PAAR motif; Region: PAAR_motif; cl15808 640510009454 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 640510009455 The 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 640510009456 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510009457 dimer interface [polypeptide binding]; other site 640510009458 conserved gate region; other site 640510009459 putative PBP binding loops; other site 640510009460 ABC-ATPase subunit interface; other site 640510009461 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510009462 dimer interface [polypeptide binding]; other site 640510009463 conserved gate region; other site 640510009464 putative PBP binding loops; other site 640510009465 ABC-ATPase subunit interface; other site 640510009466 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 640510009467 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 640510009468 Walker A/P-loop; other site 640510009469 ATP binding site [chemical binding]; other site 640510009470 Q-loop/lid; other site 640510009471 ABC transporter signature motif; other site 640510009472 Walker B; other site 640510009473 D-loop; other site 640510009474 H-loop/switch region; other site 640510009475 TOBE domain; Region: TOBE_2; cl01440 640510009476 Protein of unknown function (DUF3761); Region: DUF3761; pfam12587 640510009477 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 640510009478 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510009479 Walker A/P-loop; other site 640510009480 ATP binding site [chemical binding]; other site 640510009481 Q-loop/lid; other site 640510009482 ABC transporter signature motif; other site 640510009483 Walker B; other site 640510009484 D-loop; other site 640510009485 H-loop/switch region; other site 640510009486 ABC transporter; Region: ABC_tran_2; pfam12848 640510009487 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 640510009488 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 640510009489 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 640510009490 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 640510009491 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 640510009492 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 640510009493 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 640510009494 active site 640510009495 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 640510009496 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510009497 active site 640510009498 phosphorylation site [posttranslational modification] 640510009499 intermolecular recognition site; other site 640510009500 dimerization interface [polypeptide binding]; other site 640510009501 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 640510009502 DNA binding site [nucleotide binding] 640510009503 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 640510009504 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 640510009505 tRNA; other site 640510009506 putative tRNA binding site [nucleotide binding]; other site 640510009507 putative NADP binding site [chemical binding]; other site 640510009508 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 640510009509 peptide chain release factor 1; Validated; Region: prfA; PRK00591 640510009510 RF-1 domain; Region: RF-1; cl02875 640510009511 RF-1 domain; Region: RF-1; cl02875 640510009512 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 640510009513 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 640510009514 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 640510009515 putative GSH binding site [chemical binding]; other site 640510009516 catalytic residues [active] 640510009517 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 640510009518 Flavoprotein; Region: Flavoprotein; cl08021 640510009519 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 640510009520 putative active site [active] 640510009521 metal binding site [ion binding]; metal-binding site 640510009522 amino acid transporter; Region: 2A0306; TIGR00909 640510009523 Spore germination protein; Region: Spore_permease; cl15802 640510009524 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 640510009525 DNA-binding site [nucleotide binding]; DNA binding site 640510009526 RNA-binding motif; other site 640510009527 putative chaperone; Provisional; Region: PRK11678 640510009528 benzoate transport; Region: 2A0115; TIGR00895 640510009529 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510009530 putative substrate translocation pore; other site 640510009531 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510009532 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 640510009533 putative FMN binding site [chemical binding]; other site 640510009534 D-galactonate transporter; Region: 2A0114; TIGR00893 640510009535 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510009536 putative substrate translocation pore; other site 640510009537 Helix-turn-helix domains; Region: HTH; cl00088 640510009538 Protein of unknown function (DUF1415); Region: DUF1415; cl01301 640510009539 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 640510009540 Methyltransferase domain; Region: Methyltransf_31; pfam13847 640510009541 Protein of unknown function (DUF1059); Region: DUF1059; cl02284 640510009542 HI0933-like protein; Region: HI0933_like; pfam03486 640510009543 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510009544 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510009545 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 640510009546 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 640510009547 S-adenosylmethionine binding site [chemical binding]; other site 640510009548 Stringent starvation protein B; Region: SspB; cl01120 640510009549 stringent starvation protein A; Provisional; Region: sspA; PRK09481 640510009550 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 640510009551 C-terminal domain interface [polypeptide binding]; other site 640510009552 putative GSH binding site (G-site) [chemical binding]; other site 640510009553 dimer interface [polypeptide binding]; other site 640510009554 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 640510009555 dimer interface [polypeptide binding]; other site 640510009556 N-terminal domain interface [polypeptide binding]; other site 640510009557 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 640510009558 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 640510009559 Qi binding site; other site 640510009560 intrachain domain interface; other site 640510009561 interchain domain interface [polypeptide binding]; other site 640510009562 cytochrome b; Provisional; Region: CYTB; MTH00145 640510009563 heme bH binding site [chemical binding]; other site 640510009564 heme bL binding site [chemical binding]; other site 640510009565 Qo binding site; other site 640510009566 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 640510009567 interchain domain interface [polypeptide binding]; other site 640510009568 intrachain domain interface; other site 640510009569 Qi binding site; other site 640510009570 Qo binding site; other site 640510009571 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 640510009572 [2Fe-2S] cluster binding site [ion binding]; other site 640510009573 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 640510009574 Uncharacterized conserved protein [Function unknown]; Region: COG0327 640510009575 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 640510009576 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 640510009577 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 640510009578 protein binding site [polypeptide binding]; other site 640510009579 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 640510009580 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 640510009581 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 640510009582 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 640510009583 nucleotide binding site/active site [active] 640510009584 HIT family signature motif; other site 640510009585 catalytic residue [active] 640510009586 Predicted membrane protein [Function unknown]; Region: COG3671 640510009587 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 640510009588 metal binding site [ion binding]; metal-binding site 640510009589 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 640510009590 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 640510009591 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 640510009592 substrate binding site [chemical binding]; other site 640510009593 glutamase interaction surface [polypeptide binding]; other site 640510009594 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase [Amino acid transport and metabolism]; Region: HisA; COG0106 640510009595 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 640510009596 catalytic residues [active] 640510009597 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 640510009598 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 640510009599 putative active site [active] 640510009600 oxyanion strand; other site 640510009601 catalytic triad [active] 640510009602 MarC family integral membrane protein; Region: MarC; cl00919 640510009603 imidazoleglycerol-phosphate dehydratase; Validated; Region: hisB; PRK00951 640510009604 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 640510009605 putative active site pocket [active] 640510009606 4-fold oligomerization interface [polypeptide binding]; other site 640510009607 metal binding residues [ion binding]; metal-binding site 640510009608 3-fold/trimer interface [polypeptide binding]; other site 640510009609 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 640510009610 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 640510009611 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510009612 homodimer interface [polypeptide binding]; other site 640510009613 catalytic residue [active] 640510009614 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 640510009615 histidinol dehydrogenase; Region: hisD; TIGR00069 640510009616 NAD binding site [chemical binding]; other site 640510009617 dimerization interface [polypeptide binding]; other site 640510009618 product binding site; other site 640510009619 substrate binding site [chemical binding]; other site 640510009620 zinc binding site [ion binding]; other site 640510009621 catalytic residues [active] 640510009622 ATP phosphoribosyltransferase; Region: HisG; cl15266 640510009623 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 640510009624 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 640510009625 hinge; other site 640510009626 active site 640510009627 BolA-like protein; Region: BolA; cl00386 640510009628 ABC-2 type transporter; Region: ABC2_membrane; cl11417 640510009629 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 640510009630 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 640510009631 Walker A/P-loop; other site 640510009632 ATP binding site [chemical binding]; other site 640510009633 Q-loop/lid; other site 640510009634 ABC transporter signature motif; other site 640510009635 Walker B; other site 640510009636 D-loop; other site 640510009637 H-loop/switch region; other site 640510009638 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 640510009639 anti sigma factor interaction site; other site 640510009640 regulatory phosphorylation site [posttranslational modification]; other site 640510009641 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 640510009642 VacJ like lipoprotein; Region: VacJ; cl01073 640510009643 mce related protein; Region: MCE; pfam02470 640510009644 Permease; Region: Permease; cl00510 640510009645 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 640510009646 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 640510009647 Walker A/P-loop; other site 640510009648 ATP binding site [chemical binding]; other site 640510009649 Q-loop/lid; other site 640510009650 ABC transporter signature motif; other site 640510009651 Walker B; other site 640510009652 D-loop; other site 640510009653 H-loop/switch region; other site 640510009654 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 640510009655 thiamine phosphate binding site [chemical binding]; other site 640510009656 active site 640510009657 pyrophosphate binding site [ion binding]; other site 640510009658 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 640510009659 ThiS interaction site; other site 640510009660 putative active site [active] 640510009661 tetramer interface [polypeptide binding]; other site 640510009662 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 640510009663 thiS-thiF/thiG interaction site; other site 640510009664 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510009665 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 640510009666 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 640510009667 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 640510009668 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 640510009669 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 640510009670 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510009671 NAD(P) binding site [chemical binding]; other site 640510009672 active site 640510009673 osmolarity response regulator; Provisional; Region: ompR; PRK09468 640510009674 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510009675 active site 640510009676 phosphorylation site [posttranslational modification] 640510009677 intermolecular recognition site; other site 640510009678 dimerization interface [polypeptide binding]; other site 640510009679 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 640510009680 DNA binding site [nucleotide binding] 640510009681 Flagellar L-ring protein; Region: FlgH; cl00905 640510009682 osmolarity response regulator; Provisional; Region: ompR; PRK09468 640510009683 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510009684 active site 640510009685 phosphorylation site [posttranslational modification] 640510009686 intermolecular recognition site; other site 640510009687 dimerization interface [polypeptide binding]; other site 640510009688 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 640510009689 DNA binding site [nucleotide binding] 640510009690 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 640510009691 dimerization interface [polypeptide binding]; other site 640510009692 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 640510009693 dimer interface [polypeptide binding]; other site 640510009694 phosphorylation site [posttranslational modification] 640510009695 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510009696 ATP binding site [chemical binding]; other site 640510009697 Mg2+ binding site [ion binding]; other site 640510009698 G-X-G motif; other site 640510009699 Protein tyrosine/serine phosphatase [Signal transduction mechanisms]; Region: COG2365 640510009700 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 640510009701 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 640510009702 benzoate transport; Region: 2A0115; TIGR00895 640510009703 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510009704 putative substrate translocation pore; other site 640510009705 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 640510009706 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640510009707 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 640510009708 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 640510009709 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510009710 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 640510009711 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 640510009712 active site 640510009713 dimer interface [polypeptide binding]; other site 640510009714 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 640510009715 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 640510009716 active site 640510009717 FMN binding site [chemical binding]; other site 640510009718 substrate binding site [chemical binding]; other site 640510009719 3Fe-4S cluster binding site [ion binding]; other site 640510009720 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 640510009721 domain interface; other site 640510009722 Transposase IS200 like; Region: Y1_Tnp; cl00848 640510009723 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 640510009724 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 640510009725 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 640510009726 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 640510009727 Zn2+ binding site [ion binding]; other site 640510009728 Mg2+ binding site [ion binding]; other site 640510009729 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 640510009730 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 640510009731 active site 640510009732 dimer interface [polypeptide binding]; other site 640510009733 metal binding site [ion binding]; metal-binding site 640510009734 shikimate kinase; Reviewed; Region: aroK; PRK00131 640510009735 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 640510009736 ADP binding site [chemical binding]; other site 640510009737 magnesium binding site [ion binding]; other site 640510009738 putative shikimate binding site; other site 640510009739 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 640510009740 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 640510009741 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 640510009742 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 640510009743 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 640510009744 Transglycosylase; Region: Transgly; cl07896 640510009745 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 640510009746 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate in...; Region: Frataxin; cl00238 640510009747 diaminopimelate decarboxylase; Region: lysA; TIGR01048 640510009748 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 640510009749 active site 640510009750 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 640510009751 substrate binding site [chemical binding]; other site 640510009752 catalytic residues [active] 640510009753 dimer interface [polypeptide binding]; other site 640510009754 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 640510009755 TMAO/DMSO reductase; Reviewed; Region: PRK05363 640510009756 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 640510009757 Moco binding site; other site 640510009758 metal coordination site [ion binding]; other site 640510009759 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 640510009760 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 640510009761 Cytochrome c; Region: Cytochrom_C; cl11414 640510009762 Cytochrome c; Region: Cytochrom_C; cl11414 640510009763 Predicted GTPase [General function prediction only]; Region: COG0218 640510009764 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 640510009765 G1 box; other site 640510009766 GTP/Mg2+ binding site [chemical binding]; other site 640510009767 Switch I region; other site 640510009768 G2 box; other site 640510009769 G3 box; other site 640510009770 Switch II region; other site 640510009771 G4 box; other site 640510009772 G5 box; other site 640510009773 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 640510009774 dimer interface [polypeptide binding]; other site 640510009775 active site 640510009776 aspartate-rich active site metal binding site; other site 640510009777 allosteric magnesium binding site [ion binding]; other site 640510009778 Schiff base residues; other site 640510009779 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 640510009780 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 640510009781 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 640510009782 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 640510009783 DsbD alpha interface [polypeptide binding]; other site 640510009784 catalytic residues [active] 640510009785 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 640510009786 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 640510009787 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 640510009788 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 640510009789 alphaNTD homodimer interface [polypeptide binding]; other site 640510009790 alphaNTD - beta interaction site [polypeptide binding]; other site 640510009791 alphaNTD - beta' interaction site [polypeptide binding]; other site 640510009792 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 640510009793 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 640510009794 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 640510009795 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 640510009796 RNA binding surface [nucleotide binding]; other site 640510009797 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 640510009798 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 640510009799 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 640510009800 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 640510009801 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 640510009802 rRNA binding site [nucleotide binding]; other site 640510009803 predicted 30S ribosome binding site; other site 640510009804 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 640510009805 SecY translocase; Region: SecY; pfam00344 640510009806 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 640510009807 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 640510009808 23S rRNA binding site [nucleotide binding]; other site 640510009809 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 640510009810 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 640510009811 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 640510009812 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 640510009813 5S rRNA interface [nucleotide binding]; other site 640510009814 L27 interface [polypeptide binding]; other site 640510009815 23S rRNA interface [nucleotide binding]; other site 640510009816 L5 interface [polypeptide binding]; other site 640510009817 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 640510009818 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 640510009819 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 640510009820 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 640510009821 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 640510009822 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 640510009823 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 640510009824 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 640510009825 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 640510009826 KOW motif; Region: KOW; cl00354 640510009827 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 640510009828 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 640510009829 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 640510009830 23S rRNA interface [nucleotide binding]; other site 640510009831 putative translocon interaction site; other site 640510009832 signal recognition particle (SRP54) interaction site; other site 640510009833 L23 interface [polypeptide binding]; other site 640510009834 trigger factor interaction site; other site 640510009835 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 640510009836 23S rRNA interface [nucleotide binding]; other site 640510009837 5S rRNA interface [nucleotide binding]; other site 640510009838 putative antibiotic binding site [chemical binding]; other site 640510009839 L25 interface [polypeptide binding]; other site 640510009840 L27 interface [polypeptide binding]; other site 640510009841 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 640510009842 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 640510009843 G-X-X-G motif; other site 640510009844 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 640510009845 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 640510009846 putative translocon binding site; other site 640510009847 protein-rRNA interface [nucleotide binding]; other site 640510009848 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 640510009849 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 640510009850 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 640510009851 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 640510009852 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 640510009853 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 640510009854 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 640510009855 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 640510009856 elongation factor Tu; Reviewed; Region: PRK00049 640510009857 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 640510009858 G1 box; other site 640510009859 GEF interaction site [polypeptide binding]; other site 640510009860 GTP/Mg2+ binding site [chemical binding]; other site 640510009861 Switch I region; other site 640510009862 G2 box; other site 640510009863 G3 box; other site 640510009864 Switch II region; other site 640510009865 G4 box; other site 640510009866 G5 box; other site 640510009867 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 640510009868 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 640510009869 Antibiotic Binding Site [chemical binding]; other site 640510009870 elongation factor G; Reviewed; Region: PRK00007 640510009871 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 640510009872 G1 box; other site 640510009873 putative GEF interaction site [polypeptide binding]; other site 640510009874 GTP/Mg2+ binding site [chemical binding]; other site 640510009875 Switch I region; other site 640510009876 G2 box; other site 640510009877 G3 box; other site 640510009878 Switch II region; other site 640510009879 G4 box; other site 640510009880 G5 box; other site 640510009881 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 640510009882 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 640510009883 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 640510009884 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 640510009885 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 640510009886 S17 interaction site [polypeptide binding]; other site 640510009887 S8 interaction site; other site 640510009888 16S rRNA interaction site [nucleotide binding]; other site 640510009889 streptomycin interaction site [chemical binding]; other site 640510009890 23S rRNA interaction site [nucleotide binding]; other site 640510009891 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 640510009892 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 640510009893 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 640510009894 ATP binding site [chemical binding]; other site 640510009895 putative Mg++ binding site [ion binding]; other site 640510009896 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 640510009897 nucleotide binding region [chemical binding]; other site 640510009898 ATP-binding site [chemical binding]; other site 640510009899 RQC domain; Region: RQC; cl09632 640510009900 HRDC domain; Region: HRDC; cl02578 640510009901 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 640510009902 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 640510009903 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 640510009904 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 640510009905 DNA-directed RNA polymerase subunit beta'; Provisional; Region: rpoC2; PRK02597 640510009906 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 640510009907 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 640510009908 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 640510009909 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 640510009910 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 640510009911 DNA binding site [nucleotide binding] 640510009912 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 640510009913 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 640510009914 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 640510009915 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 640510009916 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 640510009917 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 640510009918 RPB12 interaction site [polypeptide binding]; other site 640510009919 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 640510009920 RPB11 interaction site [polypeptide binding]; other site 640510009921 RPB12 interaction site [polypeptide binding]; other site 640510009922 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 640510009923 RPB3 interaction site [polypeptide binding]; other site 640510009924 RPB1 interaction site [polypeptide binding]; other site 640510009925 RPB11 interaction site [polypeptide binding]; other site 640510009926 RPB10 interaction site [polypeptide binding]; other site 640510009927 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 640510009928 peripheral dimer interface [polypeptide binding]; other site 640510009929 core dimer interface [polypeptide binding]; other site 640510009930 L10 interface [polypeptide binding]; other site 640510009931 L11 interface [polypeptide binding]; other site 640510009932 putative EF-Tu interaction site [polypeptide binding]; other site 640510009933 putative EF-G interaction site [polypeptide binding]; other site 640510009934 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 640510009935 23S rRNA interface [nucleotide binding]; other site 640510009936 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 640510009937 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 640510009938 mRNA/rRNA interface [nucleotide binding]; other site 640510009939 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 640510009940 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 640510009941 23S rRNA interface [nucleotide binding]; other site 640510009942 L7/L12 interface [polypeptide binding]; other site 640510009943 putative thiostrepton binding site; other site 640510009944 L25 interface [polypeptide binding]; other site 640510009945 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 640510009946 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 640510009947 putative homodimer interface [polypeptide binding]; other site 640510009948 KOW motif; Region: KOW; cl00354 640510009949 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 640510009950 elongation factor Tu; Reviewed; Region: PRK00049 640510009951 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 640510009952 G1 box; other site 640510009953 GEF interaction site [polypeptide binding]; other site 640510009954 GTP/Mg2+ binding site [chemical binding]; other site 640510009955 Switch I region; other site 640510009956 G2 box; other site 640510009957 G3 box; other site 640510009958 Switch II region; other site 640510009959 G4 box; other site 640510009960 G5 box; other site 640510009961 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 640510009962 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 640510009963 Antibiotic Binding Site [chemical binding]; other site 640510009964 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 640510009965 active site 640510009966 catalytic triad [active] 640510009967 oxyanion hole [active] 640510009968 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 640510009969 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510009970 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 640510009971 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 640510009972 Phenylacetic acid degradation B; Region: PaaB; cl01371 640510009973 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 640510009974 Domain of unknown function DUF59; Region: DUF59; cl00941 640510009975 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 640510009976 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 640510009977 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 640510009978 FAD binding pocket [chemical binding]; other site 640510009979 FAD binding motif [chemical binding]; other site 640510009980 phosphate binding motif [ion binding]; other site 640510009981 beta-alpha-beta structure motif; other site 640510009982 NAD(p) ribose binding residues [chemical binding]; other site 640510009983 NAD binding pocket [chemical binding]; other site 640510009984 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 640510009985 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 640510009986 catalytic loop [active] 640510009987 iron binding site [ion binding]; other site 640510009988 Domain of unknown function (DUF1835); Region: DUF1835; pfam08874 640510009989 Protein of unknown function; Region: DUF3658; pfam12395 640510009990 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640510009991 Helix-turn-helix domains; Region: HTH; cl00088 640510009992 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 640510009993 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 640510009994 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 640510009995 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 640510009996 putative DNA binding site [nucleotide binding]; other site 640510009997 putative Zn2+ binding site [ion binding]; other site 640510009998 AsnC family; Region: AsnC_trans_reg; pfam01037 640510009999 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 640510010000 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 640510010001 dimer interface [polypeptide binding]; other site 640510010002 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 640510010003 active site 640510010004 Fe binding site [ion binding]; other site 640510010005 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 640510010006 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 640510010007 dimer interface [polypeptide binding]; other site 640510010008 PYR/PP interface [polypeptide binding]; other site 640510010009 TPP binding site [chemical binding]; other site 640510010010 substrate binding site [chemical binding]; other site 640510010011 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 640510010012 TPP-binding site; other site 640510010013 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 640510010014 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 640510010015 Malic enzyme, N-terminal domain; Region: malic; pfam00390 640510010016 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 640510010017 putative NAD(P) binding site [chemical binding]; other site 640510010018 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 640510010019 benzoate transport; Region: 2A0115; TIGR00895 640510010020 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510010021 putative substrate translocation pore; other site 640510010022 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 640510010023 active site 640510010024 transcriptional regulator RcsB; Provisional; Region: PRK10840 640510010025 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510010026 active site 640510010027 phosphorylation site [posttranslational modification] 640510010028 intermolecular recognition site; other site 640510010029 dimerization interface [polypeptide binding]; other site 640510010030 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 640510010031 DNA binding residues [nucleotide binding] 640510010032 dimerization interface [polypeptide binding]; other site 640510010033 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 640510010034 substrate binding site [chemical binding]; other site 640510010035 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 640510010036 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510010037 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 640510010038 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 640510010039 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 640510010040 LysE type translocator; Region: LysE; cl00565 640510010041 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 640510010042 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510010043 Ubiquitin-like proteins; Region: UBQ; cl00155 640510010044 Uncharacterized conserved protein [Function unknown]; Region: COG1656; cl09136 640510010045 Protein of unknown function DUF82; Region: DUF82; pfam01927 640510010046 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 640510010047 Bacterial transcriptional regulator; Region: IclR; pfam01614 640510010048 Uncharacterized protein conserved in bacteria (DUF2242); Region: DUF2242; pfam10001 640510010049 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 640510010050 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 640510010051 N-acetyl-D-glucosamine binding site [chemical binding]; other site 640510010052 catalytic residue [active] 640510010053 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 640510010054 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 640510010055 glutaminase active site [active] 640510010056 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 640510010057 dimer interface [polypeptide binding]; other site 640510010058 active site 640510010059 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 640510010060 dimer interface [polypeptide binding]; other site 640510010061 active site 640510010062 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: glmU; TIGR01173 640510010063 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 640510010064 Substrate binding site; other site 640510010065 Mg++ binding site; other site 640510010066 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 640510010067 active site 640510010068 substrate binding site [chemical binding]; other site 640510010069 CoA binding site [chemical binding]; other site 640510010070 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 640510010071 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 640510010072 Ligand Binding Site [chemical binding]; other site 640510010073 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 640510010074 active site 640510010075 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510010076 NAD(P) binding site [chemical binding]; other site 640510010077 active site 640510010078 Uncharacterized conserved protein [Function unknown]; Region: COG1565 640510010079 Putative S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_28; pfam02636 640510010080 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 640510010081 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 640510010082 active site 640510010083 NTP binding site [chemical binding]; other site 640510010084 metal binding triad [ion binding]; metal-binding site 640510010085 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 640510010086 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 640510010087 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 640510010088 putative C-terminal domain interface [polypeptide binding]; other site 640510010089 putative GSH binding site (G-site) [chemical binding]; other site 640510010090 putative dimer interface [polypeptide binding]; other site 640510010091 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 640510010092 putative dimer interface [polypeptide binding]; other site 640510010093 putative N-terminal domain interface [polypeptide binding]; other site 640510010094 putative substrate binding pocket (H-site) [chemical binding]; other site 640510010095 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 640510010096 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 640510010097 putative NAD(P) binding site [chemical binding]; other site 640510010098 active site 640510010099 lytic murein transglycosylase; Provisional; Region: PRK11619 640510010100 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 640510010101 N-acetyl-D-glucosamine binding site [chemical binding]; other site 640510010102 catalytic residue [active] 640510010103 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 640510010104 Helix-turn-helix domains; Region: HTH; cl00088 640510010105 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 640510010106 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 640510010107 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 640510010108 Escherichia coli putative lactam utilization protein YbgL and similar proteins; Region: LamB_YcsF_YbgL_like; cd10800 640510010109 putative active site [active] 640510010110 Protein of unknown function (DUF969); Region: DUF969; cl01573 640510010111 Protein of unknown function (DUF979); Region: DUF979; cl01572 640510010112 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 640510010113 binding surface 640510010114 TPR motif; other site 640510010115 TPR repeat; Region: TPR_11; pfam13414 640510010116 TPR repeat; Region: TPR_11; pfam13414 640510010117 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 640510010118 binding surface 640510010119 TPR motif; other site 640510010120 TPR repeat; Region: TPR_11; pfam13414 640510010121 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 640510010122 binding surface 640510010123 TPR motif; other site 640510010124 Tetratricopeptide repeat; Region: TPR_12; pfam13424 640510010125 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 640510010126 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 640510010127 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 640510010128 PemK-like protein; Region: PemK; cl00995 640510010129 TraB family; Region: TraB; cl12050 640510010130 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 640510010131 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 640510010132 Walker A/P-loop; other site 640510010133 ATP binding site [chemical binding]; other site 640510010134 Q-loop/lid; other site 640510010135 ABC transporter signature motif; other site 640510010136 Walker B; other site 640510010137 D-loop; other site 640510010138 H-loop/switch region; other site 640510010139 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640510010140 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 640510010141 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 640510010142 Walker A/P-loop; other site 640510010143 ATP binding site [chemical binding]; other site 640510010144 Q-loop/lid; other site 640510010145 ABC transporter signature motif; other site 640510010146 Walker B; other site 640510010147 D-loop; other site 640510010148 H-loop/switch region; other site 640510010149 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640510010150 dipeptide transporter; Provisional; Region: PRK10913 640510010151 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510010152 dimer interface [polypeptide binding]; other site 640510010153 conserved gate region; other site 640510010154 putative PBP binding loops; other site 640510010155 ABC-ATPase subunit interface; other site 640510010156 dipeptide transporter permease DppB; Provisional; Region: PRK10914 640510010157 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510010158 dimer interface [polypeptide binding]; other site 640510010159 conserved gate region; other site 640510010160 putative PBP binding loops; other site 640510010161 ABC-ATPase subunit interface; other site 640510010162 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 640510010163 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 640510010164 peptide binding site [polypeptide binding]; other site 640510010165 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 640510010166 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 640510010167 FAD binding site [chemical binding]; other site 640510010168 Membrane protein of unknown function; Region: DUF360; cl00850 640510010169 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 640510010170 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 640510010171 oligomerization interface [polypeptide binding]; other site 640510010172 active site 640510010173 NAD+ binding site [chemical binding]; other site 640510010174 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 640510010175 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 640510010176 active site 640510010177 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 640510010178 Helix-turn-helix domains; Region: HTH; cl00088 640510010179 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 640510010180 putative dimerization interface [polypeptide binding]; other site 640510010181 choline dehydrogenase; Validated; Region: PRK02106 640510010182 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510010183 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 640510010184 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 640510010185 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640510010186 active site 640510010187 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 640510010188 NAD(P) binding site [chemical binding]; other site 640510010189 catalytic residues [active] 640510010190 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 640510010191 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 640510010192 Flagellar protein FliT; Region: FliT; cl05125 640510010193 Flagellar protein FliS; Region: FliS; cl00654 640510010194 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 640510010195 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 640510010196 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 640510010197 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 640510010198 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 640510010199 FliG C-terminal domain; Region: FliG_C; pfam01706 640510010200 flagellar assembly protein H; Validated; Region: fliH; PRK05687 640510010201 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 640510010202 Flagellar assembly protein FliH; Region: FliH; pfam02108 640510010203 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 640510010204 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 640510010205 Walker A motif/ATP binding site; other site 640510010206 Walker B motif; other site 640510010207 flagellar biosynthesis chaperone; Validated; Region: fliJ; cl09161 640510010208 Flagellar FliJ protein; Region: FliJ; pfam02050 640510010209 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 640510010210 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 640510010211 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 640510010212 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 640510010213 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 640510010214 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 640510010215 FliP family; Region: FliP; cl00593 640510010216 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 640510010217 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 640510010218 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 640510010219 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 640510010220 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 640510010221 Flagellar regulator YcgR; Region: YcgR; pfam07317 640510010222 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 640510010223 PilZ domain; Region: PilZ; cl01260 640510010224 flagellar rod assembly protein/muramidase FlgJ; Provisional; Region: flgJ; PRK12709 640510010225 Rod binding protein; Region: Rod-binding; cl01626 640510010226 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 640510010227 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 640510010228 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 640510010229 Flagellar L-ring protein; Region: FlgH; cl00905 640510010230 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12694 640510010231 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 640510010232 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 640510010233 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 640510010234 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 640510010235 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 640510010236 flagellar hook protein FlgE; Provisional; Region: flgE; PRK12637 640510010237 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 640510010238 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 640510010239 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 640510010240 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 640510010241 FlgD Ig-like domain; Region: FlgD_ig; cl15790 640510010242 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 640510010243 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 640510010244 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 640510010245 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12626 640510010246 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 640510010247 SAF-like; Region: SAF_2; pfam13144 640510010248 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 640510010249 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 640510010250 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 640510010251 FlgN protein; Region: FlgN; cl09176 640510010252 YcfA-like protein; Region: YcfA; cl00752 640510010253 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 640510010254 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 640510010255 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 640510010256 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640510010257 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 640510010258 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 640510010259 DNA binding residues [nucleotide binding] 640510010260 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 640510010261 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510010262 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510010263 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK06995 640510010264 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK06995 640510010265 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510010266 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 640510010267 FHIPEP family; Region: FHIPEP; pfam00771 640510010268 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 640510010269 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 640510010270 Protein of unknown function (DUF3443); Region: DUF3443; pfam11925 640510010271 Protein of unknown function (DUF2844); Region: DUF2844; pfam11005 640510010272 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 640510010273 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 640510010274 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510010275 active site 640510010276 phosphorylation site [posttranslational modification] 640510010277 intermolecular recognition site; other site 640510010278 dimerization interface [polypeptide binding]; other site 640510010279 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 640510010280 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510010281 active site 640510010282 phosphorylation site [posttranslational modification] 640510010283 intermolecular recognition site; other site 640510010284 dimerization interface [polypeptide binding]; other site 640510010285 CheB methylesterase; Region: CheB_methylest; pfam01339 640510010286 CheD chemotactic sensory transduction; Region: CheD; cl00810 640510010287 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 640510010288 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 640510010289 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 640510010290 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 640510010291 dimer interface [polypeptide binding]; other site 640510010292 ligand binding site [chemical binding]; other site 640510010293 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 640510010294 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 640510010295 dimerization interface [polypeptide binding]; other site 640510010296 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 640510010297 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640510010298 dimer interface [polypeptide binding]; other site 640510010299 putative CheW interface [polypeptide binding]; other site 640510010300 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 640510010301 chemotaxis protein CheA; Provisional; Region: PRK10547 640510010302 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 640510010303 putative binding surface; other site 640510010304 active site 640510010305 CheY binding; Region: CheY-binding; pfam09078 640510010306 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 640510010307 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510010308 ATP binding site [chemical binding]; other site 640510010309 Mg2+ binding site [ion binding]; other site 640510010310 G-X-G motif; other site 640510010311 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 640510010312 Response regulator receiver domain; Region: Response_reg; pfam00072 640510010313 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510010314 active site 640510010315 phosphorylation site [posttranslational modification] 640510010316 intermolecular recognition site; other site 640510010317 dimerization interface [polypeptide binding]; other site 640510010318 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 640510010319 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 640510010320 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640510010321 ligand binding site [chemical binding]; other site 640510010322 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 640510010323 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 640510010324 Flagellar transcriptional activator (FlhC); Region: FlhC; cl05036 640510010325 Flagellar transcriptional activator (FlhD); Region: FlhD; cl05012 640510010326 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 640510010327 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640510010328 putative ADP-binding pocket [chemical binding]; other site 640510010329 H-NS histone family; Region: Histone_HNS; pfam00816 640510010330 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 640510010331 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 640510010332 amphipathic channel; other site 640510010333 Asn-Pro-Ala signature motifs; other site 640510010334 putative hydrolase; Provisional; Region: PRK10976 640510010335 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 640510010336 active site 640510010337 motif I; other site 640510010338 motif II; other site 640510010339 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 640510010340 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 640510010341 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 640510010342 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 640510010343 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 640510010344 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 640510010345 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 640510010346 active site 640510010347 catalytic tetrad [active] 640510010348 flagellin; Validated; Region: PRK06819 640510010349 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 640510010350 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 640510010351 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 640510010352 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 640510010353 Flagellar protein FliT; Region: FliT; cl05125 640510010354 Tetratricopeptide repeat; Region: TPR_16; pfam13432 640510010355 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 640510010356 binding surface 640510010357 TPR motif; other site 640510010358 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 640510010359 binding surface 640510010360 TPR motif; other site 640510010361 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 640510010362 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 640510010363 TPR motif; other site 640510010364 binding surface 640510010365 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 640510010366 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 640510010367 inhibitor-cofactor binding pocket; inhibition site 640510010368 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510010369 catalytic residue [active] 640510010370 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 640510010371 trimer interface [polypeptide binding]; other site 640510010372 active site 640510010373 substrate binding site [chemical binding]; other site 640510010374 CoA binding site [chemical binding]; other site 640510010375 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 640510010376 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 640510010377 PYR/PP interface [polypeptide binding]; other site 640510010378 dimer interface [polypeptide binding]; other site 640510010379 TPP binding site [chemical binding]; other site 640510010380 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 640510010381 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 640510010382 TPP-binding site [chemical binding]; other site 640510010383 dimer interface [polypeptide binding]; other site 640510010384 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 640510010385 classical (c) SDRs; Region: SDR_c; cd05233 640510010386 NAD(P) binding site [chemical binding]; other site 640510010387 active site 640510010388 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 640510010389 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 640510010390 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 640510010391 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 640510010392 NAD(P) binding site [chemical binding]; other site 640510010393 catalytic residues [active] 640510010394 AMP-binding enzyme; Region: AMP-binding; cl15778 640510010395 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 640510010396 AMP-binding enzyme; Region: AMP-binding; cl15778 640510010397 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 640510010398 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 640510010399 putative trimer interface [polypeptide binding]; other site 640510010400 putative CoA binding site [chemical binding]; other site 640510010401 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 640510010402 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 640510010403 Divergent AAA domain; Region: AAA_4; pfam04326 640510010404 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 640510010405 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 640510010406 Phage-related protein [Function unknown]; Region: COG4695; cl01923 640510010407 phage portal protein, PBSX family; Region: portal_PBSX; TIGR01540 640510010408 terminase ATPase subunit; Provisional; Region: P; PHA02535 640510010409 Helix-turn-helix domains; Region: HTH; cl00088 640510010410 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 640510010411 Phage capsid scaffolding protein (GPO) serine peptidase; Region: Phage_GPO; cl15838 640510010412 Phage major capsid protein, P2 family; Region: Phage_cap_P2; cl04947 640510010413 terminase endonuclease subunit; Provisional; Region: M; PHA02537 640510010414 Phage small terminase subunit; Region: Phage_term_smal; pfam05944 640510010415 Phage head completion protein (GPL); Region: Phage_GPL; pfam05926 640510010416 Phage Tail Protein X; Region: Phage_tail_X; cl02088 640510010417 Protein of unknown function (DUF754); Region: DUF754; pfam05449 640510010418 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 640510010419 Protein of unknown function (DUF3380); Region: DUF3380; pfam11860 640510010420 P2 phage tail completion protein R (GpR); Region: P2_Phage_GpR; pfam06891 640510010421 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 640510010422 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 640510010423 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 640510010424 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 640510010425 Baseplate J-like protein; Region: Baseplate_J; cl01294 640510010426 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 640510010427 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; cl05448 640510010428 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 640510010429 Phage tail tube protein FII; Region: Phage_tube; cl01390 640510010430 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 640510010431 Phage P2 GpE; Region: Phage_P2_GpE; pfam06528 640510010432 Phage P2 GpU; Region: Phage_P2_GpU; cl01391 640510010433 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 640510010434 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 640510010435 non-specific DNA binding site [nucleotide binding]; other site 640510010436 salt bridge; other site 640510010437 sequence-specific DNA binding site [nucleotide binding]; other site 640510010438 Uncharacterized protein family (UPF0261); Region: UPF0261; cl02262 640510010439 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 640510010440 DNA primase domain-containing protein; Region: PHA02415 640510010441 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 640510010442 P22-like integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial and phage integrases, including those similar to phage P22-like integrases, DLP12 and APSE-1; Region: INT_P22_C; cd01192 640510010443 Int/Topo IB signature motif; other site 640510010444 Cytochrome c; Region: Cytochrom_C; cl11414 640510010445 Cytochrome c; Region: Cytochrom_C; cl11414 640510010446 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 640510010447 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510010448 Family description; Region: UvrD_C_2; cl15862 640510010449 putative oxidoreductase; Provisional; Region: PRK11579 640510010450 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510010451 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 640510010452 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 640510010453 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 640510010454 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 640510010455 lipoyl attachment site [posttranslational modification]; other site 640510010456 glycine dehydrogenase; Provisional; Region: PRK05367 640510010457 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 640510010458 tetramer interface [polypeptide binding]; other site 640510010459 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510010460 catalytic residue [active] 640510010461 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 640510010462 tetramer interface [polypeptide binding]; other site 640510010463 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510010464 catalytic residue [active] 640510010465 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 640510010466 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 640510010467 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 640510010468 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 640510010469 thiamine pyrophosphate protein; Validated; Region: PRK08199 640510010470 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 640510010471 PYR/PP interface [polypeptide binding]; other site 640510010472 dimer interface [polypeptide binding]; other site 640510010473 TPP binding site [chemical binding]; other site 640510010474 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 640510010475 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 640510010476 TPP-binding site [chemical binding]; other site 640510010477 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640510010478 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510010479 FAD dependent oxidoreductase; Region: DAO; pfam01266 640510010480 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 640510010481 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 640510010482 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 640510010483 C-terminal domain interface [polypeptide binding]; other site 640510010484 GSH binding site (G-site) [chemical binding]; other site 640510010485 dimer interface [polypeptide binding]; other site 640510010486 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 640510010487 N-terminal domain interface [polypeptide binding]; other site 640510010488 Phospholipid methyltransferase; Region: PEMT; cl00763 640510010489 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 640510010490 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07769 640510010491 AMP-binding enzyme; Region: AMP-binding; cl15778 640510010492 Phosphopantetheine attachment site; Region: PP-binding; cl09936 640510010493 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 640510010494 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 640510010495 inhibitor-cofactor binding pocket; inhibition site 640510010496 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510010497 catalytic residue [active] 640510010498 Predicted dehydrogenase [General function prediction only]; Region: COG5322 640510010499 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510010500 NAD(P) binding pocket [chemical binding]; other site 640510010501 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 640510010502 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 640510010503 dimerization interface [polypeptide binding]; other site 640510010504 ligand binding site [chemical binding]; other site 640510010505 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 640510010506 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 640510010507 Proline dehydrogenase; Region: Pro_dh; cl03282 640510010508 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 640510010509 Glutamate binding site [chemical binding]; other site 640510010510 NAD binding site [chemical binding]; other site 640510010511 catalytic residues [active] 640510010512 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 640510010513 primosome assembly protein PriA; Validated; Region: PRK05580 640510010514 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510010515 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510010516 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 640510010517 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 640510010518 substrate binding site [chemical binding]; other site 640510010519 active site 640510010520 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 640510010521 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 640510010522 substrate binding pocket [chemical binding]; other site 640510010523 membrane-bound complex binding site; other site 640510010524 hinge residues; other site 640510010525 AMP-binding domain protein; Validated; Region: PRK08315 640510010526 AMP-binding enzyme; Region: AMP-binding; cl15778 640510010527 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 640510010528 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 640510010529 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 640510010530 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 640510010531 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 640510010532 alpha subunit interaction interface [polypeptide binding]; other site 640510010533 Walker A motif; other site 640510010534 ATP binding site [chemical binding]; other site 640510010535 Walker B motif; other site 640510010536 inhibitor binding site; inhibition site 640510010537 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 640510010538 ATP synthase; Region: ATP-synt; cl00365 640510010539 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 640510010540 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 640510010541 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 640510010542 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 640510010543 beta subunit interaction interface [polypeptide binding]; other site 640510010544 Walker A motif; other site 640510010545 ATP binding site [chemical binding]; other site 640510010546 Walker B motif; other site 640510010547 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 640510010548 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 640510010549 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 640510010550 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 640510010551 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 640510010552 ATP synthase subunit C; Region: ATP-synt_C; cl00466 640510010553 ATP synthase A chain; Region: ATP-synt_A; cl00413 640510010554 ATP synthase I chain; Region: ATP_synt_I; cl09170 640510010555 ParB-like partition proteins; Region: parB_part; TIGR00180 640510010556 ParB-like nuclease domain; Region: ParBc; cl02129 640510010557 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 640510010558 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 640510010559 P-loop; other site 640510010560 Magnesium ion binding site [ion binding]; other site 640510010561 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 640510010562 Magnesium ion binding site [ion binding]; other site 640510010563 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 640510010564 S-adenosylmethionine binding site [chemical binding]; other site 640510010565 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 640510010566 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510010567 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 640510010568 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 640510010569 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 640510010570 Walker A/P-loop; other site 640510010571 ATP binding site [chemical binding]; other site 640510010572 Q-loop/lid; other site 640510010573 ABC transporter signature motif; other site 640510010574 Walker B; other site 640510010575 D-loop; other site 640510010576 H-loop/switch region; other site 640510010577 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 640510010578 TM-ABC transporter signature motif; other site 640510010579 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 640510010580 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 640510010581 Walker A/P-loop; other site 640510010582 ATP binding site [chemical binding]; other site 640510010583 Q-loop/lid; other site 640510010584 ABC transporter signature motif; other site 640510010585 Walker B; other site 640510010586 D-loop; other site 640510010587 H-loop/switch region; other site 640510010588 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 640510010589 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 640510010590 TM-ABC transporter signature motif; other site 640510010591 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 640510010592 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 640510010593 putative ligand binding site [chemical binding]; other site 640510010594 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 640510010595 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 640510010596 putative ligand binding site [chemical binding]; other site 640510010597 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 640510010598 TM-ABC transporter signature motif; other site 640510010599 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 640510010600 TM-ABC transporter signature motif; other site 640510010601 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 640510010602 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 640510010603 putative ligand binding site [chemical binding]; other site 640510010604 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 640510010605 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 640510010606 Walker A/P-loop; other site 640510010607 ATP binding site [chemical binding]; other site 640510010608 Q-loop/lid; other site 640510010609 ABC transporter signature motif; other site 640510010610 Walker B; other site 640510010611 D-loop; other site 640510010612 H-loop/switch region; other site 640510010613 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 640510010614 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 640510010615 Walker A/P-loop; other site 640510010616 ATP binding site [chemical binding]; other site 640510010617 Q-loop/lid; other site 640510010618 ABC transporter signature motif; other site 640510010619 Walker B; other site 640510010620 D-loop; other site 640510010621 H-loop/switch region; other site 640510010622 choline dehydrogenase; Validated; Region: PRK02106 640510010623 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510010624 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 640510010625 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 640510010626 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640510010627 tetrameric interface [polypeptide binding]; other site 640510010628 NAD binding site [chemical binding]; other site 640510010629 catalytic residues [active] 640510010630 Helix-turn-helix domains; Region: HTH; cl00088 640510010631 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 640510010632 The 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 640510010633 dimerization interface [polypeptide binding]; other site 640510010634 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 640510010635 putative active site [active] 640510010636 putative metal binding residues [ion binding]; other site 640510010637 signature motif; other site 640510010638 putative triphosphate binding site [ion binding]; other site 640510010639 dimer interface [polypeptide binding]; other site 640510010640 Helix-turn-helix domains; Region: HTH; cl00088 640510010641 AsnC family; Region: AsnC_trans_reg; pfam01037 640510010642 Protein of unknown function (DUF3717); Region: DUF3717; pfam12512 640510010643 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 640510010644 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510010645 active site 640510010646 phosphorylation site [posttranslational modification] 640510010647 intermolecular recognition site; other site 640510010648 dimerization interface [polypeptide binding]; other site 640510010649 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 640510010650 DNA binding site [nucleotide binding] 640510010651 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 640510010652 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640510010653 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 640510010654 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 640510010655 dimer interface [polypeptide binding]; other site 640510010656 phosphorylation site [posttranslational modification] 640510010657 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510010658 ATP binding site [chemical binding]; other site 640510010659 Mg2+ binding site [ion binding]; other site 640510010660 G-X-G motif; other site 640510010661 SET domain; Region: SET; cl02566 640510010662 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 640510010663 active site 640510010664 FMN binding site [chemical binding]; other site 640510010665 substrate binding site [chemical binding]; other site 640510010666 homotetramer interface [polypeptide binding]; other site 640510010667 catalytic residue [active] 640510010668 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 640510010669 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 640510010670 catalytic triad [active] 640510010671 Transcriptional regulators [Transcription]; Region: MarR; COG1846 640510010672 Helix-turn-helix domains; Region: HTH; cl00088 640510010673 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 640510010674 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 640510010675 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 640510010676 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 640510010677 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 640510010678 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510010679 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 640510010680 IHF dimer interface [polypeptide binding]; other site 640510010681 IHF - DNA interface [nucleotide binding]; other site 640510010682 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 640510010683 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510010684 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 640510010685 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 640510010686 N-acetyl-D-glucosamine binding site [chemical binding]; other site 640510010687 catalytic residue [active] 640510010688 type II secretion system protein D; Region: type_II_gspD; TIGR02517 640510010689 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 640510010690 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 640510010691 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 640510010692 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 640510010693 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 640510010694 type II secretion system protein E; Region: type_II_gspE; TIGR02533 640510010695 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 640510010696 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 640510010697 Walker A motif; other site 640510010698 ATP binding site [chemical binding]; other site 640510010699 Walker B motif; other site 640510010700 type II secretion system protein F; Region: GspF; TIGR02120 640510010701 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 640510010702 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 640510010703 Type IV pilus biogenesis; Region: Pilus_PilP; cl11837 640510010704 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 640510010705 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 640510010706 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 640510010707 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 640510010708 Type II transport protein GspH; Region: GspH; pfam12019 640510010709 type II secretion system protein I; Region: gspI; TIGR01707 640510010710 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 640510010711 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 640510010712 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 640510010713 GspL periplasmic domain; Region: GspL_C; cl14909 640510010714 Type II secretion system (T2SS), protein M; Region: T2SM; cl01222 640510010715 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 640510010716 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640510010717 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640510010718 Helix-turn-helix domains; Region: HTH; cl00088 640510010719 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 640510010720 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510010721 putative substrate translocation pore; other site 640510010722 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510010723 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 640510010724 AlkA N-terminal domain; Region: AlkA_N; cl05528 640510010725 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 640510010726 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 640510010727 minor groove reading motif; other site 640510010728 helix-hairpin-helix signature motif; other site 640510010729 substrate binding pocket [chemical binding]; other site 640510010730 active site 640510010731 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 640510010732 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 640510010733 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510010734 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 640510010735 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 640510010736 DNA binding site [nucleotide binding] 640510010737 active site 640510010738 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 640510010739 dimer interface [polypeptide binding]; other site 640510010740 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640510010741 metal binding site [ion binding]; metal-binding site 640510010742 YaeQ protein; Region: YaeQ; cl01913 640510010743 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 640510010744 Helix-turn-helix domains; Region: HTH; cl00088 640510010745 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 640510010746 putative dimerization interface [polypeptide binding]; other site 640510010747 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 640510010748 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640510010749 NAD(P) binding site [chemical binding]; other site 640510010750 catalytic residues [active] 640510010751 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 640510010752 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 640510010753 ligand binding site [chemical binding]; other site 640510010754 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 640510010755 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 640510010756 Walker A/P-loop; other site 640510010757 ATP binding site [chemical binding]; other site 640510010758 Q-loop/lid; other site 640510010759 ABC transporter signature motif; other site 640510010760 Walker B; other site 640510010761 D-loop; other site 640510010762 H-loop/switch region; other site 640510010763 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 640510010764 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 640510010765 TM-ABC transporter signature motif; other site 640510010766 Dehydratase family; Region: ILVD_EDD; cl00340 640510010767 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 640510010768 HIT family signature motif; other site 640510010769 catalytic residue [active] 640510010770 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 640510010771 Helix-turn-helix domains; Region: HTH; cl00088 640510010772 AsnC family; Region: AsnC_trans_reg; pfam01037 640510010773 2-oxoacid dehydrogenase subunit E1; Provisional; Region: PRK13012 640510010774 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 640510010775 dimer interface [polypeptide binding]; other site 640510010776 TPP-binding site [chemical binding]; other site 640510010777 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 640510010778 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 640510010779 active site 640510010780 Int/Topo IB signature motif; other site 640510010781 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 640510010782 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 640510010783 trmE is a tRNA modification GTPase; Region: trmE; cd04164 640510010784 G1 box; other site 640510010785 GTP/Mg2+ binding site [chemical binding]; other site 640510010786 Switch I region; other site 640510010787 G2 box; other site 640510010788 Switch II region; other site 640510010789 G3 box; other site 640510010790 G4 box; other site 640510010791 G5 box; other site 640510010792 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 640510010793 bifunctional HTH-domain containing protein/aminotransferase; Provisional; Region: PRK13355 640510010794 membrane protein insertase; Provisional; Region: PRK01318 640510010795 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 640510010796 Haemolytic domain; Region: Haemolytic; cl00506 640510010797 Ribonuclease P; Region: Ribonuclease_P; cl00457 640510010798 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 640510010799 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 640510010800 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 640510010801 trehalose synthase; Region: treS_nterm; TIGR02456 640510010802 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 640510010803 active site 640510010804 catalytic site [active] 640510010805 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 640510010806 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 640510010807 active site 640510010808 catalytic site [active] 640510010809 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 640510010810 sensory histidine kinase AtoS; Provisional; Region: PRK11360 640510010811 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510010812 ATP binding site [chemical binding]; other site 640510010813 Mg2+ binding site [ion binding]; other site 640510010814 G-X-G motif; other site 640510010815 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 640510010816 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640510010817 sensory histidine kinase AtoS; Provisional; Region: PRK11360 640510010818 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 640510010819 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 640510010820 dimer interface [polypeptide binding]; other site 640510010821 phosphorylation site [posttranslational modification] 640510010822 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510010823 ATP binding site [chemical binding]; other site 640510010824 G-X-G motif; other site 640510010825 Response regulator receiver domain; Region: Response_reg; pfam00072 640510010826 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510010827 active site 640510010828 phosphorylation site [posttranslational modification] 640510010829 intermolecular recognition site; other site 640510010830 dimerization interface [polypeptide binding]; other site 640510010831 flagellar motor switch protein; Reviewed; Region: PRK06782 640510010832 Chemotaxis phosphatase CheX; Region: CheX; cl15816 640510010833 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 640510010834 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510010835 active site 640510010836 phosphorylation site [posttranslational modification] 640510010837 intermolecular recognition site; other site 640510010838 dimerization interface [polypeptide binding]; other site 640510010839 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 640510010840 Protein of unknown function DUF72; Region: DUF72; cl00777 640510010841 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 640510010842 Fe-S cluster binding site [ion binding]; other site 640510010843 active site 640510010844 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 640510010845 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 640510010846 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 640510010847 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 640510010848 Flavin binding site [chemical binding]; other site 640510010849 Protein of unknown function, DUF480; Region: DUF480; cl01209 640510010850 D-amino acid dehydrogenase small subunit; Provisional; Region: PRK12409 640510010851 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510010852 BON domain; Region: BON; cl02771 640510010853 acetate kinase; Region: ackA; TIGR00016 640510010854 Acetokinase family; Region: Acetate_kinase; cl01029 640510010855 putative phosphoketolase; Provisional; Region: PRK05261 640510010856 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 640510010857 TPP-binding site; other site 640510010858 D-xylulose 5-phosphate/D-fructose 6-phosphate phosphoketolase; Region: XFP; pfam03894 640510010859 XFP C-terminal domain; Region: XFP_C; pfam09363 640510010860 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 640510010861 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 640510010862 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 640510010863 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 640510010864 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 640510010865 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510010866 sugar efflux transporter; Region: 2A0120; TIGR00899 640510010867 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510010868 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 640510010869 catalytic residues [active] 640510010870 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 640510010871 Fructose-1,6-bisphosphate aldolase; Region: FBP_aldolase_I_a; cd00948 640510010872 active site 640510010873 intersubunit interface [polypeptide binding]; other site 640510010874 catalytic residue [active] 640510010875 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 640510010876 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640510010877 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 640510010878 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510010879 ATP binding site [chemical binding]; other site 640510010880 Mg2+ binding site [ion binding]; other site 640510010881 G-X-G motif; other site 640510010882 Response regulator receiver domain; Region: Response_reg; pfam00072 640510010883 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510010884 active site 640510010885 phosphorylation site [posttranslational modification] 640510010886 intermolecular recognition site; other site 640510010887 dimerization interface [polypeptide binding]; other site 640510010888 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 640510010889 iron-sulfur cluster [ion binding]; other site 640510010890 [2Fe-2S] cluster binding site [ion binding]; other site 640510010891 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 640510010892 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640510010893 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 640510010894 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 640510010895 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 640510010896 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 640510010897 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 640510010898 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 640510010899 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 640510010900 active site 640510010901 catalytic site [active] 640510010902 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 640510010903 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 640510010904 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 640510010905 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640510010906 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 640510010907 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 640510010908 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 640510010909 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 640510010910 catalytic loop [active] 640510010911 iron binding site [ion binding]; other site 640510010912 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 640510010913 short chain dehydrogenase; Provisional; Region: PRK06701 640510010914 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 640510010915 NAD binding site [chemical binding]; other site 640510010916 metal binding site [ion binding]; metal-binding site 640510010917 active site 640510010918 Response regulator receiver domain; Region: Response_reg; pfam00072 640510010919 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510010920 active site 640510010921 phosphorylation site [posttranslational modification] 640510010922 intermolecular recognition site; other site 640510010923 dimerization interface [polypeptide binding]; other site 640510010924 ATP-dependent DNA ligase; Validated; Region: PRK09247 640510010925 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 640510010926 active site 640510010927 DNA binding site [nucleotide binding] 640510010928 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 640510010929 DNA binding site [nucleotide binding] 640510010930 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 640510010931 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 640510010932 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 640510010933 Predicted ATPase [General function prediction only]; Region: COG1485 640510010934 transketolase; Reviewed; Region: PRK05899 640510010935 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 640510010936 TPP-binding site [chemical binding]; other site 640510010937 dimer interface [polypeptide binding]; other site 640510010938 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 640510010939 PYR/PP interface [polypeptide binding]; other site 640510010940 dimer interface [polypeptide binding]; other site 640510010941 TPP binding site [chemical binding]; other site 640510010942 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 640510010943 Cupin domain; Region: Cupin_2; cl09118 640510010944 chaperone protein DnaJ; Provisional; Region: PRK14282 640510010945 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 640510010946 trimer interface [polypeptide binding]; other site 640510010947 eyelet of channel; other site 640510010948 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510010949 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 640510010950 metal ion-dependent adhesion site (MIDAS); other site 640510010951 MarC family integral membrane protein; Region: MarC; cl00919 640510010952 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 640510010953 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 640510010954 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 640510010955 Na binding site [ion binding]; other site 640510010956 glycogen synthase; Provisional; Region: glgA; PRK00654 640510010957 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 640510010958 ADP-binding pocket [chemical binding]; other site 640510010959 homodimer interface [polypeptide binding]; other site 640510010960 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640510010961 metal binding site [ion binding]; metal-binding site 640510010962 active site 640510010963 I-site; other site 640510010964 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 640510010965 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 640510010966 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 640510010967 active site 640510010968 metal binding site [ion binding]; metal-binding site 640510010969 Peptidase family M1; Region: Peptidase_M1; pfam01433 640510010970 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 640510010971 Zn binding site [ion binding]; other site 640510010972 Epoxide hydrolase N terminus; Region: EHN; pfam06441 640510010973 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640510010974 LrgA family; Region: LrgA; cl00608 640510010975 LrgB-like family; Region: LrgB; cl00596 640510010976 Protein of unknown function (DUF1305); Region: DUF1305; cl01404 640510010977 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 640510010978 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 640510010979 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 640510010980 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 640510010981 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 640510010982 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 640510010983 Bacterial protein of unknown function (DUF879); Region: DUF879; cl15462 640510010984 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 640510010985 trehalase; Provisional; Region: treF; PRK13270 640510010986 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 640510010987 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 640510010988 active site clefts [active] 640510010989 zinc binding site [ion binding]; other site 640510010990 dimer interface [polypeptide binding]; other site 640510010991 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 640510010992 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640510010993 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510010994 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510010995 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 640510010996 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 640510010997 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; cl00922 640510010998 CbiD; Region: CbiD; cl00828 640510010999 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 640510011000 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 640510011001 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 640510011002 precorrin-3B synthase; Region: CobG; TIGR02435 640510011003 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 640510011004 precorrin-3B synthase; Region: CobG; TIGR02435 640510011005 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 640510011006 Precorrin isomerase [Coenzyme metabolism]; Region: CobH; cl00913 640510011007 Precorrin-8X methylmutase; Region: CbiC; pfam02570 640510011008 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 640510011009 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 640510011010 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 640510011011 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 640510011012 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 640510011013 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 640510011014 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510011015 Walker A/P-loop; other site 640510011016 ATP binding site [chemical binding]; other site 640510011017 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510011018 Q-loop/lid; other site 640510011019 ABC transporter signature motif; other site 640510011020 Walker B; other site 640510011021 D-loop; other site 640510011022 H-loop/switch region; other site 640510011023 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 640510011024 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 640510011025 active site 640510011026 metal binding site [ion binding]; metal-binding site 640510011027 DNA binding site [nucleotide binding] 640510011028 Protein of unknown function (DUF445); Region: DUF445; pfam04286 640510011029 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 640510011030 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 640510011031 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510011032 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 640510011033 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510011034 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 640510011035 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 640510011036 intersubunit interface [polypeptide binding]; other site 640510011037 active site 640510011038 Zn2+ binding site [ion binding]; other site 640510011039 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 640510011040 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 640510011041 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510011042 homodimer interface [polypeptide binding]; other site 640510011043 catalytic residue [active] 640510011044 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510011045 Helix-turn-helix domains; Region: HTH; cl00088 640510011046 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 640510011047 putative dimerization interface [polypeptide binding]; other site 640510011048 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 640510011049 DNA binding residues [nucleotide binding] 640510011050 dimerization interface [polypeptide binding]; other site 640510011051 Response regulator receiver domain; Region: Response_reg; pfam00072 640510011052 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510011053 active site 640510011054 phosphorylation site [posttranslational modification] 640510011055 intermolecular recognition site; other site 640510011056 dimerization interface [polypeptide binding]; other site 640510011057 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 640510011058 dimer interface [polypeptide binding]; other site 640510011059 phosphorylation site [posttranslational modification] 640510011060 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510011061 ATP binding site [chemical binding]; other site 640510011062 Mg2+ binding site [ion binding]; other site 640510011063 G-X-G motif; other site 640510011064 CheB methylesterase; Region: CheB_methylest; pfam01339 640510011065 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 640510011066 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 640510011067 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 640510011068 CHASE3 domain; Region: CHASE3; cl05000 640510011069 GAF domain; Region: GAF_2; pfam13185 640510011070 GAF domain; Region: GAF; cl15785 640510011071 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 640510011072 dimer interface [polypeptide binding]; other site 640510011073 phosphorylation site [posttranslational modification] 640510011074 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510011075 ATP binding site [chemical binding]; other site 640510011076 Mg2+ binding site [ion binding]; other site 640510011077 G-X-G motif; other site 640510011078 Response regulator receiver domain; Region: Response_reg; pfam00072 640510011079 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510011080 active site 640510011081 phosphorylation site [posttranslational modification] 640510011082 intermolecular recognition site; other site 640510011083 dimerization interface [polypeptide binding]; other site 640510011084 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 640510011085 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510011086 active site 640510011087 phosphorylation site [posttranslational modification] 640510011088 intermolecular recognition site; other site 640510011089 dimerization interface [polypeptide binding]; other site 640510011090 Response regulator receiver domain; Region: Response_reg; pfam00072 640510011091 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510011092 active site 640510011093 phosphorylation site [posttranslational modification] 640510011094 intermolecular recognition site; other site 640510011095 dimerization interface [polypeptide binding]; other site 640510011096 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 640510011097 MltA-interacting protein MipA; Region: MipA; cl01504 640510011098 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 640510011099 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 640510011100 Helix-turn-helix domains; Region: HTH; cl00088 640510011101 AsnC family; Region: AsnC_trans_reg; pfam01037 640510011102 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 640510011103 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 640510011104 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510011105 catalytic residue [active] 640510011106 LysR family transcriptional regulator; Provisional; Region: PRK14997 640510011107 Helix-turn-helix domains; Region: HTH; cl00088 640510011108 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 640510011109 putative effector binding pocket; other site 640510011110 dimerization interface [polypeptide binding]; other site 640510011111 Pirin-related protein [General function prediction only]; Region: COG1741 640510011112 Cupin domain; Region: Cupin_2; cl09118 640510011113 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 640510011114 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 640510011115 catalytic residue [active] 640510011116 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 640510011117 catalytic residues [active] 640510011118 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640510011119 peroxiredoxin; Region: AhpC; TIGR03137 640510011120 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 640510011121 dimer interface [polypeptide binding]; other site 640510011122 decamer (pentamer of dimers) interface [polypeptide binding]; other site 640510011123 catalytic triad [active] 640510011124 peroxidatic and resolving cysteines [active] 640510011125 Propionate catabolism activator; Region: PrpR_N; pfam06506 640510011126 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 640510011127 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 640510011128 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 640510011129 Walker A motif; other site 640510011130 ATP binding site [chemical binding]; other site 640510011131 Walker B motif; other site 640510011132 arginine finger; other site 640510011133 Helix-turn-helix domains; Region: HTH; cl00088 640510011134 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 640510011135 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 640510011136 tetramer interface [polypeptide binding]; other site 640510011137 active site 640510011138 Mg2+/Mn2+ binding site [ion binding]; other site 640510011139 putative transporter; Provisional; Region: PRK10504 640510011140 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510011141 putative substrate translocation pore; other site 640510011142 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640510011143 Coenzyme A binding pocket [chemical binding]; other site 640510011144 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 640510011145 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 640510011146 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 640510011147 putative nicotinate phosphoribosyltransferase; Provisional; Region: PRK09198 640510011148 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 640510011149 active site 640510011150 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 640510011151 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 640510011152 Walker A motif; other site 640510011153 ATP binding site [chemical binding]; other site 640510011154 Walker B motif; other site 640510011155 arginine finger; other site 640510011156 Helix-turn-helix domains; Region: HTH; cl00088 640510011157 Mechanosensitive ion channel; Region: MS_channel; pfam00924 640510011158 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 640510011159 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510011160 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510011161 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 640510011162 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 640510011163 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 640510011164 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 640510011165 Cysteine-rich domain; Region: CCG; pfam02754 640510011166 Cysteine-rich domain; Region: CCG; pfam02754 640510011167 DNA-binding transcriptional repressor LldR; Provisional; Region: PRK10421 640510011168 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510011169 DNA-binding site [nucleotide binding]; DNA binding site 640510011170 FCD domain; Region: FCD; cl11656 640510011171 aspartate aminotransferase; Provisional; Region: PRK05764 640510011172 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 640510011173 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510011174 homodimer interface [polypeptide binding]; other site 640510011175 catalytic residue [active] 640510011176 RNA polymerase factor sigma-54; Provisional; Region: PRK12469 640510011177 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 640510011178 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 640510011179 BON domain; Region: BON; cl02771 640510011180 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 640510011181 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 640510011182 Domain of unknown function (DUF305); Region: DUF305; cl15795 640510011183 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 640510011184 intracellular protease, PfpI family; Region: PfpI; TIGR01382 640510011185 proposed catalytic triad [active] 640510011186 conserved cys residue [active] 640510011187 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 640510011188 active site 640510011189 DNA binding site [nucleotide binding] 640510011190 Int/Topo IB signature motif; other site 640510011191 catalytic residues [active] 640510011192 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 640510011193 Protein of unknown function (DUF3175); Region: DUF3175; pfam11373 640510011194 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 640510011195 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 640510011196 Cupin domain; Region: Cupin_2; cl09118 640510011197 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640510011198 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510011199 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 640510011200 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 640510011201 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 640510011202 active site 640510011203 catalytic tetrad [active] 640510011204 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 640510011205 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 640510011206 ATP binding site [chemical binding]; other site 640510011207 putative Mg++ binding site [ion binding]; other site 640510011208 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 640510011209 nucleotide binding region [chemical binding]; other site 640510011210 ATP-binding site [chemical binding]; other site 640510011211 DEAD/H associated; Region: DEAD_assoc; pfam08494 640510011212 RNase II stability modulator; Provisional; Region: PRK10060 640510011213 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 640510011214 putative active site [active] 640510011215 heme pocket [chemical binding]; other site 640510011216 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640510011217 metal binding site [ion binding]; metal-binding site 640510011218 active site 640510011219 I-site; other site 640510011220 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 640510011221 enoyl-CoA hydratase; Validated; Region: PRK08788 640510011222 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 640510011223 substrate binding site [chemical binding]; other site 640510011224 oxyanion hole (OAH) forming residues; other site 640510011225 trimer interface [polypeptide binding]; other site 640510011226 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 640510011227 hypothetical protein; Provisional; Region: PRK07907 640510011228 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_5; cd05682 640510011229 metal binding site [ion binding]; metal-binding site 640510011230 putative dimer interface [polypeptide binding]; other site 640510011231 Superinfection immunity protein; Region: Imm_superinfect; pfam14373 640510011232 Uncharacterized small protein (DUF2158); Region: DUF2158; cl02293 640510011233 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510011234 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510011235 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640510011236 Helix-turn-helix domains; Region: HTH; cl00088 640510011237 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 640510011238 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 640510011239 tetramer interface [polypeptide binding]; other site 640510011240 active site 640510011241 Mg2+/Mn2+ binding site [ion binding]; other site 640510011242 OsmC-like protein; Region: OsmC; cl00767 640510011243 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 640510011244 hypothetical protein; Provisional; Region: PRK07483 640510011245 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 640510011246 inhibitor-cofactor binding pocket; inhibition site 640510011247 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510011248 catalytic residue [active] 640510011249 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 640510011250 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 640510011251 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 640510011252 putative active site [active] 640510011253 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 640510011254 PAS fold; Region: PAS_7; pfam12860 640510011255 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640510011256 metal binding site [ion binding]; metal-binding site 640510011257 active site 640510011258 I-site; other site 640510011259 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 640510011260 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 640510011261 rod shape-determining protein MreB; Provisional; Region: PRK13930 640510011262 Cell division protein FtsA; Region: FtsA; cl11496 640510011263 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 640510011264 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510011265 putative substrate translocation pore; other site 640510011266 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510011267 Glutaminase; Region: Glutaminase; cl00907 640510011268 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 640510011269 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 640510011270 glutaminase active site [active] 640510011271 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 640510011272 dimer interface [polypeptide binding]; other site 640510011273 active site 640510011274 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 640510011275 dimer interface [polypeptide binding]; other site 640510011276 active site 640510011277 Haloacid Dehalogenase Superfamily Class (subfamily) IIA; Region: HAD-SF-IIA; TIGR01460 640510011278 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510011279 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640510011280 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510011281 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640510011282 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 640510011283 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510011284 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510011285 MatE; Region: MatE; cl10513 640510011286 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 640510011287 active site 640510011288 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510011289 Helix-turn-helix domains; Region: HTH; cl00088 640510011290 The 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 640510011291 dimerization interface [polypeptide binding]; other site 640510011292 metabolite-proton symporter; Region: 2A0106; TIGR00883 640510011293 choline dehydrogenase; Validated; Region: PRK02106 640510011294 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510011295 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 640510011296 enoyl-CoA hydratase; Provisional; Region: PRK06688 640510011297 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 640510011298 substrate binding site [chemical binding]; other site 640510011299 oxyanion hole (OAH) forming residues; other site 640510011300 trimer interface [polypeptide binding]; other site 640510011301 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 640510011302 AMP-binding enzyme; Region: AMP-binding; cl15778 640510011303 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 640510011304 4-hydroxybenzoyl-CoA reductase, gamma subunit; Region: 4hydroxCoAred; TIGR03193 640510011305 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 640510011306 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 640510011307 FAD binding domain in molybdopterin dehydrogenase; Region: FAD_binding_5; pfam00941 640510011308 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 640510011309 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 640510011310 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 640510011311 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640510011312 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 640510011313 putative hydrophobic ligand binding site [chemical binding]; other site 640510011314 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 640510011315 Flavoprotein; Region: Flavoprotein; cl08021 640510011316 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 640510011317 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510011318 Helix-turn-helix domains; Region: HTH; cl00088 640510011319 The 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 640510011320 dimerization interface [polypeptide binding]; other site 640510011321 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 640510011322 acetylornithine deacetylase (ArgE); Region: AcOrn-deacetyl; TIGR01892 640510011323 metal binding site [ion binding]; metal-binding site 640510011324 putative dimer interface [polypeptide binding]; other site 640510011325 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 640510011326 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 640510011327 homotrimer interaction site [polypeptide binding]; other site 640510011328 putative active site [active] 640510011329 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 640510011330 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510011331 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510011332 Helix-turn-helix domains; Region: HTH; cl00088 640510011333 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 640510011334 putative substrate binding pocket [chemical binding]; other site 640510011335 dimerization interface [polypeptide binding]; other site 640510011336 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 640510011337 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 640510011338 [2Fe-2S] cluster binding site [ion binding]; other site 640510011339 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 640510011340 putative alpha subunit interface [polypeptide binding]; other site 640510011341 putative active site [active] 640510011342 putative substrate binding site [chemical binding]; other site 640510011343 Fe binding site [ion binding]; other site 640510011344 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 640510011345 PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D. PotA has two domains with the N-terminal domain containing the ATPase activity and the residues required...; Region: ABC_PotA_N; cd03300 640510011346 Walker A/P-loop; other site 640510011347 ATP binding site [chemical binding]; other site 640510011348 Q-loop/lid; other site 640510011349 ABC transporter signature motif; other site 640510011350 Walker B; other site 640510011351 D-loop; other site 640510011352 H-loop/switch region; other site 640510011353 TOBE domain; Region: TOBE_2; cl01440 640510011354 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 640510011355 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510011356 dimer interface [polypeptide binding]; other site 640510011357 conserved gate region; other site 640510011358 putative PBP binding loops; other site 640510011359 ABC-ATPase subunit interface; other site 640510011360 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 640510011361 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510011362 conserved gate region; other site 640510011363 dimer interface [polypeptide binding]; other site 640510011364 putative PBP binding loops; other site 640510011365 ABC-ATPase subunit interface; other site 640510011366 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510011367 Helix-turn-helix domains; Region: HTH; cl00088 640510011368 The 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 640510011369 dimerization interface [polypeptide binding]; other site 640510011370 hypothetical protein; Provisional; Region: PRK07079 640510011371 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_2; cd05679 640510011372 metal binding site [ion binding]; metal-binding site 640510011373 putative dimer interface [polypeptide binding]; other site 640510011374 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510011375 metabolite-proton symporter; Region: 2A0106; TIGR00883 640510011376 putative substrate translocation pore; other site 640510011377 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 640510011378 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640510011379 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510011380 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640510011381 putative substrate translocation pore; other site 640510011382 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 640510011383 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510011384 active site 640510011385 phosphorylation site [posttranslational modification] 640510011386 intermolecular recognition site; other site 640510011387 dimerization interface [polypeptide binding]; other site 640510011388 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 640510011389 Walker A motif; other site 640510011390 ATP binding site [chemical binding]; other site 640510011391 Walker B motif; other site 640510011392 arginine finger; other site 640510011393 Helix-turn-helix domains; Region: HTH; cl00088 640510011394 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 640510011395 dimer interface [polypeptide binding]; other site 640510011396 phosphorylation site [posttranslational modification] 640510011397 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510011398 ATP binding site [chemical binding]; other site 640510011399 Mg2+ binding site [ion binding]; other site 640510011400 G-X-G motif; other site 640510011401 two-component sensor protein; Provisional; Region: cpxA; PRK09470 640510011402 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 640510011403 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 640510011404 dimer interface [polypeptide binding]; other site 640510011405 phosphorylation site [posttranslational modification] 640510011406 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510011407 ATP binding site [chemical binding]; other site 640510011408 Mg2+ binding site [ion binding]; other site 640510011409 G-X-G motif; other site 640510011410 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510011411 osmolarity response regulator; Provisional; Region: ompR; PRK09468 640510011412 active site 640510011413 phosphorylation site [posttranslational modification] 640510011414 intermolecular recognition site; other site 640510011415 dimerization interface [polypeptide binding]; other site 640510011416 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 640510011417 DNA binding site [nucleotide binding] 640510011418 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 640510011419 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 640510011420 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 640510011421 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 640510011422 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 640510011423 Helix-turn-helix domains; Region: HTH; cl00088 640510011424 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 640510011425 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 640510011426 FAD binding pocket [chemical binding]; other site 640510011427 FAD binding motif [chemical binding]; other site 640510011428 phosphate binding motif [ion binding]; other site 640510011429 NAD binding pocket [chemical binding]; other site 640510011430 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 640510011431 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510011432 putative substrate translocation pore; other site 640510011433 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 640510011434 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 640510011435 substrate binding site [chemical binding]; other site 640510011436 oxyanion hole (OAH) forming residues; other site 640510011437 trimer interface [polypeptide binding]; other site 640510011438 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 640510011439 enoyl-CoA hydratase; Provisional; Region: PRK09076 640510011440 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 640510011441 substrate binding site [chemical binding]; other site 640510011442 oxyanion hole (OAH) forming residues; other site 640510011443 trimer interface [polypeptide binding]; other site 640510011444 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510011445 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 640510011446 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 640510011447 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640510011448 tetrameric interface [polypeptide binding]; other site 640510011449 NAD binding site [chemical binding]; other site 640510011450 catalytic residues [active] 640510011451 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 640510011452 AMP-binding enzyme; Region: AMP-binding; cl15778 640510011453 AMP-binding enzyme; Region: AMP-binding; cl15778 640510011454 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 640510011455 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640510011456 active site 640510011457 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 640510011458 trimer interface [polypeptide binding]; other site 640510011459 eyelet of channel; other site 640510011460 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 640510011461 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640510011462 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 640510011463 Cupin domain; Region: Cupin_2; cl09118 640510011464 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 640510011465 homotrimer interaction site [polypeptide binding]; other site 640510011466 putative active site [active] 640510011467 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510011468 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; pfam01118 640510011469 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 640510011470 DmpG-like communication domain; Region: DmpG_comm; pfam07836 640510011471 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 640510011472 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 640510011473 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640510011474 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 640510011475 NAD binding site [chemical binding]; other site 640510011476 catalytic residues [active] 640510011477 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 640510011478 Helix-turn-helix domains; Region: HTH; cl00088 640510011479 The 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 640510011480 dimerization interface [polypeptide binding]; other site 640510011481 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 640510011482 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640510011483 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510011484 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 640510011485 dimer interface [polypeptide binding]; other site 640510011486 active site residues [active] 640510011487 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 640510011488 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 640510011489 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 640510011490 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640510011491 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 640510011492 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 640510011493 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 640510011494 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 640510011495 Walker A motif; other site 640510011496 ATP binding site [chemical binding]; other site 640510011497 Walker B motif; other site 640510011498 arginine finger; other site 640510011499 Helix-turn-helix domains; Region: HTH; cl00088 640510011500 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 640510011501 catalytic loop [active] 640510011502 iron binding site [ion binding]; other site 640510011503 Protein of unknown function (DUF1653); Region: DUF1653; cl01949 640510011504 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 640510011505 YheO-like PAS domain; Region: PAS_6; pfam08348 640510011506 Helix-turn-helix domains; Region: HTH; cl00088 640510011507 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 640510011508 rRNA binding site [nucleotide binding]; other site 640510011509 predicted 30S ribosome binding site; other site 640510011510 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 640510011511 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510011512 active site 640510011513 phosphorylation site [posttranslational modification] 640510011514 intermolecular recognition site; other site 640510011515 dimerization interface [polypeptide binding]; other site 640510011516 ANTAR domain; Region: ANTAR; cl04297 640510011517 NMT1-like family; Region: NMT1_2; cl15260 640510011518 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 640510011519 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 640510011520 dimer interface [polypeptide binding]; other site 640510011521 phosphorylation site [posttranslational modification] 640510011522 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510011523 ATP binding site [chemical binding]; other site 640510011524 Mg2+ binding site [ion binding]; other site 640510011525 G-X-G motif; other site 640510011526 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 640510011527 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510011528 active site 640510011529 phosphorylation site [posttranslational modification] 640510011530 intermolecular recognition site; other site 640510011531 dimerization interface [polypeptide binding]; other site 640510011532 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 640510011533 DNA binding site [nucleotide binding] 640510011534 The 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 640510011535 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 640510011536 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 640510011537 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510011538 dimer interface [polypeptide binding]; other site 640510011539 conserved gate region; other site 640510011540 ABC-ATPase subunit interface; other site 640510011541 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510011542 dimer interface [polypeptide binding]; other site 640510011543 conserved gate region; other site 640510011544 putative PBP binding loops; other site 640510011545 ABC-ATPase subunit interface; other site 640510011546 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 640510011547 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510011548 Walker A/P-loop; other site 640510011549 ATP binding site [chemical binding]; other site 640510011550 Q-loop/lid; other site 640510011551 ABC transporter signature motif; other site 640510011552 Walker B; other site 640510011553 D-loop; other site 640510011554 H-loop/switch region; other site 640510011555 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 640510011556 trimer interface [polypeptide binding]; other site 640510011557 eyelet of channel; other site 640510011558 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 640510011559 rhamnose ABC transporter, rhamnose-binding protein; Region: RhaS; TIGR02637 640510011560 ligand binding site [chemical binding]; other site 640510011561 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 640510011562 TM-ABC transporter signature motif; other site 640510011563 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 640510011564 TM-ABC transporter signature motif; other site 640510011565 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 640510011566 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 640510011567 Walker A/P-loop; other site 640510011568 ATP binding site [chemical binding]; other site 640510011569 Q-loop/lid; other site 640510011570 ABC transporter signature motif; other site 640510011571 Walker B; other site 640510011572 D-loop; other site 640510011573 H-loop/switch region; other site 640510011574 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 640510011575 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 640510011576 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 640510011577 Domain of unknown function (DUF718); Region: DUF718; cl01281 640510011578 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 640510011579 Helix-turn-helix domains; Region: HTH; cl00088 640510011580 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 640510011581 putative dimerization interface [polypeptide binding]; other site 640510011582 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640510011583 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510011584 NAD(P) binding site [chemical binding]; other site 640510011585 active site 640510011586 L-rhamnonate dehydratase; Provisional; Region: PRK15440 640510011587 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 640510011588 putative active site pocket [active] 640510011589 putative metal binding site [ion binding]; other site 640510011590 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 640510011591 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510011592 putative substrate translocation pore; other site 640510011593 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510011594 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640510011595 classical (c) SDRs; Region: SDR_c; cd05233 640510011596 NAD(P) binding site [chemical binding]; other site 640510011597 active site 640510011598 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510011599 Helix-turn-helix domains; Region: HTH; cl00088 640510011600 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 640510011601 substrate binding pocket [chemical binding]; other site 640510011602 dimerization interface [polypeptide binding]; other site 640510011603 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 640510011604 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510011605 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 640510011606 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640510011607 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 640510011608 (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 640510011609 active site 640510011610 catalytic site [active] 640510011611 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 640510011612 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640510011613 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 640510011614 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 640510011615 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 640510011616 shikimate binding site; other site 640510011617 NAD(P) binding site [chemical binding]; other site 640510011618 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 640510011619 Low molecular weight phosphatase family; Region: LMWPc; cl00105 640510011620 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 640510011621 HSP70 interaction site [polypeptide binding]; other site 640510011622 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 640510011623 indole acetimide hydrolase; Validated; Region: PRK07488 640510011624 Amidase; Region: Amidase; cl11426 640510011625 CDP-diacylglycerol pyrophosphatase; Region: CDH; cl00934 640510011626 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 640510011627 Sulfatase; Region: Sulfatase; cl10460 640510011628 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 640510011629 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 640510011630 trimer interface [polypeptide binding]; other site 640510011631 eyelet of channel; other site 640510011632 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 640510011633 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510011634 active site 640510011635 phosphorylation site [posttranslational modification] 640510011636 intermolecular recognition site; other site 640510011637 dimerization interface [polypeptide binding]; other site 640510011638 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 640510011639 DNA binding site [nucleotide binding] 640510011640 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 640510011641 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640510011642 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 640510011643 dimer interface [polypeptide binding]; other site 640510011644 phosphorylation site [posttranslational modification] 640510011645 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510011646 ATP binding site [chemical binding]; other site 640510011647 Mg2+ binding site [ion binding]; other site 640510011648 G-X-G motif; other site 640510011649 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 640510011650 active site 640510011651 hypothetical protein; Validated; Region: PRK08238 640510011652 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 640510011653 UbiA prenyltransferase family; Region: UbiA; cl00337 640510011654 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 640510011655 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 640510011656 putative di-iron ligands [ion binding]; other site 640510011657 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510011658 NAD(P) binding site [chemical binding]; other site 640510011659 active site 640510011660 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510011661 Helix-turn-helix domains; Region: HTH; cl00088 640510011662 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_1; cd08460 640510011663 putative substrate binding pocket [chemical binding]; other site 640510011664 putative dimerization interface [polypeptide binding]; other site 640510011665 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 640510011666 Helix-turn-helix domains; Region: HTH; cl00088 640510011667 The 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 640510011668 dimerization interface [polypeptide binding]; other site 640510011669 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 640510011670 The 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 640510011671 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 640510011672 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510011673 Walker A/P-loop; other site 640510011674 ATP binding site [chemical binding]; other site 640510011675 Q-loop/lid; other site 640510011676 ABC transporter signature motif; other site 640510011677 Walker B; other site 640510011678 D-loop; other site 640510011679 H-loop/switch region; other site 640510011680 TOBE domain; Region: TOBE_2; cl01440 640510011681 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510011682 dimer interface [polypeptide binding]; other site 640510011683 conserved gate region; other site 640510011684 putative PBP binding loops; other site 640510011685 ABC-ATPase subunit interface; other site 640510011686 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 640510011687 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510011688 dimer interface [polypeptide binding]; other site 640510011689 conserved gate region; other site 640510011690 putative PBP binding loops; other site 640510011691 ABC-ATPase subunit interface; other site 640510011692 FAD dependent oxidoreductase; Region: DAO; pfam01266 640510011693 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510011694 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 640510011695 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 640510011696 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 640510011697 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510011698 FAD dependent oxidoreductase; Region: DAO; pfam01266 640510011699 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 640510011700 homotrimer interaction site [polypeptide binding]; other site 640510011701 putative active site [active] 640510011702 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 640510011703 MgtC family; Region: MgtC; pfam02308 640510011704 RNA polymerase sigma-70 factor, TIGR02957 family; Region: SigX4 640510011705 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640510011706 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 640510011707 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510011708 Helix-turn-helix domains; Region: HTH; cl00088 640510011709 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 640510011710 putative effector binding pocket; other site 640510011711 dimerization interface [polypeptide binding]; other site 640510011712 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510011713 NADH(P)-binding; Region: NAD_binding_10; pfam13460 640510011714 NAD(P) binding site [chemical binding]; other site 640510011715 active site 640510011716 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640510011717 metal binding site [ion binding]; metal-binding site 640510011718 active site 640510011719 I-site; other site 640510011720 Tannase and feruloyl esterase; Region: Tannase; pfam07519 640510011721 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 640510011722 eyelet of channel; other site 640510011723 trimer interface [polypeptide binding]; other site 640510011724 putative 3-hydroxyphenylpropionic transporter MhpT; Provisional; Region: PRK11551 640510011725 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510011726 putative substrate translocation pore; other site 640510011727 p-hydroxycinnamoyl CoA hydratase/lyase; Validated; Region: PRK09120 640510011728 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 640510011729 substrate binding site [chemical binding]; other site 640510011730 oxyanion hole (OAH) forming residues; other site 640510011731 trimer interface [polypeptide binding]; other site 640510011732 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640510011733 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 640510011734 NAD(P) binding site [chemical binding]; other site 640510011735 catalytic residues [active] 640510011736 feruloyl-CoA synthase; Reviewed; Region: PRK08180 640510011737 AMP-binding enzyme; Region: AMP-binding; cl15778 640510011738 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 640510011739 Isochorismatase family; Region: Isochorismatase; pfam00857 640510011740 catalytic triad [active] 640510011741 dimer interface [polypeptide binding]; other site 640510011742 conserved cis-peptide bond; other site 640510011743 OpgC protein; Region: OpgC_C; cl00792 640510011744 Acyltransferase family; Region: Acyl_transf_3; pfam01757 640510011745 MEDS: MEthanogen/methylotroph, DcmR Sensory domain; Region: MEDS; pfam14417 640510011746 Signal transduction histidine kinase regulating phosphoglycerate transport system [Signal transduction mechanisms]; Region: COG4192 640510011747 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 640510011748 dimer interface [polypeptide binding]; other site 640510011749 phosphorylation site [posttranslational modification] 640510011750 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510011751 ATP binding site [chemical binding]; other site 640510011752 G-X-G motif; other site 640510011753 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510011754 active site 640510011755 phosphorylation site [posttranslational modification] 640510011756 intermolecular recognition site; other site 640510011757 dimerization interface [polypeptide binding]; other site 640510011758 ATP-grasp domain; Region: ATP-grasp_4; cl03087 640510011759 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 640510011760 active site 640510011761 OpgC protein; Region: OpgC_C; cl00792 640510011762 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640510011763 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 640510011764 nucleophilic elbow; other site 640510011765 catalytic triad; other site 640510011766 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510011767 Helix-turn-helix domains; Region: HTH; cl00088 640510011768 The 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 640510011769 dimerization interface [polypeptide binding]; other site 640510011770 ATP adenylyltransferase (5',5'''-P-1,P-4-tetraphosphate phosphorylase II) [Nucleotide transport and metabolism]; Region: APA2; COG4360 640510011771 ATP adenylyltransferase; Region: ATP_transf; pfam09830 640510011772 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640510011773 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510011774 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510011775 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 640510011776 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 640510011777 substrate binding pocket [chemical binding]; other site 640510011778 membrane-bound complex binding site; other site 640510011779 hinge residues; other site 640510011780 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 640510011781 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510011782 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 640510011783 YheO-like PAS domain; Region: PAS_6; pfam08348 640510011784 Helix-turn-helix domains; Region: HTH; cl00088 640510011785 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 640510011786 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 640510011787 binding surface 640510011788 TPR motif; other site 640510011789 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 640510011790 metal ion-dependent adhesion site (MIDAS); other site 640510011791 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 640510011792 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 640510011793 MoxR-like ATPases [General function prediction only]; Region: COG0714 640510011794 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510011795 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510011796 Helix-turn-helix domains; Region: HTH; cl00088 640510011797 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 640510011798 putative dimerization interface [polypeptide binding]; other site 640510011799 quinoprotein dehydrogenase-associated probable ABC transporter substrate-binding protein; Region: ABC_peri_MoxJ_2; TIGR03871 640510011800 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 640510011801 substrate binding pocket [chemical binding]; other site 640510011802 membrane-bound complex binding site; other site 640510011803 hinge residues; other site 640510011804 Cytochrome c; Region: Cytochrom_C; cl11414 640510011805 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 640510011806 Large subunit of methanol dehydrogenase (moxF); Region: PQQ_MDH; cd10278 640510011807 Trp docking motif [polypeptide binding]; other site 640510011808 dimer interface [polypeptide binding]; other site 640510011809 active site 640510011810 small subunit binding site [polypeptide binding]; other site 640510011811 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 640510011812 aromatic arch; other site 640510011813 DCoH dimer interaction site [polypeptide binding]; other site 640510011814 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 640510011815 DCoH tetramer interaction site [polypeptide binding]; other site 640510011816 substrate binding site [chemical binding]; other site 640510011817 Predicted archaeal sugar kinases [General function prediction only]; Region: COG1907 640510011818 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 640510011819 Methylene-tetrahydromethanopterin dehydrogenase, N-terminal; Region: Mpt_N; pfam09176 640510011820 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510011821 NAD(P) binding pocket [chemical binding]; other site 640510011822 Predicted ATP-dependent carboligase related to biotin carboxylase [General function prediction only]; Region: COG2232 640510011823 ATP-grasp domain; Region: ATP-grasp_4; cl03087 640510011824 N(5),N(10)-methenyltetrahydromethanopterin cyclohydrolase; Provisional; Region: PRK02264 640510011825 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 640510011826 trimer interface I [polypeptide binding]; other site 640510011827 putative substrate binding pocket [chemical binding]; other site 640510011828 trimer interface II [polypeptide binding]; other site 640510011829 alpha-L-glutamate ligases, RimK family; Region: rimK_fam; TIGR00768 640510011830 ATP-grasp domain; Region: ATP-grasp_4; cl03087 640510011831 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 640510011832 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 640510011833 Formaldehyde-activating enzyme (Fae); Region: Fae; cl00774 640510011834 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 640510011835 active site 640510011836 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 640510011837 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 640510011838 Walker A motif; other site 640510011839 ATP binding site [chemical binding]; other site 640510011840 Walker B motif; other site 640510011841 arginine finger; other site 640510011842 Helix-turn-helix domains; Region: HTH; cl00088 640510011843 Archaeal flavoproteins [Energy production and conversion]; Region: COG1036 640510011844 Flavoprotein; Region: Flavoprotein; cl08021 640510011845 dihydropteroate synthase-related protein; Region: TIGR00284 640510011846 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 640510011847 substrate binding pocket [chemical binding]; other site 640510011848 dimer interface [polypeptide binding]; other site 640510011849 inhibitor binding site; inhibition site 640510011850 hypothetical protein; Provisional; Region: PRK08185 640510011851 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 640510011852 intersubunit interface [polypeptide binding]; other site 640510011853 active site 640510011854 zinc binding site [ion binding]; other site 640510011855 Na+ binding site [ion binding]; other site 640510011856 transketolase; Reviewed; Region: PRK12753 640510011857 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 640510011858 TPP-binding site [chemical binding]; other site 640510011859 dimer interface [polypeptide binding]; other site 640510011860 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 640510011861 PYR/PP interface [polypeptide binding]; other site 640510011862 dimer interface [polypeptide binding]; other site 640510011863 TPP binding site [chemical binding]; other site 640510011864 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 640510011865 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510011866 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 640510011867 AMP binding site [chemical binding]; other site 640510011868 metal binding site [ion binding]; metal-binding site 640510011869 active site 640510011870 probable Rubsico expression protein CbbX; Region: cbbX_cfxQ; TIGR02880 640510011871 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 640510011872 Walker A motif; other site 640510011873 ATP binding site [chemical binding]; other site 640510011874 Walker B motif; other site 640510011875 arginine finger; other site 640510011876 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 640510011877 multimerization interface [polypeptide binding]; other site 640510011878 ribulose bisophosphate carboxylase; Reviewed; Region: rbcL; PRK04208 640510011879 Ribulose bisphosphate carboxylase large chain, Form I; Region: RuBisCO_large_I; cd08212 640510011880 homodimer interface [polypeptide binding]; other site 640510011881 active site 640510011882 heterodimer interface [polypeptide binding]; other site 640510011883 catalytic residue [active] 640510011884 metal binding site [ion binding]; metal-binding site 640510011885 PqqA family; Region: PqqA; cl15372 640510011886 Flavin Reductases; Region: FlaRed; cl00801 640510011887 Protein of unknown function (DUF556); Region: DUF556; cl00822 640510011888 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 640510011889 nucleotide binding site [chemical binding]; other site 640510011890 substrate binding site [chemical binding]; other site 640510011891 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 640510011892 Predicted ATP-utilizing enzyme (ATP-grasp superfamily) [General function prediction only]; Region: COG1821 640510011893 ATP-grasp domain; Region: ATP-grasp_4; cl03087 640510011894 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 640510011895 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 640510011896 active site 640510011897 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 640510011898 formylmethanofuran dehydrogenase subunit B; Region: one_C_dehyd_B; TIGR03129 640510011899 molybdopterin cofactor binding site; other site 640510011900 formylmethanofuran dehydrogenase subunit A; Region: one_C_dehyd_A; TIGR03121 640510011901 Formylmethanofuran dehydrogenase (FMDH) subunit A; Methanogenic bacteria and archea derive the energy for autotrophic growth from methanogenesis, the reduction of CO2 with molecular hydrogen as the electron donor. FMDH catalyzes the first step in...; Region: FMDH_A; cd01304 640510011902 active site 640510011903 formylmethanofuran--tetrahydromethanopterin formyltransferase; Provisional; Region: PRK02114 640510011904 Formylmethanofuran-tetrahydromethanopterin formyltransferase; Region: FTR; pfam01913 640510011905 FTR, proximal lobe; Region: FTR_C; pfam02741 640510011906 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 640510011907 putative subunit interface; other site 640510011908 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 640510011909 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 640510011910 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 640510011911 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 640510011912 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 640510011913 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 640510011914 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 640510011915 FeS/SAM binding site; other site 640510011916 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 640510011917 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640510011918 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510011919 active site 640510011920 phosphorylation site [posttranslational modification] 640510011921 intermolecular recognition site; other site 640510011922 dimerization interface [polypeptide binding]; other site 640510011923 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 640510011924 DNA binding residues [nucleotide binding] 640510011925 dimerization interface [polypeptide binding]; other site 640510011926 Histidine kinase; Region: HisKA_3; pfam07730 640510011927 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510011928 ATP binding site [chemical binding]; other site 640510011929 Mg2+ binding site [ion binding]; other site 640510011930 G-X-G motif; other site 640510011931 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 640510011932 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 640510011933 N-terminal plug; other site 640510011934 ligand-binding site [chemical binding]; other site 640510011935 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 640510011936 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 640510011937 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 640510011938 structural tetrad; other site 640510011939 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 640510011940 haloacid dehalogenase-like hydrolase family protein; Region: PLN02779 640510011941 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 640510011942 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 640510011943 phosphoglycolate phosphatase; Provisional; Region: PRK13222 640510011944 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 640510011945 motif II; other site 640510011946 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 640510011947 trimer interface [polypeptide binding]; other site 640510011948 eyelet of channel; other site 640510011949 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 640510011950 NMT1-like family; Region: NMT1_2; cl15260 640510011951 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 640510011952 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 640510011953 ATP-grasp domain; Region: ATP-grasp_4; cl03087 640510011954 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 640510011955 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 640510011956 carboxyltransferase (CT) interaction site; other site 640510011957 biotinylation site [posttranslational modification]; other site 640510011958 enoyl-CoA hydratase; Provisional; Region: PRK05995 640510011959 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 640510011960 substrate binding site [chemical binding]; other site 640510011961 oxyanion hole (OAH) forming residues; other site 640510011962 trimer interface [polypeptide binding]; other site 640510011963 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 640510011964 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 640510011965 isovaleryl-CoA dehydrogenase; Region: PLN02519 640510011966 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 640510011967 substrate binding site [chemical binding]; other site 640510011968 FAD binding site [chemical binding]; other site 640510011969 catalytic base [active] 640510011970 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640510011971 Helix-turn-helix domains; Region: HTH; cl00088 640510011972 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 640510011973 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 640510011974 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 640510011975 Cl- selectivity filter; other site 640510011976 Cl- binding residues [ion binding]; other site 640510011977 pore gating glutamate residue; other site 640510011978 dimer interface [polypeptide binding]; other site 640510011979 Helix-turn-helix domains; Region: HTH; cl00088 640510011980 thiamine pyrophosphate protein; Provisional; Region: PRK08273 640510011981 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 640510011982 PYR/PP interface [polypeptide binding]; other site 640510011983 dimer interface [polypeptide binding]; other site 640510011984 tetramer interface [polypeptide binding]; other site 640510011985 TPP binding site [chemical binding]; other site 640510011986 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 640510011987 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 640510011988 TPP-binding site [chemical binding]; other site 640510011989 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 640510011990 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 640510011991 putative active site pocket [active] 640510011992 putative metal binding site [ion binding]; other site 640510011993 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 640510011994 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 640510011995 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510011996 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 640510011997 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 640510011998 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 640510011999 putative NAD(P) binding site [chemical binding]; other site 640510012000 active site 640510012001 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 640510012002 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 640510012003 Cytochrome c; Region: Cytochrom_C; cl11414 640510012004 Cytochrome c; Region: Cytochrom_C; cl11414 640510012005 Cytochrome c; Region: Cytochrom_C; cl11414 640510012006 Nucleolar protein 12 (25kDa); Region: Nop25; pfam09805 640510012007 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 640510012008 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 640510012009 D-pathway; other site 640510012010 Putative ubiquinol binding site [chemical binding]; other site 640510012011 Low-spin heme (heme b) binding site [chemical binding]; other site 640510012012 Putative water exit pathway; other site 640510012013 Binuclear center (heme o3/CuB) [ion binding]; other site 640510012014 K-pathway; other site 640510012015 Putative proton exit pathway; other site 640510012016 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; cd00386 640510012017 Subunit I/III interface [polypeptide binding]; other site 640510012018 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 640510012019 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 640510012020 Cytochrome c; Region: Cytochrom_C; cl11414 640510012021 Domain of unknown function (DUF4396); Region: DUF4396; pfam14342 640510012022 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 640510012023 Paraquat-inducible protein A; Region: PqiA; pfam04403 640510012024 Paraquat-inducible protein A; Region: PqiA; pfam04403 640510012025 UbiA prenyltransferase family; Region: UbiA; cl00337 640510012026 mce related protein; Region: MCE; pfam02470 640510012027 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 640510012028 mce related protein; Region: MCE; pfam02470 640510012029 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 640510012030 Protein of unknown function (DUF330); Region: DUF330; cl01135 640510012031 PAS domain S-box; Region: sensory_box; TIGR00229 640510012032 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 640510012033 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 640510012034 PAS domain; Region: PAS_9; pfam13426 640510012035 putative active site [active] 640510012036 heme pocket [chemical binding]; other site 640510012037 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640510012038 metal binding site [ion binding]; metal-binding site 640510012039 active site 640510012040 I-site; other site 640510012041 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 640510012042 VPS10 domain; Region: VPS10; smart00602 640510012043 Ubiquitin-like proteins; Region: UBQ; cl00155 640510012044 short chain dehydrogenase; Provisional; Region: PRK06180 640510012045 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 640510012046 NADP binding site [chemical binding]; other site 640510012047 active site 640510012048 steroid binding site; other site 640510012049 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640510012050 Helix-turn-helix domains; Region: HTH; cl00088 640510012051 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 640510012052 putative effector binding pocket; other site 640510012053 putative dimerization interface [polypeptide binding]; other site 640510012054 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 640510012055 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 640510012056 S-adenosylmethionine binding site [chemical binding]; other site 640510012057 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 640510012058 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 640510012059 putative FMN binding site [chemical binding]; other site 640510012060 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 640510012061 trimer interface [polypeptide binding]; other site 640510012062 eyelet of channel; other site 640510012063 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 640510012064 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640510012065 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 640510012066 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 640510012067 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 640510012068 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 640510012069 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 640510012070 alpha subunit interface [polypeptide binding]; other site 640510012071 active site 640510012072 substrate binding site [chemical binding]; other site 640510012073 Fe binding site [ion binding]; other site 640510012074 Transcriptional regulators [Transcription]; Region: GntR; COG1802 640510012075 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510012076 DNA-binding site [nucleotide binding]; DNA binding site 640510012077 FCD domain; Region: FCD; cl11656 640510012078 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 640510012079 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 640510012080 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510012081 DNA-binding site [nucleotide binding]; DNA binding site 640510012082 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 640510012083 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510012084 homodimer interface [polypeptide binding]; other site 640510012085 catalytic residue [active] 640510012086 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 640510012087 putative FMN binding site [chemical binding]; other site 640510012088 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510012089 Helix-turn-helix domains; Region: HTH; cl00088 640510012090 The C-terminal substrate binding domain of LysR-type transcriptional regulator PnbR, which is involved in regulating the pnb genes encoding enzymes for 4-nitrobenzoate catabolism, contains the type 2 periplasmic binding fold; Region: PBP2_PnbR; cd08469 640510012091 putative substrate binding pocket [chemical binding]; other site 640510012092 putative dimerization interface [polypeptide binding]; other site 640510012093 Protein of unknown function DUF72; Region: DUF72; cl00777 640510012094 NeuB family; Region: NeuB; cl00496 640510012095 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 640510012096 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 640510012097 IHF dimer interface [polypeptide binding]; other site 640510012098 IHF - DNA interface [nucleotide binding]; other site 640510012099 long-chain-fatty-acid--CoA ligase; Provisional; Region: PRK12492 640510012100 Predicted signal transduction protein containing a membrane domain, an EAL and a GGDEF domain [Signal transduction mechanisms]; Region: COG5001 640510012101 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640510012102 metal binding site [ion binding]; metal-binding site 640510012103 active site 640510012104 I-site; other site 640510012105 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 640510012106 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 640510012107 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640510012108 Helix-turn-helix domains; Region: HTH; cl00088 640510012109 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 640510012110 dimerization interface [polypeptide binding]; other site 640510012111 substrate binding pocket [chemical binding]; other site 640510012112 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510012113 putative substrate translocation pore; other site 640510012114 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640510012115 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 640510012116 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 640510012117 The 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 640510012118 Cupin domain; Region: Cupin_2; cl09118 640510012119 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 640510012120 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 640510012121 putative NAD(P) binding site [chemical binding]; other site 640510012122 putative substrate binding site [chemical binding]; other site 640510012123 catalytic Zn binding site [ion binding]; other site 640510012124 structural Zn binding site [ion binding]; other site 640510012125 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 640510012126 Sulfate transporter family; Region: Sulfate_transp; cl15842 640510012127 Sulfate transporter family; Region: Sulfate_transp; cl15842 640510012128 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 640510012129 Helix-turn-helix domains; Region: HTH; cl00088 640510012130 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 640510012131 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 640510012132 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 640510012133 Protein of unknown function (DUF2891); Region: DUF2891; pfam11199 640510012134 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 640510012135 DNA polymerase II; Reviewed; Region: PRK05762 640510012136 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 640510012137 active site 640510012138 catalytic site [active] 640510012139 substrate binding site [chemical binding]; other site 640510012140 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 640510012141 active site 640510012142 metal-binding site 640510012143 Phosphoesterase family; Region: Phosphoesterase; cl15450 640510012144 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 640510012145 putative DNA binding site [nucleotide binding]; other site 640510012146 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_6; cd08899 640510012147 putative hydrophobic ligand binding site [chemical binding]; other site 640510012148 Protein of unknown function (DUF419); Region: DUF419; cl15265 640510012149 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 640510012150 TPR repeat; Region: TPR_11; pfam13414 640510012151 binding surface 640510012152 TPR motif; other site 640510012153 TPR repeat; Region: TPR_11; pfam13414 640510012154 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 640510012155 binding surface 640510012156 TPR motif; other site 640510012157 TPR repeat; Region: TPR_11; pfam13414 640510012158 Tetratricopeptide repeat; Region: TPR_12; pfam13424 640510012159 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 640510012160 TPR motif; other site 640510012161 TPR repeat; Region: TPR_11; pfam13414 640510012162 binding surface 640510012163 TPR repeat; Region: TPR_11; pfam13414 640510012164 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 640510012165 binding surface 640510012166 TPR motif; other site 640510012167 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 640510012168 ADP-heptose:LPS heptosyltransferase II; Provisional; Region: PRK10916; cl15782 640510012169 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 640510012170 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 640510012171 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 640510012172 N-terminal plug; other site 640510012173 ligand-binding site [chemical binding]; other site 640510012174 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 640510012175 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 640510012176 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 640510012177 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 640510012178 Uncharacterized protein conserved in bacteria (DUF2322); Region: DUF2322; cl01820 640510012179 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 640510012180 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 640510012181 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 640510012182 catalytic residues [active] 640510012183 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 640510012184 putative NAD(P) binding site [chemical binding]; other site 640510012185 active site 640510012186 thiamine pyrophosphate protein; Provisional; Region: PRK08273 640510012187 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 640510012188 PYR/PP interface [polypeptide binding]; other site 640510012189 dimer interface [polypeptide binding]; other site 640510012190 tetramer interface [polypeptide binding]; other site 640510012191 TPP binding site [chemical binding]; other site 640510012192 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 640510012193 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 640510012194 TPP-binding site [chemical binding]; other site 640510012195 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510012196 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 640510012197 glutathionine S-transferase; Provisional; Region: PRK10542 640510012198 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 640510012199 C-terminal domain interface [polypeptide binding]; other site 640510012200 GSH binding site (G-site) [chemical binding]; other site 640510012201 dimer interface [polypeptide binding]; other site 640510012202 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 640510012203 dimer interface [polypeptide binding]; other site 640510012204 substrate binding pocket (H-site) [chemical binding]; other site 640510012205 N-terminal domain interface [polypeptide binding]; other site 640510012206 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 640510012207 ligand binding site [chemical binding]; other site 640510012208 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 640510012209 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640510012210 dimer interface [polypeptide binding]; other site 640510012211 putative CheW interface [polypeptide binding]; other site 640510012212 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 640510012213 ligand binding site [chemical binding]; other site 640510012214 flexible hinge region; other site 640510012215 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 640510012216 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640510012217 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 640510012218 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 640510012219 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640510012220 ligand binding site [chemical binding]; other site 640510012221 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 640510012222 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 640510012223 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 640510012224 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 640510012225 ligand binding site [chemical binding]; other site 640510012226 flexible hinge region; other site 640510012227 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510012228 dimer interface [polypeptide binding]; other site 640510012229 conserved gate region; other site 640510012230 putative PBP binding loops; other site 640510012231 ABC-ATPase subunit interface; other site 640510012232 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 640510012233 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510012234 dimer interface [polypeptide binding]; other site 640510012235 conserved gate region; other site 640510012236 putative PBP binding loops; other site 640510012237 ABC-ATPase subunit interface; other site 640510012238 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 640510012239 The 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 640510012240 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 640510012241 Beta-galactosidase; Region: Glyco_hydro_42; cl03154 640510012242 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 640510012243 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 640510012244 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 640510012245 Walker A/P-loop; other site 640510012246 ATP binding site [chemical binding]; other site 640510012247 Q-loop/lid; other site 640510012248 ABC transporter signature motif; other site 640510012249 Walker B; other site 640510012250 D-loop; other site 640510012251 H-loop/switch region; other site 640510012252 TOBE domain; Region: TOBE_2; cl01440 640510012253 TOBE domain; Region: TOBE_2; cl01440 640510012254 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640510012255 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640510012256 DNA binding site [nucleotide binding] 640510012257 domain linker motif; other site 640510012258 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 640510012259 dimerization interface [polypeptide binding]; other site 640510012260 ligand binding site [chemical binding]; other site 640510012261 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 640510012262 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 640510012263 ligand binding site [chemical binding]; other site 640510012264 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 640510012265 TM-ABC transporter signature motif; other site 640510012266 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 640510012267 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 640510012268 Walker A/P-loop; other site 640510012269 ATP binding site [chemical binding]; other site 640510012270 Q-loop/lid; other site 640510012271 ABC transporter signature motif; other site 640510012272 Walker B; other site 640510012273 D-loop; other site 640510012274 H-loop/switch region; other site 640510012275 Helix-turn-helix domains; Region: HTH; cl00088 640510012276 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 640510012277 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 640510012278 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 640510012279 Transglycosylase; Region: Transgly; cl07896 640510012280 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 640510012281 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 640510012282 Helix-turn-helix domains; Region: HTH; cl00088 640510012283 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 640510012284 putative dimerization interface [polypeptide binding]; other site 640510012285 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 640510012286 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 640510012287 inhibitor site; inhibition site 640510012288 active site 640510012289 dimer interface [polypeptide binding]; other site 640510012290 catalytic residue [active] 640510012291 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510012292 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640510012293 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640510012294 Helix-turn-helix domains; Region: HTH; cl00088 640510012295 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510012296 D-galactonate transporter; Region: 2A0114; TIGR00893 640510012297 putative substrate translocation pore; other site 640510012298 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510012299 shikimate 5-dehydrogenase; Reviewed; Region: PRK12549 640510012300 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 640510012301 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 640510012302 shikimate binding site; other site 640510012303 NAD(P) binding site [chemical binding]; other site 640510012304 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 640510012305 active site 640510012306 trimer interface [polypeptide binding]; other site 640510012307 dimer interface [polypeptide binding]; other site 640510012308 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 640510012309 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 640510012310 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 640510012311 dimer interface [polypeptide binding]; other site 640510012312 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 640510012313 active site 640510012314 Fe binding site [ion binding]; other site 640510012315 PAS fold; Region: PAS_4; pfam08448 640510012316 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 640510012317 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510012318 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 640510012319 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510012320 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 640510012321 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 640510012322 FAD dependent oxidoreductase; Region: DAO; pfam01266 640510012323 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 640510012324 hydroxyproline-2-epimerase; Provisional; Region: PRK13970 640510012325 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 640510012326 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 640510012327 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 640510012328 inhibitor site; inhibition site 640510012329 active site 640510012330 dimer interface [polypeptide binding]; other site 640510012331 catalytic residue [active] 640510012332 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 640510012333 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510012334 active site 640510012335 phosphorylation site [posttranslational modification] 640510012336 intermolecular recognition site; other site 640510012337 dimerization interface [polypeptide binding]; other site 640510012338 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 640510012339 DNA binding site [nucleotide binding] 640510012340 metabolite-proton symporter; Region: 2A0106; TIGR00883 640510012341 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510012342 putative substrate translocation pore; other site 640510012343 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510012344 putative substrate translocation pore; other site 640510012345 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510012346 DoxX; Region: DoxX; cl00976 640510012347 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 640510012348 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 640510012349 anaerobic benzoate catabolism transcriptional regulator; Reviewed; Region: PRK08154 640510012350 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 640510012351 non-specific DNA binding site [nucleotide binding]; other site 640510012352 salt bridge; other site 640510012353 sequence-specific DNA binding site [nucleotide binding]; other site 640510012354 Predicted transporter component [General function prediction only]; Region: COG2391 640510012355 Sulphur transport; Region: Sulf_transp; cl01018 640510012356 putative inner membrane protein; Provisional; Region: PRK11099 640510012357 Flagellar transcriptional activator (FlhD); Region: FlhD; cl05012 640510012358 Flagellar transcriptional activator (FlhC); Region: FlhC; cl05036 640510012359 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 640510012360 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 640510012361 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 640510012362 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 640510012363 Flavin binding site [chemical binding]; other site 640510012364 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510012365 ABC-ATPase subunit interface; other site 640510012366 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 640510012367 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 640510012368 Walker A/P-loop; other site 640510012369 ATP binding site [chemical binding]; other site 640510012370 Q-loop/lid; other site 640510012371 ABC transporter signature motif; other site 640510012372 Walker B; other site 640510012373 D-loop; other site 640510012374 H-loop/switch region; other site 640510012375 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 640510012376 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 640510012377 active site 640510012378 non-prolyl cis peptide bond; other site 640510012379 NMT1-like family; Region: NMT1_2; cl15260 640510012380 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640510012381 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 640510012382 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 640510012383 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 640510012384 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 640510012385 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 640510012386 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 640510012387 substrate binding pocket [chemical binding]; other site 640510012388 transcriptional regulator; Provisional; Region: PRK10632 640510012389 Helix-turn-helix domains; Region: HTH; cl00088 640510012390 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 640510012391 putative effector binding pocket; other site 640510012392 putative dimerization interface [polypeptide binding]; other site 640510012393 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640510012394 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 640510012395 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 640510012396 Cation efflux family; Region: Cation_efflux; cl00316 640510012397 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 640510012398 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510012399 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640510012400 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 640510012401 active site 640510012402 Zn binding site [ion binding]; other site 640510012403 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 640510012404 EamA-like transporter family; Region: EamA; cl01037 640510012405 4-aminobutyrate aminotransferase; Provisional; Region: PRK07495 640510012406 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 640510012407 inhibitor-cofactor binding pocket; inhibition site 640510012408 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510012409 catalytic residue [active] 640510012410 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640510012411 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 640510012412 tetramerization interface [polypeptide binding]; other site 640510012413 NAD(P) binding site [chemical binding]; other site 640510012414 catalytic residues [active] 640510012415 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640510012416 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640510012417 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 640510012418 conserved cys residue [active] 640510012419 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510012420 NMT1-like family; Region: NMT1_2; cl15260 640510012421 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 640510012422 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 640510012423 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07066 640510012424 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510012425 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 640510012426 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 640510012427 active site 640510012428 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 640510012429 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 640510012430 active site 640510012431 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640510012432 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510012433 ATP binding site [chemical binding]; other site 640510012434 G-X-G motif; other site 640510012435 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510012436 active site 640510012437 phosphorylation site [posttranslational modification] 640510012438 intermolecular recognition site; other site 640510012439 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 640510012440 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 640510012441 motif II; other site 640510012442 Protein of unknown function (DUF2894); Region: DUF2894; pfam11445 640510012443 hypothetical protein; Provisional; Region: PRK09040 640510012444 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640510012445 ligand binding site [chemical binding]; other site 640510012446 Domain of unknown function (DUF802); Region: DUF802; pfam05650 640510012447 Domain of unknown function (DUF802); Region: DUF802; pfam05650 640510012448 Protein of unknown function (DUF3348); Region: DUF3348; pfam11828 640510012449 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 640510012450 non-specific DNA binding site [nucleotide binding]; other site 640510012451 salt bridge; other site 640510012452 sequence-specific DNA binding site [nucleotide binding]; other site 640510012453 Cupin domain; Region: Cupin_2; cl09118 640510012454 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510012455 metabolite-proton symporter; Region: 2A0106; TIGR00883 640510012456 putative substrate translocation pore; other site 640510012457 amidase; Provisional; Region: PRK07486 640510012458 Amidase; Region: Amidase; cl11426 640510012459 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640510012460 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510012461 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640510012462 metal binding site [ion binding]; metal-binding site 640510012463 active site 640510012464 I-site; other site 640510012465 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 640510012466 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 640510012467 Helix-turn-helix domains; Region: HTH; cl00088 640510012468 The 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 640510012469 dimerization interface [polypeptide binding]; other site 640510012470 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 640510012471 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 640510012472 Na binding site [ion binding]; other site 640510012473 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 640510012474 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 640510012475 Cache domain; Region: Cache_2; cl07034 640510012476 Histidine kinase; Region: HisKA_3; pfam07730 640510012477 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510012478 ATP binding site [chemical binding]; other site 640510012479 Mg2+ binding site [ion binding]; other site 640510012480 G-X-G motif; other site 640510012481 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640510012482 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510012483 active site 640510012484 phosphorylation site [posttranslational modification] 640510012485 intermolecular recognition site; other site 640510012486 dimerization interface [polypeptide binding]; other site 640510012487 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 640510012488 DNA binding residues [nucleotide binding] 640510012489 dimerization interface [polypeptide binding]; other site 640510012490 H-NS histone family; Region: Histone_HNS; pfam00816 640510012491 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 640510012492 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 640510012493 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 640510012494 Predicted amidohydrolase [General function prediction only]; Region: COG0388 640510012495 active site 640510012496 catalytic triad [active] 640510012497 dimer interface [polypeptide binding]; other site 640510012498 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 640510012499 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 640510012500 ATP binding site [chemical binding]; other site 640510012501 putative Mg++ binding site [ion binding]; other site 640510012502 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 640510012503 nucleotide binding region [chemical binding]; other site 640510012504 ATP-binding site [chemical binding]; other site 640510012505 DEAD/H associated; Region: DEAD_assoc; pfam08494 640510012506 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 640510012507 putative active site [active] 640510012508 putative metal binding site [ion binding]; other site 640510012509 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 640510012510 FAD binding domain; Region: FAD_binding_4; pfam01565 640510012511 Berberine and berberine like; Region: BBE; pfam08031 640510012512 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 640510012513 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 640510012514 putative deacylase active site [active] 640510012515 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 640510012516 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 640510012517 trimer interface [polypeptide binding]; other site 640510012518 eyelet of channel; other site 640510012519 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 640510012520 Bacterial proteasome, beta subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that...; Region: proteasome_beta_bacterial; cd03765 640510012521 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 640510012522 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 640510012523 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; cl00980 640510012524 Uncharacterized conserved protein [Function unknown]; Region: COG2308 640510012525 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; pfam04174 640510012526 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 640510012527 IHF dimer interface [polypeptide binding]; other site 640510012528 IHF - DNA interface [nucleotide binding]; other site 640510012529 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 640510012530 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510012531 DNA-binding site [nucleotide binding]; DNA binding site 640510012532 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 640510012533 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510012534 homodimer interface [polypeptide binding]; other site 640510012535 catalytic residue [active] 640510012536 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 640510012537 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 640510012538 non-specific DNA binding site [nucleotide binding]; other site 640510012539 salt bridge; other site 640510012540 sequence-specific DNA binding site [nucleotide binding]; other site 640510012541 Cupin domain; Region: Cupin_2; cl09118 640510012542 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 640510012543 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 640510012544 peptide binding site [polypeptide binding]; other site 640510012545 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 640510012546 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510012547 dimer interface [polypeptide binding]; other site 640510012548 conserved gate region; other site 640510012549 putative PBP binding loops; other site 640510012550 ABC-ATPase subunit interface; other site 640510012551 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 640510012552 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510012553 dimer interface [polypeptide binding]; other site 640510012554 conserved gate region; other site 640510012555 putative PBP binding loops; other site 640510012556 ABC-ATPase subunit interface; other site 640510012557 oligopeptide transporter ATP-binding component; Provisional; Region: oppD; PRK09473 640510012558 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 640510012559 Walker A/P-loop; other site 640510012560 ATP binding site [chemical binding]; other site 640510012561 Q-loop/lid; other site 640510012562 ABC transporter signature motif; other site 640510012563 Walker B; other site 640510012564 D-loop; other site 640510012565 H-loop/switch region; other site 640510012566 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640510012567 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 640510012568 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 640510012569 Walker A/P-loop; other site 640510012570 ATP binding site [chemical binding]; other site 640510012571 Q-loop/lid; other site 640510012572 ABC transporter signature motif; other site 640510012573 Walker B; other site 640510012574 D-loop; other site 640510012575 H-loop/switch region; other site 640510012576 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640510012577 outer membrane porin, OprD family; Region: OprD; pfam03573 640510012578 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640510012579 Helix-turn-helix domains; Region: HTH; cl00088 640510012580 Bacterial transcriptional regulator; Region: IclR; pfam01614 640510012581 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 640510012582 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510012583 Walker A/P-loop; other site 640510012584 ATP binding site [chemical binding]; other site 640510012585 Q-loop/lid; other site 640510012586 ABC transporter signature motif; other site 640510012587 Walker B; other site 640510012588 D-loop; other site 640510012589 H-loop/switch region; other site 640510012590 TOBE domain; Region: TOBE_2; cl01440 640510012591 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510012592 dimer interface [polypeptide binding]; other site 640510012593 conserved gate region; other site 640510012594 putative PBP binding loops; other site 640510012595 ABC-ATPase subunit interface; other site 640510012596 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510012597 dimer interface [polypeptide binding]; other site 640510012598 conserved gate region; other site 640510012599 putative PBP binding loops; other site 640510012600 ABC-ATPase subunit interface; other site 640510012601 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 640510012602 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 640510012603 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510012604 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 640510012605 FAD dependent oxidoreductase; Region: DAO; pfam01266 640510012606 N-methyltryptophan oxidase; Provisional; Region: solA; PRK11259 640510012607 The 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 640510012608 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 640510012609 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 640510012610 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510012611 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 640510012612 NH_hydro_CaPnhB: A subgroup of nucleoside hydrolases similar to Corynebacterium ammoniagenes Purine/pyrimidine nucleoside hydrolase (pnhB). Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These...; Region: nuc_hydro_CaPnhB; cd02650 640510012613 active site 640510012614 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 640510012615 active site 640510012616 catalytic motif [active] 640510012617 Zn binding site [ion binding]; other site 640510012618 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 640510012619 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 640510012620 Nucleoside recognition; Region: Gate; cl00486 640510012621 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 640510012622 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640510012623 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510012624 active site 640510012625 phosphorylation site [posttranslational modification] 640510012626 intermolecular recognition site; other site 640510012627 dimerization interface [polypeptide binding]; other site 640510012628 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 640510012629 DNA binding residues [nucleotide binding] 640510012630 dimerization interface [polypeptide binding]; other site 640510012631 Response regulator receiver domain; Region: Response_reg; pfam00072 640510012632 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510012633 active site 640510012634 phosphorylation site [posttranslational modification] 640510012635 intermolecular recognition site; other site 640510012636 dimerization interface [polypeptide binding]; other site 640510012637 PAS domain S-box; Region: sensory_box; TIGR00229 640510012638 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 640510012639 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 640510012640 Histidine kinase; Region: HisKA_3; pfam07730 640510012641 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510012642 ATP binding site [chemical binding]; other site 640510012643 Mg2+ binding site [ion binding]; other site 640510012644 G-X-G motif; other site 640510012645 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640510012646 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 640510012647 dimer interface [polypeptide binding]; other site 640510012648 phosphorylation site [posttranslational modification] 640510012649 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510012650 ATP binding site [chemical binding]; other site 640510012651 G-X-G motif; other site 640510012652 Response regulator receiver domain; Region: Response_reg; pfam00072 640510012653 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510012654 active site 640510012655 phosphorylation site [posttranslational modification] 640510012656 intermolecular recognition site; other site 640510012657 dimerization interface [polypeptide binding]; other site 640510012658 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 640510012659 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 640510012660 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 640510012661 Ligand Binding Site [chemical binding]; other site 640510012662 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 640510012663 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 640510012664 HPP family; Region: HPP; pfam04982 640510012665 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 640510012666 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 640510012667 Helix-turn-helix domains; Region: HTH; cl00088 640510012668 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 640510012669 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 640510012670 Cl- selectivity filter; other site 640510012671 Cl- binding residues [ion binding]; other site 640510012672 pore gating glutamate residue; other site 640510012673 dimer interface [polypeptide binding]; other site 640510012674 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 640510012675 Protein of unknown function, DUF488; Region: DUF488; cl01246 640510012676 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640510012677 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 640510012678 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510012679 putative substrate translocation pore; other site 640510012680 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 640510012681 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 640510012682 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 640510012683 Helix-turn-helix domains; Region: HTH; cl00088 640510012684 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640510012685 Helix-turn-helix domains; Region: HTH; cl00088 640510012686 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 640510012687 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 640510012688 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 640510012689 Uncharacterized conserved protein [Function unknown]; Region: COG2308 640510012690 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; pfam04174 640510012691 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; cl00980 640510012692 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 640510012693 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 640510012694 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 640510012695 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 640510012696 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4307 640510012697 Uncharacterized protein conserved in bacteria (DUF2248); Region: DUF2248; pfam10005 640510012698 Protein of unknown function (DUF3443); Region: DUF3443; pfam11925 640510012699 Protein of unknown function (DUF2844); Region: DUF2844; pfam11005 640510012700 Phasin protein; Region: Phasin_2; cl11491 640510012701 Domain of unknown function (DUF4410); Region: DUF4410; pfam14366 640510012702 Response regulator receiver domain; Region: Response_reg; pfam00072 640510012703 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510012704 active site 640510012705 phosphorylation site [posttranslational modification] 640510012706 intermolecular recognition site; other site 640510012707 dimerization interface [polypeptide binding]; other site 640510012708 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640510012709 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640510012710 DNA binding site [nucleotide binding] 640510012711 domain linker motif; other site 640510012712 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_4; cd06280 640510012713 putative dimerization interface [polypeptide binding]; other site 640510012714 putative ligand binding site [chemical binding]; other site 640510012715 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 640510012716 active site 640510012717 phosphorylation site [posttranslational modification] 640510012718 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 640510012719 dimerization domain swap beta strand [polypeptide binding]; other site 640510012720 regulatory protein interface [polypeptide binding]; other site 640510012721 active site 640510012722 regulatory phosphorylation site [posttranslational modification]; other site 640510012723 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 640510012724 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 640510012725 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 640510012726 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 640510012727 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 640510012728 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 640510012729 putative substrate binding site [chemical binding]; other site 640510012730 putative ATP binding site [chemical binding]; other site 640510012731 PTS_IIB: subunit IIB of enzyme II (EII) is the central energy-coupling domain of the phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In the multienzyme PTS complex, EII is a carbohydrate-specific permease consisting of two cytoplasmic...; Region: PTS_IIB; cl10014 640510012732 active site 640510012733 P-loop; other site 640510012734 phosphorylation site [posttranslational modification] 640510012735 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 640510012736 active site 640510012737 P-loop; other site 640510012738 phosphorylation site [posttranslational modification] 640510012739 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 640510012740 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 640510012741 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 640510012742 catalytic residues [active] 640510012743 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 640510012744 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 640510012745 catalytic residues [active] 640510012746 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640510012747 Helix-turn-helix domains; Region: HTH; cl00088 640510012748 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 640510012749 dimerization interface [polypeptide binding]; other site 640510012750 substrate binding pocket [chemical binding]; other site 640510012751 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 640510012752 active site 1 [active] 640510012753 dimer interface [polypeptide binding]; other site 640510012754 hexamer interface [polypeptide binding]; other site 640510012755 active site 2 [active] 640510012756 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640510012757 classical (c) SDRs; Region: SDR_c; cd05233 640510012758 NAD(P) binding site [chemical binding]; other site 640510012759 active site 640510012760 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 640510012761 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 640510012762 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 640510012763 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510012764 ATP binding site [chemical binding]; other site 640510012765 Mg2+ binding site [ion binding]; other site 640510012766 G-X-G motif; other site 640510012767 osmolarity response regulator; Provisional; Region: ompR; PRK09468 640510012768 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510012769 active site 640510012770 phosphorylation site [posttranslational modification] 640510012771 intermolecular recognition site; other site 640510012772 dimerization interface [polypeptide binding]; other site 640510012773 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 640510012774 DNA binding site [nucleotide binding] 640510012775 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 640510012776 OsmC-like protein; Region: OsmC; cl00767 640510012777 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 640510012778 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 640510012779 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 640510012780 S-adenosylmethionine binding site [chemical binding]; other site 640510012781 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_2; cd08895 640510012782 putative hydrophobic ligand binding site [chemical binding]; other site 640510012783 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 640510012784 putative catalytic site [active] 640510012785 putative metal binding site [ion binding]; other site 640510012786 putative phosphate binding site [ion binding]; other site 640510012787 EamA-like transporter family; Region: EamA; cl01037 640510012788 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 640510012789 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 640510012790 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD_like; cd08296 640510012791 putative NAD(P) binding site [chemical binding]; other site 640510012792 putative substrate binding site [chemical binding]; other site 640510012793 catalytic Zn binding site [ion binding]; other site 640510012794 structural Zn binding site [ion binding]; other site 640510012795 LysE type translocator; Region: LysE; cl00565 640510012796 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 640510012797 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510012798 DNA-binding site [nucleotide binding]; DNA binding site 640510012799 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 640510012800 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510012801 homodimer interface [polypeptide binding]; other site 640510012802 catalytic residue [active] 640510012803 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 640510012804 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 640510012805 inhibitor-cofactor binding pocket; inhibition site 640510012806 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510012807 catalytic residue [active] 640510012808 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 640510012809 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_Arsenic_SBP_like; cd06330 640510012810 putative ligand binding site [chemical binding]; other site 640510012811 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640510012812 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 640510012813 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 640510012814 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640510012815 Cytochrome c; Region: Cytochrom_C; cl11414 640510012816 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640510012817 Cytochrome c; Region: Cytochrom_C; cl11414 640510012818 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 640510012819 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 640510012820 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 640510012821 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 640510012822 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 640510012823 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cd01292 640510012824 active site 640510012825 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 640510012826 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 640510012827 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 640510012828 Walker A/P-loop; other site 640510012829 ATP binding site [chemical binding]; other site 640510012830 Q-loop/lid; other site 640510012831 ABC transporter signature motif; other site 640510012832 Walker B; other site 640510012833 D-loop; other site 640510012834 H-loop/switch region; other site 640510012835 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 640510012836 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 640510012837 Walker A/P-loop; other site 640510012838 ATP binding site [chemical binding]; other site 640510012839 Q-loop/lid; other site 640510012840 ABC transporter signature motif; other site 640510012841 Walker B; other site 640510012842 D-loop; other site 640510012843 H-loop/switch region; other site 640510012844 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 640510012845 TM-ABC transporter signature motif; other site 640510012846 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 640510012847 TM-ABC transporter signature motif; other site 640510012848 Amino acid synthesis; Region: AA_synth; pfam06684 640510012849 Amino acid synthesis; Region: AA_synth; pfam06684 640510012850 ApbE family; Region: ApbE; cl00643 640510012851 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640510012852 Helix-turn-helix domains; Region: HTH; cl00088 640510012853 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 640510012854 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 640510012855 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 640510012856 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK09053 640510012857 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 640510012858 tetramer interface [polypeptide binding]; other site 640510012859 active site 640510012860 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 640510012861 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 640510012862 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510012863 Helix-turn-helix domains; Region: HTH; cl00088 640510012864 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 640510012865 substrate binding pocket [chemical binding]; other site 640510012866 dimerization interface [polypeptide binding]; other site 640510012867 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 640510012868 GTP cyclohydrolase I; Provisional; Region: PLN03044 640510012869 active site 640510012870 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 640510012871 EamA-like transporter family; Region: EamA; cl01037 640510012872 EamA-like transporter family; Region: EamA; cl01037 640510012873 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 640510012874 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 640510012875 active site residue [active] 640510012876 Cache domain; Region: Cache_1; pfam02743 640510012877 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640510012878 metal binding site [ion binding]; metal-binding site 640510012879 active site 640510012880 I-site; other site 640510012881 CHAD domain; Region: CHAD; cl10506 640510012882 Phosphate transporter family; Region: PHO4; cl00396 640510012883 Phosphate transporter family; Region: PHO4; cl00396 640510012884 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 640510012885 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 640510012886 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640510012887 active site 640510012888 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 640510012889 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 640510012890 protein binding site [polypeptide binding]; other site 640510012891 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 640510012892 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 640510012893 hypothetical protein; Provisional; Region: PRK07482 640510012894 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 640510012895 inhibitor-cofactor binding pocket; inhibition site 640510012896 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510012897 catalytic residue [active] 640510012898 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640510012899 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 640510012900 tetramerization interface [polypeptide binding]; other site 640510012901 NAD(P) binding site [chemical binding]; other site 640510012902 catalytic residues [active] 640510012903 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 640510012904 Helix-turn-helix domains; Region: HTH; cl00088 640510012905 AsnC family; Region: AsnC_trans_reg; pfam01037 640510012906 ectoine utilization protein EutE; Region: ectoine_eutE; TIGR02994 640510012907 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_2; cd06252 640510012908 putative active site [active] 640510012909 Zn binding site [ion binding]; other site 640510012910 ectoine utilization protein EutD; Region: ectoine_eutD; TIGR02993 640510012911 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 640510012912 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 640510012913 active site 640510012914 ectoine utilization protein EutC; Validated; Region: PRK08291 640510012915 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510012916 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 640510012917 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 640510012918 tetramer interface [polypeptide binding]; other site 640510012919 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510012920 catalytic residue [active] 640510012921 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510012922 DNA-binding site [nucleotide binding]; DNA binding site 640510012923 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 640510012924 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 640510012925 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510012926 homodimer interface [polypeptide binding]; other site 640510012927 catalytic residue [active] 640510012928 ectoine/hydroxyectoine ABC transporter solute-binding protein; Region: ectoine_ehuB; TIGR02995 640510012929 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 640510012930 substrate binding pocket [chemical binding]; other site 640510012931 membrane-bound complex binding site; other site 640510012932 hinge residues; other site 640510012933 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640510012934 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510012935 dimer interface [polypeptide binding]; other site 640510012936 conserved gate region; other site 640510012937 putative PBP binding loops; other site 640510012938 ABC-ATPase subunit interface; other site 640510012939 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640510012940 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510012941 dimer interface [polypeptide binding]; other site 640510012942 conserved gate region; other site 640510012943 putative PBP binding loops; other site 640510012944 ABC-ATPase subunit interface; other site 640510012945 ectoine/hydroxyectoine ABC transporter, ATP-binding protein; Region: ectoine_ehuA; TIGR03005 640510012946 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 640510012947 Walker A/P-loop; other site 640510012948 ATP binding site [chemical binding]; other site 640510012949 Q-loop/lid; other site 640510012950 ABC transporter signature motif; other site 640510012951 Walker B; other site 640510012952 D-loop; other site 640510012953 H-loop/switch region; other site 640510012954 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510012955 putative transporter; Provisional; Region: PRK10504 640510012956 putative substrate translocation pore; other site 640510012957 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510012958 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 640510012959 active site 640510012960 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 640510012961 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 640510012962 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 640510012963 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 640510012964 Protein of unknown function (DUF1305); Region: DUF1305; cl01404 640510012965 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 640510012966 Bacterial protein of unknown function (DUF879); Region: DUF879; cl15462 640510012967 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 640510012968 Cupin domain; Region: Cupin_2; cl09118 640510012969 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510012970 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640510012971 serine O-acetyltransferase; Region: cysE; TIGR01172 640510012972 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 640510012973 trimer interface [polypeptide binding]; other site 640510012974 active site 640510012975 substrate binding site [chemical binding]; other site 640510012976 CoA binding site [chemical binding]; other site 640510012977 Protein of unknown function (DUF3005); Region: DUF3005; pfam11448 640510012978 short chain dehydrogenase; Provisional; Region: PRK12827 640510012979 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510012980 NAD(P) binding site [chemical binding]; other site 640510012981 active site 640510012982 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 640510012983 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510012984 dimer interface [polypeptide binding]; other site 640510012985 conserved gate region; other site 640510012986 putative PBP binding loops; other site 640510012987 ABC-ATPase subunit interface; other site 640510012988 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 640510012989 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510012990 dimer interface [polypeptide binding]; other site 640510012991 conserved gate region; other site 640510012992 putative PBP binding loops; other site 640510012993 ABC-ATPase subunit interface; other site 640510012994 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 640510012995 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510012996 Walker A/P-loop; other site 640510012997 ATP binding site [chemical binding]; other site 640510012998 Q-loop/lid; other site 640510012999 ABC transporter signature motif; other site 640510013000 Walker B; other site 640510013001 D-loop; other site 640510013002 H-loop/switch region; other site 640510013003 TOBE domain; Region: TOBE_2; cl01440 640510013004 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 640510013005 The 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 640510013006 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 640510013007 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 640510013008 inhibitor site; inhibition site 640510013009 active site 640510013010 dimer interface [polypeptide binding]; other site 640510013011 catalytic residue [active] 640510013012 Autoinducer binding domain; Region: Autoind_bind; pfam03472 640510013013 LuxR family transcriptional regulatory, chaperone HchA-associated; Region: reg_near_HchA; TIGR03541 640510013014 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 640510013015 DNA binding residues [nucleotide binding] 640510013016 dimerization interface [polypeptide binding]; other site 640510013017 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 640510013018 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 640510013019 Transcriptional regulators [Transcription]; Region: FadR; COG2186 640510013020 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510013021 DNA-binding site [nucleotide binding]; DNA binding site 640510013022 FCD domain; Region: FCD; cl11656 640510013023 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 640510013024 Ligand Binding Site [chemical binding]; other site 640510013025 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510013026 active site 640510013027 phosphorylation site [posttranslational modification] 640510013028 intermolecular recognition site; other site 640510013029 dimerization interface [polypeptide binding]; other site 640510013030 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 640510013031 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 640510013032 TPP-binding site [chemical binding]; other site 640510013033 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 640510013034 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 640510013035 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 640510013036 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640510013037 dimer interface [polypeptide binding]; other site 640510013038 putative CheW interface [polypeptide binding]; other site 640510013039 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 640510013040 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 640510013041 ligand binding site [chemical binding]; other site 640510013042 flexible hinge region; other site 640510013043 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 640510013044 putative switch regulator; other site 640510013045 non-specific DNA interactions [nucleotide binding]; other site 640510013046 DNA binding site [nucleotide binding] 640510013047 sequence specific DNA binding site [nucleotide binding]; other site 640510013048 putative cAMP binding site [chemical binding]; other site 640510013049 TIGR03440 family protein; Region: unchr_TIGR03440 640510013050 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 640510013051 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640510013052 ALDH subfamily: NAD(P)+-dependent benzaldehyde dehydrogenase II, vanillin dehydrogenase, p-hydroxybenzaldehyde dehydrogenase and related proteins; Region: ALDH_BenzADH-like; cd07104 640510013053 NAD(P) binding site [chemical binding]; other site 640510013054 catalytic residues [active] 640510013055 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 640510013056 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 640510013057 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510013058 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640510013059 putative substrate translocation pore; other site 640510013060 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 640510013061 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510013062 DNA-binding site [nucleotide binding]; DNA binding site 640510013063 Transcriptional regulators [Transcription]; Region: FadR; COG2186 640510013064 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510013065 DNA-binding site [nucleotide binding]; DNA binding site 640510013066 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 640510013067 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510013068 NAD(P) binding site [chemical binding]; other site 640510013069 active site 640510013070 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 640510013071 Retinal pigment epithelial membrane protein; Region: RPE65; cl10080 640510013072 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 640510013073 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640510013074 active site 640510013075 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 640510013076 Acetoacetate decarboxylase (ADC); Region: ADC; cl01919 640510013077 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640510013078 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 640510013079 NAD(P) binding site [chemical binding]; other site 640510013080 catalytic residues [active] 640510013081 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 640510013082 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 640510013083 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 640510013084 N-terminal domain of 2,4,5-trihydroxytoluene (THT) oxygenase; Region: THT_Oxygenase_N; cd07267 640510013085 3,4-dihydroxyphenylacetate 2,3-dioxygenase; Region: HpaD; TIGR02295 640510013086 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 640510013087 putative active site [active] 640510013088 putative metal binding site [ion binding]; other site 640510013089 Transcriptional regulators [Transcription]; Region: GntR; COG1802 640510013090 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510013091 DNA-binding site [nucleotide binding]; DNA binding site 640510013092 FCD domain; Region: FCD; cl11656 640510013093 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510013094 putative substrate translocation pore; other site 640510013095 3-(3-hydroxyphenyl)propionate hydroxylase; Validated; Region: mhpA; PRK06183 640510013096 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510013097 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 640510013098 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640510013099 C-terminal domain of type I, class II extradiol dioxygenases; catalytic domain; Region: ED_TypeI_classII_C; cd08343 640510013100 active site 640510013101 metal binding site [ion binding]; metal-binding site 640510013102 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 640510013103 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 640510013104 Flavin Reductases; Region: FlaRed; cl00801 640510013105 hypothetical protein; Provisional; Region: PRK06194 640510013106 classical (c) SDRs; Region: SDR_c; cd05233 640510013107 NAD(P) binding site [chemical binding]; other site 640510013108 active site 640510013109 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640510013110 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510013111 NAD(P) binding site [chemical binding]; other site 640510013112 active site 640510013113 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 640510013114 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640510013115 active site 640510013116 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 640510013117 Retinal pigment epithelial membrane protein; Region: RPE65; cl10080 640510013118 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 640510013119 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510013120 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640510013121 putative substrate translocation pore; other site 640510013122 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 640510013123 Helix-turn-helix domains; Region: HTH; cl00088 640510013124 DNA-binding site [nucleotide binding]; DNA binding site 640510013125 Transcriptional regulators [Transcription]; Region: FadR; COG2186 640510013126 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640510013127 ALDH subfamily: NAD(P)+-dependent benzaldehyde dehydrogenase II, vanillin dehydrogenase, p-hydroxybenzaldehyde dehydrogenase and related proteins; Region: ALDH_BenzADH-like; cd07104 640510013128 NAD(P) binding site [chemical binding]; other site 640510013129 catalytic residues [active] 640510013130 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 640510013131 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 640510013132 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 640510013133 NMT1-like family; Region: NMT1_2; cl15260 640510013134 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 640510013135 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 640510013136 Helix-turn-helix domains; Region: HTH; cl00088 640510013137 AsnC family; Region: AsnC_trans_reg; pfam01037 640510013138 NMT1-like family; Region: NMT1_2; cl15260 640510013139 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 640510013140 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510013141 dimer interface [polypeptide binding]; other site 640510013142 conserved gate region; other site 640510013143 putative PBP binding loops; other site 640510013144 ABC-ATPase subunit interface; other site 640510013145 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 640510013146 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510013147 Walker A/P-loop; other site 640510013148 ATP binding site [chemical binding]; other site 640510013149 Q-loop/lid; other site 640510013150 ABC transporter signature motif; other site 640510013151 Walker B; other site 640510013152 D-loop; other site 640510013153 H-loop/switch region; other site 640510013154 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 640510013155 NIPSNAP; Region: NIPSNAP; pfam07978 640510013156 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 640510013157 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 640510013158 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 640510013159 Luciferase-like monooxygenase; Region: Bac_luciferase; pfam00296 640510013160 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 640510013161 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640510013162 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 640510013163 NAD(P) binding site [chemical binding]; other site 640510013164 catalytic residues [active] 640510013165 Flavin Reductases; Region: FlaRed; cl00801 640510013166 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 640510013167 nudix motif; other site 640510013168 GAF domain; Region: GAF_2; pfam13185 640510013169 GAF domain; Region: GAF; cl15785 640510013170 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 640510013171 Helix-turn-helix domains; Region: HTH; cl00088 640510013172 Amino acid synthesis; Region: AA_synth; pfam06684 640510013173 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 640510013174 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510013175 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640510013176 Uncharacterized conserved protein [Function unknown]; Region: COG5476 640510013177 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 640510013178 MlrC C-terminus; Region: MlrC_C; pfam07171 640510013179 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 640510013180 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510013181 putative substrate translocation pore; other site 640510013182 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510013183 Helix-turn-helix domains; Region: HTH; cl00088 640510013184 The 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 640510013185 dimerization interface [polypeptide binding]; other site 640510013186 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640510013187 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640510013188 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 640510013189 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 640510013190 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 640510013191 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 640510013192 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640510013193 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 640510013194 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 640510013195 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 640510013196 dimer interface [polypeptide binding]; other site 640510013197 phosphorylation site [posttranslational modification] 640510013198 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510013199 ATP binding site [chemical binding]; other site 640510013200 Mg2+ binding site [ion binding]; other site 640510013201 G-X-G motif; other site 640510013202 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 640510013203 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510013204 active site 640510013205 phosphorylation site [posttranslational modification] 640510013206 intermolecular recognition site; other site 640510013207 dimerization interface [polypeptide binding]; other site 640510013208 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 640510013209 DNA binding site [nucleotide binding] 640510013210 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 640510013211 dimer interface [polypeptide binding]; other site 640510013212 phosphorylation site [posttranslational modification] 640510013213 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510013214 ATP binding site [chemical binding]; other site 640510013215 Mg2+ binding site [ion binding]; other site 640510013216 G-X-G motif; other site 640510013217 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640510013218 Helix-turn-helix domains; Region: HTH; cl00088 640510013219 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510013220 NAD(P) binding site [chemical binding]; other site 640510013221 active site 640510013222 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 640510013223 Phosphoesterase family; Region: Phosphoesterase; cl15450 640510013224 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 640510013225 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 640510013226 active site 640510013227 substrate binding site [chemical binding]; other site 640510013228 putative catalytic residues [active] 640510013229 FMN binding site [chemical binding]; other site 640510013230 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 640510013231 2-pyrone-4,6-dicarboxylic acid (PDC) hydrolase hydrolyzes PDC to yield 4-oxalomesaconic acid (OMA) or its tautomer, 4-carboxy-2-hydroxymuconic acid (CHM). This reaction is part of the protocatechuate (PCA) 4,5-cleavage pathway. PCA is one of the most...; Region: PDC_hydrolase; cd01311 640510013232 active site 640510013233 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510013234 putative substrate translocation pore; other site 640510013235 Transmembrane secretion effector; Region: MFS_3; pfam05977 640510013236 benzoate transport; Region: 2A0115; TIGR00895 640510013237 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510013238 putative substrate translocation pore; other site 640510013239 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 640510013240 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 640510013241 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 640510013242 trimer interface [polypeptide binding]; other site 640510013243 eyelet of channel; other site 640510013244 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 640510013245 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510013246 putative substrate translocation pore; other site 640510013247 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 640510013248 Strictosidine synthase; Region: Str_synth; pfam03088 640510013249 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 640510013250 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510013251 hypothetical protein; Validated; Region: PRK06201 640510013252 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 640510013253 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640510013254 Helix-turn-helix domains; Region: HTH; cl00088 640510013255 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 640510013256 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640510013257 Helix-turn-helix domains; Region: HTH; cl00088 640510013258 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 640510013259 dimerization interface [polypeptide binding]; other site 640510013260 substrate binding pocket [chemical binding]; other site 640510013261 NlpC/P60 family; Region: NLPC_P60; cl11438 640510013262 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 640510013263 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 640510013264 motif II; other site 640510013265 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510013266 putative substrate translocation pore; other site 640510013267 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640510013268 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 640510013269 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510013270 NAD(P) binding site [chemical binding]; other site 640510013271 active site 640510013272 LysR family transcriptional regulator; Provisional; Region: PRK14997 640510013273 Helix-turn-helix domains; Region: HTH; cl00088 640510013274 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 640510013275 putative effector binding pocket; other site 640510013276 dimerization interface [polypeptide binding]; other site 640510013277 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 640510013278 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 640510013279 short chain dehydrogenase; Provisional; Region: PRK06180 640510013280 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 640510013281 NADP binding site [chemical binding]; other site 640510013282 active site 640510013283 steroid binding site; other site 640510013284 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily requires a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_26; cd04685 640510013285 nudix motif; other site 640510013286 tellurite resistance protein TehB; Provisional; Region: PRK12335 640510013287 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 640510013288 S-adenosylmethionine binding site [chemical binding]; other site 640510013289 Protein of unknown function (DUF1348); Region: DUF1348; pfam07080 640510013290 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 640510013291 cyanate hydratase; Validated; Region: PRK02866 640510013292 Cyanase C-terminal domain. Cyanase (Cyanate lyase) is responsible for the hydrolysis of cyanate. It catalyzes the reaction of cyanate with bicarbonate to produce ammonia and carbon dioxide. This allows organisms that possess the enzyme to overcome the...; Region: Cyanase_C; cd00559 640510013293 oligomer interface [polypeptide binding]; other site 640510013294 active site 640510013295 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 640510013296 active site clefts [active] 640510013297 zinc binding site [ion binding]; other site 640510013298 dimer interface [polypeptide binding]; other site 640510013299 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 640510013300 Helix-turn-helix domains; Region: HTH; cl00088 640510013301 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator CynR, contains the type 2 periplasmic binding fold; Region: PBP2_CynR; cd08425 640510013302 dimerization interface [polypeptide binding]; other site 640510013303 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 640510013304 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 640510013305 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 640510013306 Ferritin-CCC1, N-terminal ferritin-like diiron-binding domain; Region: Ferritin_CCC1_N; cd01044 640510013307 diiron binding motif [ion binding]; other site 640510013308 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_2; cd02433 640510013309 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 640510013310 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 640510013311 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640510013312 metal binding site [ion binding]; metal-binding site 640510013313 active site 640510013314 I-site; other site 640510013315 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 640510013316 AMP-binding enzyme; Region: AMP-binding; cl15778 640510013317 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 640510013318 Phosphopantetheine attachment site; Region: PP-binding; cl09936 640510013319 Cupin domain; Region: Cupin_2; cl09118 640510013320 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640510013321 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510013322 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510013323 Helix-turn-helix domains; Region: HTH; cl00088 640510013324 The 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 640510013325 dimerization interface [polypeptide binding]; other site 640510013326 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 640510013327 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510013328 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 640510013329 Cache domain; Region: Cache_2; cl07034 640510013330 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 640510013331 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640510013332 dimer interface [polypeptide binding]; other site 640510013333 putative CheW interface [polypeptide binding]; other site 640510013334 Cupin domain; Region: Cupin_2; cl09118 640510013335 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640510013336 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510013337 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 640510013338 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 640510013339 NADP binding site [chemical binding]; other site 640510013340 active site 640510013341 steroid binding site; other site 640510013342 LysR family transcriptional regulator; Provisional; Region: PRK14997 640510013343 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 640510013344 putative effector binding pocket; other site 640510013345 dimerization interface [polypeptide binding]; other site 640510013346 NmrA-like family; Region: NmrA; pfam05368 640510013347 NmrA (a transcriptional regulator) and HSCARG (an NADPH sensor) like proteins, atypical (a) SDRs; Region: NmrA_like_SDR_a; cd05251 640510013348 NADP binding site [chemical binding]; other site 640510013349 active site 640510013350 regulatory binding site [polypeptide binding]; other site 640510013351 hypothetical protein; Provisional; Region: PRK05939 640510013352 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 640510013353 homodimer interface [polypeptide binding]; other site 640510013354 substrate-cofactor binding pocket; other site 640510013355 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510013356 catalytic residue [active] 640510013357 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 640510013358 Esterase/lipase [General function prediction only]; Region: COG1647 640510013359 MltA-interacting protein MipA; Region: MipA; cl01504 640510013360 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510013361 Helix-turn-helix domains; Region: HTH; cl00088 640510013362 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 640510013363 putative dimerization interface [polypeptide binding]; other site 640510013364 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 640510013365 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 640510013366 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 640510013367 The 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 640510013368 citrate-proton symporter; Provisional; Region: PRK15075 640510013369 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510013370 putative substrate translocation pore; other site 640510013371 TMAO reductase sytem sensor TorS; Region: TMAO_torS; TIGR02956 640510013372 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 640510013373 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 640510013374 putative active site [active] 640510013375 heme pocket [chemical binding]; other site 640510013376 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 640510013377 dimer interface [polypeptide binding]; other site 640510013378 phosphorylation site [posttranslational modification] 640510013379 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510013380 ATP binding site [chemical binding]; other site 640510013381 Mg2+ binding site [ion binding]; other site 640510013382 G-X-G motif; other site 640510013383 Response regulator receiver domain; Region: Response_reg; pfam00072 640510013384 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510013385 active site 640510013386 phosphorylation site [posttranslational modification] 640510013387 intermolecular recognition site; other site 640510013388 dimerization interface [polypeptide binding]; other site 640510013389 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 640510013390 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640510013391 TIGR03118 family protein; Region: PEPCTERM_chp_1 640510013392 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 640510013393 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510013394 Helix-turn-helix domains; Region: HTH; cl00088 640510013395 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 640510013396 putative effector binding pocket; other site 640510013397 dimerization interface [polypeptide binding]; other site 640510013398 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 640510013399 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 640510013400 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 640510013401 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640510013402 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 640510013403 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 640510013404 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 640510013405 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 640510013406 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 640510013407 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 640510013408 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510013409 dimer interface [polypeptide binding]; other site 640510013410 conserved gate region; other site 640510013411 putative PBP binding loops; other site 640510013412 ABC-ATPase subunit interface; other site 640510013413 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 640510013414 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 640510013415 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510013416 dimer interface [polypeptide binding]; other site 640510013417 conserved gate region; other site 640510013418 putative PBP binding loops; other site 640510013419 ABC-ATPase subunit interface; other site 640510013420 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 640510013421 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 640510013422 Walker A/P-loop; other site 640510013423 ATP binding site [chemical binding]; other site 640510013424 Q-loop/lid; other site 640510013425 ABC transporter signature motif; other site 640510013426 Walker B; other site 640510013427 D-loop; other site 640510013428 H-loop/switch region; other site 640510013429 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640510013430 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 640510013431 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 640510013432 Walker A/P-loop; other site 640510013433 ATP binding site [chemical binding]; other site 640510013434 Q-loop/lid; other site 640510013435 ABC transporter signature motif; other site 640510013436 Walker B; other site 640510013437 D-loop; other site 640510013438 H-loop/switch region; other site 640510013439 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 640510013440 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 640510013441 dimerization interface [polypeptide binding]; other site 640510013442 ligand binding site [chemical binding]; other site 640510013443 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640510013444 CheB methylesterase; Region: CheB_methylest; pfam01339 640510013445 PAS fold; Region: PAS; pfam00989 640510013446 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 640510013447 putative active site [active] 640510013448 heme pocket [chemical binding]; other site 640510013449 PAS domain; Region: PAS_10; pfam13596 640510013450 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 640510013451 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 640510013452 putative active site [active] 640510013453 heme pocket [chemical binding]; other site 640510013454 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 640510013455 dimer interface [polypeptide binding]; other site 640510013456 phosphorylation site [posttranslational modification] 640510013457 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510013458 ATP binding site [chemical binding]; other site 640510013459 Mg2+ binding site [ion binding]; other site 640510013460 G-X-G motif; other site 640510013461 Response regulator receiver domain; Region: Response_reg; pfam00072 640510013462 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510013463 active site 640510013464 phosphorylation site [posttranslational modification] 640510013465 intermolecular recognition site; other site 640510013466 dimerization interface [polypeptide binding]; other site 640510013467 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 640510013468 trimer interface [polypeptide binding]; other site 640510013469 eyelet of channel; other site 640510013470 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 640510013471 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 640510013472 active site 640510013473 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640510013474 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510013475 ATP binding site [chemical binding]; other site 640510013476 Mg2+ binding site [ion binding]; other site 640510013477 G-X-G motif; other site 640510013478 Response regulator receiver domain; Region: Response_reg; pfam00072 640510013479 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510013480 active site 640510013481 phosphorylation site [posttranslational modification] 640510013482 intermolecular recognition site; other site 640510013483 dimerization interface [polypeptide binding]; other site 640510013484 Response regulator receiver domain; Region: Response_reg; pfam00072 640510013485 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510013486 active site 640510013487 phosphorylation site [posttranslational modification] 640510013488 intermolecular recognition site; other site 640510013489 dimerization interface [polypeptide binding]; other site 640510013490 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 640510013491 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640510013492 Coenzyme A binding pocket [chemical binding]; other site 640510013493 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 640510013494 active site 640510013495 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 640510013496 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 640510013497 Surface antigen; Region: Bac_surface_Ag; cl03097 640510013498 haemagglutination activity domain; Region: Haemagg_act; cl05436 640510013499 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 640510013500 PAS domain; Region: PAS_9; pfam13426 640510013501 putative active site [active] 640510013502 heme pocket [chemical binding]; other site 640510013503 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 640510013504 putative active site [active] 640510013505 heme pocket [chemical binding]; other site 640510013506 PAS domain S-box; Region: sensory_box; TIGR00229 640510013507 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 640510013508 heme pocket [chemical binding]; other site 640510013509 putative active site [active] 640510013510 putative diguanylate cyclase; Provisional; Region: PRK09776 640510013511 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 640510013512 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 640510013513 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 640510013514 dimer interface [polypeptide binding]; other site 640510013515 phosphorylation site [posttranslational modification] 640510013516 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510013517 ATP binding site [chemical binding]; other site 640510013518 Mg2+ binding site [ion binding]; other site 640510013519 G-X-G motif; other site 640510013520 Response regulator receiver domain; Region: Response_reg; pfam00072 640510013521 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510013522 active site 640510013523 phosphorylation site [posttranslational modification] 640510013524 intermolecular recognition site; other site 640510013525 dimerization interface [polypeptide binding]; other site 640510013526 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT; cl04176 640510013527 gating phenylalanine in ion channel; other site 640510013528 NMT1-like family; Region: NMT1_2; cl15260 640510013529 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 640510013530 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 640510013531 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 640510013532 Walker A/P-loop; other site 640510013533 ATP binding site [chemical binding]; other site 640510013534 Q-loop/lid; other site 640510013535 ABC transporter signature motif; other site 640510013536 Walker B; other site 640510013537 D-loop; other site 640510013538 H-loop/switch region; other site 640510013539 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 640510013540 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 640510013541 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 640510013542 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 640510013543 urea carboxylase; Region: urea_carbox; TIGR02712 640510013544 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 640510013545 ATP-grasp domain; Region: ATP-grasp_4; cl03087 640510013546 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 640510013547 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 640510013548 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 640510013549 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 640510013550 carboxyltransferase (CT) interaction site; other site 640510013551 biotinylation site [posttranslational modification]; other site 640510013552 allophanate hydrolase; Provisional; Region: PRK08186 640510013553 Amidase; Region: Amidase; cl11426 640510013554 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640510013555 ligand binding site [chemical binding]; other site 640510013556 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 640510013557 YadA-like C-terminal region; Region: YadA; pfam03895 640510013558 Haemagglutinin; Region: HIM; pfam05662 640510013559 Response regulator receiver domain; Region: Response_reg; pfam00072 640510013560 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510013561 active site 640510013562 phosphorylation site [posttranslational modification] 640510013563 intermolecular recognition site; other site 640510013564 dimerization interface [polypeptide binding]; other site 640510013565 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640510013566 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510013567 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 640510013568 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 640510013569 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 640510013570 dimer interface [polypeptide binding]; other site 640510013571 phosphorylation site [posttranslational modification] 640510013572 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510013573 ATP binding site [chemical binding]; other site 640510013574 Mg2+ binding site [ion binding]; other site 640510013575 G-X-G motif; other site 640510013576 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 640510013577 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 640510013578 N-terminal plug; other site 640510013579 ligand-binding site [chemical binding]; other site 640510013580 transcriptional regulator PpsR; Region: PpsR-CrtJ; TIGR02040 640510013581 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 640510013582 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 640510013583 PAS fold; Region: PAS_3; pfam08447 640510013584 putative active site [active] 640510013585 heme pocket [chemical binding]; other site 640510013586 PAS domain S-box; Region: sensory_box; TIGR00229 640510013587 PAS domain S-box; Region: sensory_box; TIGR00229 640510013588 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 640510013589 putative active site [active] 640510013590 heme pocket [chemical binding]; other site 640510013591 sensory histidine kinase AtoS; Provisional; Region: PRK11360 640510013592 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 640510013593 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640510013594 metal binding site [ion binding]; metal-binding site 640510013595 active site 640510013596 I-site; other site 640510013597 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 640510013598 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640510013599 metal binding site [ion binding]; metal-binding site 640510013600 active site 640510013601 I-site; other site 640510013602 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 640510013603 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 640510013604 substrate binding pocket [chemical binding]; other site 640510013605 membrane-bound complex binding site; other site 640510013606 hinge residues; other site 640510013607 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 640510013608 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 640510013609 putative dimer interface [polypeptide binding]; other site 640510013610 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640510013611 metal binding site [ion binding]; metal-binding site 640510013612 active site 640510013613 I-site; other site 640510013614 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 640510013615 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 640510013616 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 640510013617 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640510013618 dimer interface [polypeptide binding]; other site 640510013619 putative CheW interface [polypeptide binding]; other site 640510013620 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 640510013621 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640510013622 ligand binding site [chemical binding]; other site 640510013623 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 640510013624 Protein tyrosine kinase; Region: Pkinase_Tyr; pfam07714 640510013625 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 640510013626 active site 640510013627 ATP binding site [chemical binding]; other site 640510013628 substrate binding site [chemical binding]; other site 640510013629 activation loop (A-loop); other site 640510013630 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 640510013631 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 640510013632 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 640510013633 DNA binding site [nucleotide binding] 640510013634 active site 640510013635 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 640510013636 Cache domain; Region: Cache_2; cl07034 640510013637 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 640510013638 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640510013639 dimer interface [polypeptide binding]; other site 640510013640 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 640510013641 putative CheW interface [polypeptide binding]; other site 640510013642 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510013643 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640510013644 putative substrate translocation pore; other site 640510013645 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510013646 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 640510013647 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 640510013648 putative active site [active] 640510013649 catalytic residue [active] 640510013650 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 640510013651 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 640510013652 active site 640510013653 tetramer interface [polypeptide binding]; other site 640510013654 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510013655 D-galactonate transporter; Region: 2A0114; TIGR00893 640510013656 putative substrate translocation pore; other site 640510013657 Transcriptional regulators [Transcription]; Region: FadR; COG2186 640510013658 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510013659 DNA-binding site [nucleotide binding]; DNA binding site 640510013660 FCD domain; Region: FCD; cl11656 640510013661 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 640510013662 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 640510013663 Citrate transporter; Region: CitMHS; pfam03600 640510013664 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 640510013665 Helix-turn-helix domains; Region: HTH; cl00088 640510013666 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 640510013667 putative dimerization interface [polypeptide binding]; other site 640510013668 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 640510013669 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640510013670 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 640510013671 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 640510013672 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 640510013673 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 640510013674 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 640510013675 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 640510013676 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 640510013677 putative active site [active] 640510013678 metal binding site [ion binding]; metal-binding site 640510013679 Phospholipid methyltransferase; Region: PEMT; cl00763 640510013680 DDE superfamily endonuclease; Region: DDE_4; cl15789 640510013681 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 640510013682 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 640510013683 dimer interface [polypeptide binding]; other site 640510013684 phosphorylation site [posttranslational modification] 640510013685 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510013686 ATP binding site [chemical binding]; other site 640510013687 Mg2+ binding site [ion binding]; other site 640510013688 G-X-G motif; other site 640510013689 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 640510013690 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510013691 active site 640510013692 phosphorylation site [posttranslational modification] 640510013693 intermolecular recognition site; other site 640510013694 dimerization interface [polypeptide binding]; other site 640510013695 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 640510013696 DNA binding site [nucleotide binding] 640510013697 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 640510013698 NMT1-like family; Region: NMT1_2; cl15260 640510013699 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 640510013700 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 640510013701 Walker A/P-loop; other site 640510013702 ATP binding site [chemical binding]; other site 640510013703 Q-loop/lid; other site 640510013704 ABC transporter signature motif; other site 640510013705 Walker B; other site 640510013706 D-loop; other site 640510013707 H-loop/switch region; other site 640510013708 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 640510013709 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 640510013710 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 640510013711 binding surface 640510013712 TPR motif; other site 640510013713 Tetratricopeptide repeat; Region: TPR_12; pfam13424 640510013714 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 640510013715 binding surface 640510013716 TPR motif; other site 640510013717 TPR repeat; Region: TPR_11; pfam13414 640510013718 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 640510013719 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 640510013720 Phosphoesterase family; Region: Phosphoesterase; cl15450 640510013721 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640510013722 OpgC protein; Region: OpgC_C; cl00792 640510013723 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 640510013724 active site lid residues [active] 640510013725 substrate binding pocket [chemical binding]; other site 640510013726 catalytic residues [active] 640510013727 substrate-Mg2+ binding site; other site 640510013728 aspartate-rich region 1; other site 640510013729 aspartate-rich region 2; other site 640510013730 Helix-turn-helix domains; Region: HTH; cl00088 640510013731 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640510013732 circadian clock protein KaiC; Reviewed; Region: PRK09302 640510013733 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510013734 ATP binding site [chemical binding]; other site 640510013735 Walker A motif; other site 640510013736 Walker B motif; other site 640510013737 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510013738 ATP binding site [chemical binding]; other site 640510013739 Walker A motif; other site 640510013740 Walker B motif; other site 640510013741 Response regulator receiver domain; Region: Response_reg; pfam00072 640510013742 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510013743 active site 640510013744 phosphorylation site [posttranslational modification] 640510013745 intermolecular recognition site; other site 640510013746 dimerization interface [polypeptide binding]; other site 640510013747 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 640510013748 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640510013749 Helix-turn-helix domains; Region: HTH; cl00088 640510013750 The C-terminal substrate-domain of LysR-type transcriptional regulators for beta-lactamase genes, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_beta_lactamase; cd08484 640510013751 putative dimerization interface [polypeptide binding]; other site 640510013752 putative substrate binding pocket [chemical binding]; other site 640510013753 Lecithin retinol acyltransferase; Region: LRAT; pfam04970 640510013754 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 640510013755 Protein phosphatase 2C; Region: PP2C; pfam00481 640510013756 active site 640510013757 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 640510013758 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 640510013759 Walker A motif; other site 640510013760 ATP binding site [chemical binding]; other site 640510013761 Walker B motif; other site 640510013762 arginine finger; other site 640510013763 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 640510013764 ligand binding site [chemical binding]; other site 640510013765 flexible hinge region; other site 640510013766 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 640510013767 ligand binding site [chemical binding]; other site 640510013768 flexible hinge region; other site 640510013769 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 640510013770 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 640510013771 putative active site [active] 640510013772 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 640510013773 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510013774 Walker A/P-loop; other site 640510013775 ATP binding site [chemical binding]; other site 640510013776 Q-loop/lid; other site 640510013777 ABC transporter signature motif; other site 640510013778 Walker B; other site 640510013779 D-loop; other site 640510013780 H-loop/switch region; other site 640510013781 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 640510013782 PPIC-type PPIASE domain; Region: Rotamase; cl08278 640510013783 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 640510013784 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 640510013785 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 640510013786 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 640510013787 phosphopeptide binding site; other site 640510013788 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 640510013789 phosphopeptide binding site; other site 640510013790 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640510013791 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 640510013792 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 640510013793 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 640510013794 substrate pocket [chemical binding]; other site 640510013795 active site 640510013796 proteolytic cleavage site; other site 640510013797 dimer interface [polypeptide binding]; other site 640510013798 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 640510013799 Catalytic domain of Protein Kinases; Region: PKc; cd00180 640510013800 active site 640510013801 ATP binding site [chemical binding]; other site 640510013802 substrate binding site [chemical binding]; other site 640510013803 activation loop (A-loop); other site 640510013804 Domain of unknown function (DUF4384); Region: DUF4384; pfam14326 640510013805 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640510013806 Helix-turn-helix domains; Region: HTH; cl00088 640510013807 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510013808 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 640510013809 putative substrate translocation pore; other site 640510013810 Protein of unknown function (DUF3309); Region: DUF3309; pfam11752 640510013811 glucose-1-dehydrogenase; Provisional; Region: PRK08936 640510013812 glucose 1 dehydrogenase (GlcDH), classical (c) SDRs; Region: GlcDH_SDR_c; cd05358 640510013813 NAD binding site [chemical binding]; other site 640510013814 homodimer interface [polypeptide binding]; other site 640510013815 active site 640510013816 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 640510013817 Helix-turn-helix domains; Region: HTH; cl00088 640510013818 AsnC family; Region: AsnC_trans_reg; pfam01037 640510013819 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 640510013820 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510013821 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 640510013822 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510013823 D-galactonate transporter; Region: 2A0114; TIGR00893 640510013824 putative substrate translocation pore; other site 640510013825 Protein of unknown function (DUF2783); Region: DUF2783; pfam10932 640510013826 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 640510013827 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510013828 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 640510013829 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640510013830 Bacterial transcriptional regulator; Region: IclR; pfam01614 640510013831 Bacterial transcriptional regulator; Region: IclR; pfam01614 640510013832 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 640510013833 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 640510013834 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 640510013835 putative active site [active] 640510013836 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 640510013837 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 640510013838 Walker A/P-loop; other site 640510013839 ATP binding site [chemical binding]; other site 640510013840 Q-loop/lid; other site 640510013841 ABC transporter signature motif; other site 640510013842 Walker B; other site 640510013843 D-loop; other site 640510013844 H-loop/switch region; other site 640510013845 TOBE domain; Region: TOBE_2; cl01440 640510013846 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640510013847 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510013848 NAD(P) binding site [chemical binding]; other site 640510013849 active site 640510013850 The 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 640510013851 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 640510013852 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 640510013853 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 640510013854 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510013855 dimer interface [polypeptide binding]; other site 640510013856 putative PBP binding loops; other site 640510013857 ABC-ATPase subunit interface; other site 640510013858 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510013859 dimer interface [polypeptide binding]; other site 640510013860 conserved gate region; other site 640510013861 putative PBP binding loops; other site 640510013862 ABC-ATPase subunit interface; other site 640510013863 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 640510013864 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 640510013865 active site 640510013866 tetramer interface; other site 640510013867 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 640510013868 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510013869 D-galactonate transporter; Region: 2A0114; TIGR00893 640510013870 putative substrate translocation pore; other site 640510013871 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510013872 Helix-turn-helix domains; Region: HTH; cl00088 640510013873 The 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 640510013874 dimerization interface [polypeptide binding]; other site 640510013875 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 640510013876 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640510013877 SAM (Sterile alpha motif ); Region: SAM_superfamily; cl15755 640510013878 enoyl-CoA hydratase; Provisional; Region: PRK06144 640510013879 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 640510013880 substrate binding site [chemical binding]; other site 640510013881 oxyanion hole (OAH) forming residues; other site 640510013882 trimer interface [polypeptide binding]; other site 640510013883 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 640510013884 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 640510013885 active site 640510013886 metal binding site [ion binding]; metal-binding site 640510013887 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640510013888 metal binding site [ion binding]; metal-binding site 640510013889 active site 640510013890 I-site; other site 640510013891 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 640510013892 Protein of unknown function (DUF1697); Region: DUF1697; cl01557 640510013893 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 640510013894 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 640510013895 PQQ-like domain; Region: PQQ_2; pfam13360 640510013896 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640510013897 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 640510013898 conserved cys residue [active] 640510013899 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510013900 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 640510013901 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510013902 NAD(P) binding site [chemical binding]; other site 640510013903 active site 640510013904 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510013905 metabolite-proton symporter; Region: 2A0106; TIGR00883 640510013906 putative substrate translocation pore; other site 640510013907 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640510013908 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640510013909 Helix-turn-helix domains; Region: HTH; cl00088 640510013910 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 640510013911 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 640510013912 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 640510013913 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 640510013914 short chain dehydrogenase; Provisional; Region: PRK06179 640510013915 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 640510013916 NADP binding site [chemical binding]; other site 640510013917 active site 640510013918 steroid binding site; other site 640510013919 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 640510013920 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 640510013921 dimer interface [polypeptide binding]; other site 640510013922 active site 640510013923 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 640510013924 substrate binding site [chemical binding]; other site 640510013925 catalytic residue [active] 640510013926 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 640510013927 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640510013928 NAD binding site [chemical binding]; other site 640510013929 catalytic residues [active] 640510013930 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510013931 Helix-turn-helix domains; Region: HTH; cl00088 640510013932 The 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 640510013933 dimerization interface [polypeptide binding]; other site 640510013934 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]; Region: COG3970 640510013935 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 640510013936 Dehydratase family; Region: ILVD_EDD; cl00340 640510013937 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640510013938 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640510013939 DNA binding site [nucleotide binding] 640510013940 domain linker motif; other site 640510013941 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 640510013942 putative dimerization interface [polypeptide binding]; other site 640510013943 putative ligand binding site [chemical binding]; other site 640510013944 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510013945 D-galactonate transporter; Region: 2A0114; TIGR00893 640510013946 putative substrate translocation pore; other site 640510013947 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510013948 Helix-turn-helix domains; Region: HTH; cl00088 640510013949 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 640510013950 putative effector binding pocket; other site 640510013951 dimerization interface [polypeptide binding]; other site 640510013952 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 640510013953 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510013954 putative substrate translocation pore; other site 640510013955 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 640510013956 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 640510013957 dimerization interface [polypeptide binding]; other site 640510013958 ligand binding site [chemical binding]; other site 640510013959 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640510013960 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510013961 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510013962 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 640510013963 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 640510013964 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510013965 DNA-binding site [nucleotide binding]; DNA binding site 640510013966 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 640510013967 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510013968 homodimer interface [polypeptide binding]; other site 640510013969 catalytic residue [active] 640510013970 PAP2, bacterial acid phosphatase or class A non-specific acid phosphatases. These enzymes catalyze phosphomonoester hydrolysis, with optimal activity in low pH conditions. They are secreted into the periplasmic space, and their physiological role remains...; Region: PAP2_acid_phosphatase; cd03397 640510013971 active site 640510013972 AIDA autotransporter-like protein ShdA; Provisional; Region: PRK15319 640510013973 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 640510013974 salicylyl-CoA 5-hydroxylase; Reviewed; Region: PRK08255 640510013975 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510013976 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510013977 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 640510013978 active site 640510013979 FMN binding site [chemical binding]; other site 640510013980 substrate binding site [chemical binding]; other site 640510013981 homotetramer interface [polypeptide binding]; other site 640510013982 catalytic residue [active] 640510013983 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640510013984 classical (c) SDRs; Region: SDR_c; cd05233 640510013985 NAD(P) binding site [chemical binding]; other site 640510013986 active site 640510013987 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640510013988 Helix-turn-helix domains; Region: HTH; cl00088 640510013989 enoyl-CoA hydratase; Provisional; Region: PRK06688 640510013990 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 640510013991 substrate binding site [chemical binding]; other site 640510013992 oxyanion hole (OAH) forming residues; other site 640510013993 trimer interface [polypeptide binding]; other site 640510013994 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 640510013995 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 640510013996 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640510013997 active site 640510013998 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 640510013999 active site 640510014000 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 640510014001 homotrimer interaction site [polypeptide binding]; other site 640510014002 putative active site [active] 640510014003 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 640510014004 AMP-binding enzyme; Region: AMP-binding; cl15778 640510014005 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 640510014006 Dienelactone hydrolase family; Region: DLH; pfam01738 640510014007 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 640510014008 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 640510014009 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510014010 putative substrate translocation pore; other site 640510014011 TPR repeat; Region: TPR_11; pfam13414 640510014012 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 640510014013 binding surface 640510014014 TPR motif; other site 640510014015 Tetratricopeptide repeat; Region: TPR_12; pfam13424 640510014016 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 640510014017 binding surface 640510014018 TPR motif; other site 640510014019 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 640510014020 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 640510014021 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640510014022 cyclase homology domain; Region: CHD; cd07302 640510014023 nucleotidyl binding site; other site 640510014024 metal binding site [ion binding]; metal-binding site 640510014025 dimer interface [polypeptide binding]; other site 640510014026 Transposase, Mutator family; Region: Transposase_mut; pfam00872 640510014027 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 640510014028 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640510014029 Coenzyme A binding pocket [chemical binding]; other site 640510014030 Flavin Reductases; Region: FlaRed; cl00801 640510014031 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 640510014032 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510014033 DNA-binding site [nucleotide binding]; DNA binding site 640510014034 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 640510014035 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510014036 homodimer interface [polypeptide binding]; other site 640510014037 catalytic residue [active] 640510014038 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 640510014039 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 640510014040 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 640510014041 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 640510014042 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 640510014043 Helix-turn-helix domains; Region: HTH; cl00088 640510014044 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 640510014045 dimerization interface [polypeptide binding]; other site 640510014046 substrate binding pocket [chemical binding]; other site 640510014047 Membrane transport protein; Region: Mem_trans; cl09117 640510014048 Domain of unknown function (DUF4337); Region: DUF4337; pfam14235 640510014049 LysE type translocator; Region: LysE; cl00565 640510014050 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 640510014051 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640510014052 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_24; cd09012 640510014053 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640510014054 YCII-related domain; Region: YCII; cl00999 640510014055 YCII-related domain; Region: YCII; cl00999 640510014056 PAAR motif; Region: PAAR_motif; cl15808 640510014057 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 640510014058 Dopa 4,5-dioxygenase family; Region: DOPA_dioxygen; cl01562 640510014059 High potential iron-sulfur protein; Region: HIPIP; pfam01355 640510014060 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 640510014061 putative FMN binding site [chemical binding]; other site 640510014062 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 640510014063 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 640510014064 active site 640510014065 catalytic tetrad [active] 640510014066 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 640510014067 substrate binding site [chemical binding]; other site 640510014068 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 640510014069 glucose-6-phosphate 1-dehydrogenase; Provisional; Region: PRK12853 640510014070 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 640510014071 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 640510014072 Mannosyl oligosaccharide glucosidase; Region: Glyco_hydro_63; pfam03200 640510014073 glycogen debranching enzyme, archaeal type, putative; Region: gde_arch; TIGR01561 640510014074 Glycogen debranching enzyme N terminal; Region: GDE_N; pfam12439 640510014075 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 640510014076 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 640510014077 Phosphoesterase family; Region: Phosphoesterase; cl15450 640510014078 Domain of unknown function (DUF756); Region: DUF756; pfam05506 640510014079 Domain of unknown function (DUF756); Region: DUF756; pfam05506 640510014080 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 640510014081 active site 640510014082 Zn binding site [ion binding]; other site 640510014083 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional; Region: PRK15010 640510014084 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 640510014085 substrate binding pocket [chemical binding]; other site 640510014086 membrane-bound complex binding site; other site 640510014087 hinge residues; other site 640510014088 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 640510014089 Helix-turn-helix domains; Region: HTH; cl00088 640510014090 The 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 640510014091 dimerization interface [polypeptide binding]; other site 640510014092 Rubredoxin; Region: Rubredoxin; pfam00301 640510014093 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 640510014094 iron binding site [ion binding]; other site 640510014095 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 640510014096 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 640510014097 [2Fe-2S] cluster binding site [ion binding]; other site 640510014098 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 640510014099 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 640510014100 DXD motif; other site 640510014101 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 640510014102 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 640510014103 Protein of unknown function (DUF3562); Region: DUF3562; pfam12085 640510014104 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510014105 N-methyltryptophan oxidase; Provisional; Region: solA; PRK11259 640510014106 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 640510014107 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640510014108 Coenzyme A binding pocket [chemical binding]; other site 640510014109 benzoate transport; Region: 2A0115; TIGR00895 640510014110 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510014111 putative substrate translocation pore; other site 640510014112 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510014113 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 640510014114 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640510014115 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 640510014116 active site 640510014117 metal binding site [ion binding]; metal-binding site 640510014118 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 640510014119 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640510014120 putative active site [active] 640510014121 putative metal binding site [ion binding]; other site 640510014122 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640510014123 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 640510014124 NAD(P) binding site [chemical binding]; other site 640510014125 catalytic residues [active] 640510014126 L-aspartate dehydrogenase; Provisional; Region: PRK13303 640510014127 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510014128 Domain of unknown function DUF108; Region: DUF108; pfam01958 640510014129 hypothetical protein; Provisional; Region: PRK07064 640510014130 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 640510014131 PYR/PP interface [polypeptide binding]; other site 640510014132 dimer interface [polypeptide binding]; other site 640510014133 TPP binding site [chemical binding]; other site 640510014134 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 640510014135 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 640510014136 TPP-binding site [chemical binding]; other site 640510014137 short chain dehydrogenase; Provisional; Region: PRK07062 640510014138 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 640510014139 putative NAD(P) binding site [chemical binding]; other site 640510014140 putative active site [active] 640510014141 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640510014142 Helix-turn-helix domains; Region: HTH; cl00088 640510014143 Bacterial transcriptional regulator; Region: IclR; pfam01614 640510014144 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640510014145 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 640510014146 Cupin domain; Region: Cupin_2; cl09118 640510014147 short chain dehydrogenase; Provisional; Region: PRK12939 640510014148 classical (c) SDRs; Region: SDR_c; cd05233 640510014149 NAD(P) binding site [chemical binding]; other site 640510014150 active site 640510014151 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 640510014152 [2Fe-2S] cluster binding site [ion binding]; other site 640510014153 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 640510014154 trimer interface [polypeptide binding]; other site 640510014155 eyelet of channel; other site 640510014156 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640510014157 Helix-turn-helix domains; Region: HTH; cl00088 640510014158 Bacterial transcriptional regulator; Region: IclR; pfam01614 640510014159 Phospholipase C [Cell envelope biogenesis, outer membrane]; Region: PlcC; COG3511 640510014160 Phosphoesterase family; Region: Phosphoesterase; cl15450 640510014161 Protein of unknown function (DUF3564); Region: DUF3564; pfam12087 640510014162 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 640510014163 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 640510014164 active site 640510014165 substrate binding site [chemical binding]; other site 640510014166 Mg2+ binding site [ion binding]; other site 640510014167 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 640510014168 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 640510014169 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 640510014170 ligand binding site [chemical binding]; other site 640510014171 flexible hinge region; other site 640510014172 Helix-turn-helix domains; Region: HTH; cl00088 640510014173 Protein of unknown function (DUF962); Region: DUF962; cl01879 640510014174 Predicted permeases [General function prediction only]; Region: RarD; COG2962 640510014175 probable methyltransferase; Region: TIGR03438 640510014176 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 640510014177 Acylphosphatase; Region: Acylphosphatase; cl00551 640510014178 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 640510014179 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 640510014180 putative NADP binding site [chemical binding]; other site 640510014181 putative substrate binding site [chemical binding]; other site 640510014182 active site 640510014183 hopene-associated glycosyltransferase HpnB; Region: HpnB; TIGR03469 640510014184 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 640510014185 active site 640510014186 LytB protein; Region: LYTB; cl00507 640510014187 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 640510014188 hopanoid biosynthesis associated radical SAM protein HpnH; Region: HpnH; TIGR03470 640510014189 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 640510014190 FeS/SAM binding site; other site 640510014191 Domain of unknown function (DUF3463); Region: DUF3463; pfam11946 640510014192 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 640510014193 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 640510014194 VacJ like lipoprotein; Region: VacJ; cl01073 640510014195 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 640510014196 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 640510014197 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 640510014198 Active site cavity [active] 640510014199 catalytic acid [active] 640510014200 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 640510014201 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 640510014202 active site lid residues [active] 640510014203 substrate binding pocket [chemical binding]; other site 640510014204 catalytic residues [active] 640510014205 substrate-Mg2+ binding site; other site 640510014206 aspartate-rich region 1; other site 640510014207 aspartate-rich region 2; other site 640510014208 PAS fold; Region: PAS; pfam00989 640510014209 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 640510014210 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640510014211 metal binding site [ion binding]; metal-binding site 640510014212 active site 640510014213 I-site; other site 640510014214 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 640510014215 Chemotaxis phosphatase CheX; Region: CheX; cl15816 640510014216 Response regulator receiver domain; Region: Response_reg; pfam00072 640510014217 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510014218 active site 640510014219 phosphorylation site [posttranslational modification] 640510014220 intermolecular recognition site; other site 640510014221 dimerization interface [polypeptide binding]; other site 640510014222 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 640510014223 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510014224 ATP binding site [chemical binding]; other site 640510014225 Mg2+ binding site [ion binding]; other site 640510014226 G-X-G motif; other site 640510014227 Response regulator receiver domain; Region: Response_reg; pfam00072 640510014228 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510014229 active site 640510014230 phosphorylation site [posttranslational modification] 640510014231 intermolecular recognition site; other site 640510014232 dimerization interface [polypeptide binding]; other site 640510014233 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 640510014234 RNA polymerase sigma factor; Provisional; Region: PRK12545 640510014235 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 640510014236 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3813 640510014237 Protein of unknown function (DUF1272); Region: DUF1272; pfam06906 640510014238 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 640510014239 ArsC family; Region: ArsC; pfam03960 640510014240 catalytic residues [active] 640510014241 ParA-like protein; Provisional; Region: PHA02518 640510014242 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 640510014243 P-loop; other site 640510014244 Magnesium ion binding site [ion binding]; other site 640510014245 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 640510014246 ParB-like nuclease domain; Region: ParBc; cl02129 640510014247 Initiator Replication protein; Region: Rep_3; cl03080 640510014248 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 640510014249 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 640510014250 active site 640510014251 catalytic residues [active] 640510014252 Int/Topo IB signature motif; other site 640510014253 DNA binding site [nucleotide binding] 640510014254 Protein of unknown function (DUF2471); Region: DUF2471; pfam10616 640510014255 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 640510014256 non-specific DNA binding site [nucleotide binding]; other site 640510014257 salt bridge; other site 640510014258 sequence-specific DNA binding site [nucleotide binding]; other site 640510014259 Cupin domain; Region: Cupin_2; cl09118 640510014260 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 640510014261 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 640510014262 substrate-cofactor binding pocket; other site 640510014263 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510014264 catalytic residue [active] 640510014265 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 640510014266 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 640510014267 NAD(P) binding site [chemical binding]; other site 640510014268 YceI-like domain; Region: YceI; cl01001 640510014269 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640510014270 Helix-turn-helix domains; Region: HTH; cl00088 640510014271 Protein of unknown function (DUF1348); Region: DUF1348; pfam07080 640510014272 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 640510014273 CHASE3 domain; Region: CHASE3; cl05000 640510014274 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640510014275 metal binding site [ion binding]; metal-binding site 640510014276 active site 640510014277 I-site; other site 640510014278 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 640510014279 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 640510014280 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 640510014281 dimerization interface [polypeptide binding]; other site 640510014282 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 640510014283 putative binding surface; other site 640510014284 active site 640510014285 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510014286 ATP binding site [chemical binding]; other site 640510014287 Mg2+ binding site [ion binding]; other site 640510014288 G-X-G motif; other site 640510014289 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 640510014290 Response regulator receiver domain; Region: Response_reg; pfam00072 640510014291 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510014292 active site 640510014293 phosphorylation site [posttranslational modification] 640510014294 intermolecular recognition site; other site 640510014295 dimerization interface [polypeptide binding]; other site 640510014296 short chain dehydrogenase; Provisional; Region: PRK07023 640510014297 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510014298 NAD(P) binding site [chemical binding]; other site 640510014299 active site 640510014300 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640510014301 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 640510014302 conserved cys residue [active] 640510014303 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510014304 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510014305 Helix-turn-helix domains; Region: HTH; cl00088 640510014306 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 640510014307 putative dimerization interface [polypeptide binding]; other site 640510014308 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 640510014309 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640510014310 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 640510014311 active site 640510014312 catalytic residues [active] 640510014313 metal binding site [ion binding]; metal-binding site 640510014314 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510014315 D-galactonate transporter; Region: 2A0114; TIGR00893 640510014316 putative substrate translocation pore; other site 640510014317 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510014318 Transcriptional regulators [Transcription]; Region: GntR; COG1802 640510014319 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510014320 DNA-binding site [nucleotide binding]; DNA binding site 640510014321 FCD domain; Region: FCD; cl11656 640510014322 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 640510014323 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 640510014324 homodimer interface [polypeptide binding]; other site 640510014325 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510014326 catalytic residue [active] 640510014327 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510014328 D-galactonate transporter; Region: 2A0114; TIGR00893 640510014329 putative substrate translocation pore; other site 640510014330 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 640510014331 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 640510014332 FAD binding domain; Region: FAD_binding_4; pfam01565 640510014333 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 640510014334 sn-glycerol-3-phosphate dehydrogenase subunit C; Provisional; Region: glpC; PRK11168 640510014335 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640510014336 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510014337 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 640510014338 EamA-like transporter family; Region: EamA; cl01037 640510014339 LysE type translocator; Region: LysE; cl00565 640510014340 Protein of unknown function (DUF1006); Region: DUF1006; cl15826 640510014341 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 640510014342 ligand binding site [chemical binding]; other site 640510014343 flexible hinge region; other site 640510014344 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510014345 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 640510014346 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640510014347 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 640510014348 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 640510014349 active site residue [active] 640510014350 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 640510014351 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 640510014352 putative active site [active] 640510014353 heme pocket [chemical binding]; other site 640510014354 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 640510014355 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640510014356 dimer interface [polypeptide binding]; other site 640510014357 putative CheW interface [polypeptide binding]; other site 640510014358 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional; Region: PRK10841 640510014359 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional; Region: PRK10841 640510014360 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 640510014361 dimer interface [polypeptide binding]; other site 640510014362 phosphorylation site [posttranslational modification] 640510014363 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510014364 ATP binding site [chemical binding]; other site 640510014365 Mg2+ binding site [ion binding]; other site 640510014366 G-X-G motif; other site 640510014367 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510014368 active site 640510014369 phosphorylation site [posttranslational modification] 640510014370 intermolecular recognition site; other site 640510014371 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 640510014372 homotrimer interaction site [polypeptide binding]; other site 640510014373 putative active site [active] 640510014374 Citrate transporter; Region: CitMHS; pfam03600 640510014375 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 640510014376 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 640510014377 Walker A motif; other site 640510014378 ATP binding site [chemical binding]; other site 640510014379 Walker B motif; other site 640510014380 arginine finger; other site 640510014381 Helix-turn-helix domains; Region: HTH; cl00088 640510014382 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 640510014383 H-NS histone family; Region: Histone_HNS; pfam00816 640510014384 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 640510014385 Formaldehyde-activating enzyme (Fae); Region: Fae; cl00774 640510014386 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 640510014387 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 640510014388 active site 640510014389 catalytic tetrad [active] 640510014390 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640510014391 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 640510014392 tetramerization interface [polypeptide binding]; other site 640510014393 NAD(P) binding site [chemical binding]; other site 640510014394 catalytic residues [active] 640510014395 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510014396 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 640510014397 putative substrate translocation pore; other site 640510014398 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 640510014399 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 640510014400 G1 box; other site 640510014401 putative GEF interaction site [polypeptide binding]; other site 640510014402 GTP/Mg2+ binding site [chemical binding]; other site 640510014403 Switch I region; other site 640510014404 G2 box; other site 640510014405 G3 box; other site 640510014406 Switch II region; other site 640510014407 G4 box; other site 640510014408 G5 box; other site 640510014409 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 640510014410 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640510014411 Helix-turn-helix domains; Region: HTH; cl00088 640510014412 The 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 640510014413 dimerization interface [polypeptide binding]; other site 640510014414 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 640510014415 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510014416 CoA-ligase; Region: Ligase_CoA; cl02894 640510014417 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 640510014418 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 640510014419 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640510014420 Helix-turn-helix domains; Region: HTH; cl00088 640510014421 Bacterial transcriptional regulator; Region: IclR; pfam01614 640510014422 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 640510014423 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 640510014424 Altronate dehydratase [Carbohydrate transport and metabolism]; Region: UxaA; COG2721 640510014425 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 640510014426 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 640510014427 active site 640510014428 catalytic tetrad [active] 640510014429 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 640510014430 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 640510014431 active site 640510014432 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640510014433 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 640510014434 NAD binding site [chemical binding]; other site 640510014435 homotetramer interface [polypeptide binding]; other site 640510014436 homodimer interface [polypeptide binding]; other site 640510014437 active site 640510014438 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 640510014439 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 640510014440 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 640510014441 CoenzymeA binding site [chemical binding]; other site 640510014442 subunit interaction site [polypeptide binding]; other site 640510014443 PHB binding site; other site 640510014444 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 640510014445 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 640510014446 dimer interface [polypeptide binding]; other site 640510014447 ligand binding site [chemical binding]; other site 640510014448 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 640510014449 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640510014450 dimer interface [polypeptide binding]; other site 640510014451 putative CheW interface [polypeptide binding]; other site 640510014452 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 640510014453 DNA-binding site [nucleotide binding]; DNA binding site 640510014454 RNA-binding motif; other site 640510014455 N-acyl-D-glucosamine 2-epimerase [Carbohydrate transport and metabolism]; Region: COG2942 640510014456 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 640510014457 dimerization interface [polypeptide binding]; other site 640510014458 putative active cleft [active] 640510014459 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 640510014460 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510014461 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 640510014462 Flavin Reductases; Region: FlaRed; cl00801 640510014463 Cache domain; Region: Cache_1; pfam02743 640510014464 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 640510014465 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 640510014466 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640510014467 dimer interface [polypeptide binding]; other site 640510014468 putative CheW interface [polypeptide binding]; other site 640510014469 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 640510014470 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 640510014471 metal-binding site [ion binding] 640510014472 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 640510014473 Uncharacterized conserved protein [Function unknown]; Region: COG5361 640510014474 Protein of unknown function (DUF1254); Region: DUF1254; cl02257 640510014475 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 640510014476 AsmA family; Region: AsmA; pfam05170 640510014477 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 640510014478 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 640510014479 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 640510014480 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 640510014481 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 640510014482 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510014483 DNA-binding site [nucleotide binding]; DNA binding site 640510014484 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 640510014485 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510014486 homodimer interface [polypeptide binding]; other site 640510014487 catalytic residue [active] 640510014488 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 640510014489 PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D. PotA has two domains with the N-terminal domain containing the ATPase activity and the residues required...; Region: ABC_PotA_N; cd03300 640510014490 Walker A/P-loop; other site 640510014491 ATP binding site [chemical binding]; other site 640510014492 Q-loop/lid; other site 640510014493 ABC transporter signature motif; other site 640510014494 Walker B; other site 640510014495 D-loop; other site 640510014496 H-loop/switch region; other site 640510014497 TOBE domain; Region: TOBE_2; cl01440 640510014498 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510014499 dimer interface [polypeptide binding]; other site 640510014500 conserved gate region; other site 640510014501 putative PBP binding loops; other site 640510014502 ABC-ATPase subunit interface; other site 640510014503 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510014504 dimer interface [polypeptide binding]; other site 640510014505 conserved gate region; other site 640510014506 putative PBP binding loops; other site 640510014507 ABC-ATPase subunit interface; other site 640510014508 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640510014509 ligand binding site [chemical binding]; other site 640510014510 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640510014511 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510014512 active site 640510014513 phosphorylation site [posttranslational modification] 640510014514 intermolecular recognition site; other site 640510014515 dimerization interface [polypeptide binding]; other site 640510014516 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 640510014517 DNA binding residues [nucleotide binding] 640510014518 dimerization interface [polypeptide binding]; other site 640510014519 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 640510014520 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 640510014521 N-acetyl-D-glucosamine binding site [chemical binding]; other site 640510014522 catalytic residue [active] 640510014523 TadE-like protein; Region: TadE; cl10688 640510014524 Uncharacterized ACR, COG1430; Region: DUF192; cl00627 640510014525 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 640510014526 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 640510014527 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 640510014528 phosphopeptide binding site; other site 640510014529 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 640510014530 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 640510014531 ATP binding site [chemical binding]; other site 640510014532 Walker A motif; other site 640510014533 hexamer interface [polypeptide binding]; other site 640510014534 Walker B motif; other site 640510014535 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 640510014536 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 640510014537 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07764 640510014538 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 640510014539 TadE-like protein; Region: TadE; cl10688 640510014540 flagellar capping protein; Validated; Region: fliD; PRK07737 640510014541 Haemagglutinin; Region: HIM; pfam05662 640510014542 YadA-like C-terminal region; Region: YadA; pfam03895 640510014543 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640510014544 ligand binding site [chemical binding]; other site 640510014545 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640510014546 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510014547 active site 640510014548 phosphorylation site [posttranslational modification] 640510014549 intermolecular recognition site; other site 640510014550 dimerization interface [polypeptide binding]; other site 640510014551 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 640510014552 DNA binding residues [nucleotide binding] 640510014553 dimerization interface [polypeptide binding]; other site 640510014554 aconitate hydratase; Provisional; Region: acnA; PRK12881 640510014555 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 640510014556 substrate binding site [chemical binding]; other site 640510014557 ligand binding site [chemical binding]; other site 640510014558 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 640510014559 substrate binding site [chemical binding]; other site 640510014560 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 640510014561 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 640510014562 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 640510014563 dimer interface [polypeptide binding]; other site 640510014564 active site 640510014565 citrylCoA binding site [chemical binding]; other site 640510014566 oxalacetate/citrate binding site [chemical binding]; other site 640510014567 coenzyme A binding site [chemical binding]; other site 640510014568 catalytic triad [active] 640510014569 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 640510014570 malate dehydrogenase; Provisional; Region: PRK05442 640510014571 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 640510014572 NAD(P) binding site [chemical binding]; other site 640510014573 dimer interface [polypeptide binding]; other site 640510014574 malate binding site [chemical binding]; other site 640510014575 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 640510014576 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510014577 DNA-binding site [nucleotide binding]; DNA binding site 640510014578 UTRA domain; Region: UTRA; cl01230 640510014579 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 640510014580 Iron-sulfur protein interface; other site 640510014581 proximal quinone binding site [chemical binding]; other site 640510014582 SdhD (CybS) interface [polypeptide binding]; other site 640510014583 proximal heme binding site [chemical binding]; other site 640510014584 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 640510014585 SdhC subunit interface [polypeptide binding]; other site 640510014586 proximal heme binding site [chemical binding]; other site 640510014587 cardiolipin binding site; other site 640510014588 Iron-sulfur protein interface; other site 640510014589 proximal quinone binding site [chemical binding]; other site 640510014590 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 640510014591 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510014592 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 640510014593 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 640510014594 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 640510014595 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 640510014596 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 640510014597 dimer interface [polypeptide binding]; other site 640510014598 Citrate synthase; Region: Citrate_synt; pfam00285 640510014599 active site 640510014600 citrylCoA binding site [chemical binding]; other site 640510014601 NADH binding [chemical binding]; other site 640510014602 cationic pore residues; other site 640510014603 oxalacetate/citrate binding site [chemical binding]; other site 640510014604 coenzyme A binding site [chemical binding]; other site 640510014605 catalytic triad [active] 640510014606 Cupin domain; Region: Cupin_2; cl09118 640510014607 Helix-turn-helix domain; Region: HTH_18; pfam12833 640510014608 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510014609 Protein of unknown function (DUF1479); Region: DUF1479; pfam07350 640510014610 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 640510014611 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 640510014612 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 640510014613 substrate binding site [chemical binding]; other site 640510014614 ligand binding site [chemical binding]; other site 640510014615 Entericidin EcnA/B family; Region: Entericidin; cl02322 640510014616 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 640510014617 substrate binding site [chemical binding]; other site 640510014618 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 640510014619 tartrate dehydrogenase; Provisional; Region: PRK08194 640510014620 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 640510014621 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510014622 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 640510014623 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 640510014624 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 640510014625 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 640510014626 dimerization interface 3.5A [polypeptide binding]; other site 640510014627 active site 640510014628 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 640510014629 active site 640510014630 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 640510014631 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 640510014632 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510014633 catalytic residue [active] 640510014634 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 640510014635 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 640510014636 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 640510014637 substrate binding site [chemical binding]; other site 640510014638 active site 640510014639 catalytic residues [active] 640510014640 heterodimer interface [polypeptide binding]; other site 640510014641 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 640510014642 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 640510014643 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 640510014644 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 640510014645 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 640510014646 Sporulation related domain; Region: SPOR; cl10051 640510014647 Colicin V production protein; Region: Colicin_V; cl00567 640510014648 amidophosphoribosyltransferase; Provisional; Region: PRK09246 640510014649 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 640510014650 active site 640510014651 tetramer interface [polypeptide binding]; other site 640510014652 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 640510014653 active site 640510014654 Cupin domain; Region: Cupin_2; cl09118 640510014655 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510014656 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640510014657 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510014658 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 640510014659 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640510014660 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 640510014661 dimer interface [polypeptide binding]; other site 640510014662 phosphorylation site [posttranslational modification] 640510014663 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 640510014664 Domain of unknown function DUF21; Region: DUF21; pfam01595 640510014665 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 640510014666 Transporter associated domain; Region: CorC_HlyC; cl08393 640510014667 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 640510014668 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 640510014669 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 640510014670 active site 640510014671 catalytic site [active] 640510014672 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 640510014673 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 640510014674 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 640510014675 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 640510014676 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 640510014677 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 640510014678 catalytic site [active] 640510014679 active site 640510014680 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 640510014681 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 640510014682 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 640510014683 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 640510014684 active site 640510014685 catalytic site [active] 640510014686 glycogen branching enzyme; Provisional; Region: PRK05402 640510014687 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 640510014688 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 640510014689 active site 640510014690 catalytic site [active] 640510014691 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 640510014692 trehalose synthase; Region: treS_nterm; TIGR02456 640510014693 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 640510014694 active site 640510014695 catalytic site [active] 640510014696 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; cl01286 640510014697 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 640510014698 active site 640510014699 catalytic site [active] 640510014700 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 640510014701 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 640510014702 active site 640510014703 homodimer interface [polypeptide binding]; other site 640510014704 catalytic site [active] 640510014705 acceptor binding site [chemical binding]; other site 640510014706 Protein of unknown function (DUF1345); Region: DUF1345; cl01753 640510014707 PrpA and PrpB, metallophosphatase domain; Region: MPP_PrpA_PrpB; cd07424 640510014708 active site 640510014709 metal binding site [ion binding]; metal-binding site 640510014710 RES domain; Region: RES; cl02411 640510014711 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 640510014712 Helix-turn-helix domains; Region: HTH; cl00088 640510014713 The 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 640510014714 dimerization interface [polypeptide binding]; other site 640510014715 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 640510014716 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 640510014717 Helix-turn-helix domains; Region: HTH; cl00088 640510014718 TOBE domain; Region: TOBE_2; cl01440 640510014719 TOBE domain; Region: TOBE_2; cl01440 640510014720 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510014721 thiamine ABC transporter, ATP-binding protein; Region: thiQ; TIGR01277 640510014722 Walker A/P-loop; other site 640510014723 ATP binding site [chemical binding]; other site 640510014724 Q-loop/lid; other site 640510014725 ABC transporter signature motif; other site 640510014726 Walker B; other site 640510014727 D-loop; other site 640510014728 H-loop/switch region; other site 640510014729 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 640510014730 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 640510014731 The 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 640510014732 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 640510014733 active site 640510014734 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 640510014735 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 640510014736 Protein of unknown function (DUF3563); Region: DUF3563; pfam12086 640510014737 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 640510014738 DNA photolyase; Region: DNA_photolyase; pfam00875 640510014739 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 640510014740 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 640510014741 Phosphotransferase enzyme family; Region: APH; pfam01636 640510014742 putative active site [active] 640510014743 putative substrate binding site [chemical binding]; other site 640510014744 ATP binding site [chemical binding]; other site 640510014745 AMP nucleosidase; Provisional; Region: PRK08292 640510014746 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 640510014747 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 640510014748 Chromate transporter; Region: Chromate_transp; pfam02417 640510014749 Chromate transporter; Region: Chromate_transp; pfam02417 640510014750 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640510014751 Helix-turn-helix domains; Region: HTH; cl00088 640510014752 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 640510014753 dimerization interface [polypeptide binding]; other site 640510014754 substrate binding pocket [chemical binding]; other site 640510014755 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 640510014756 DNA polymerase I; Provisional; Region: PRK05755 640510014757 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 640510014758 active site 640510014759 metal binding site 1 [ion binding]; metal-binding site 640510014760 putative 5' ssDNA interaction site; other site 640510014761 metal binding site 3; metal-binding site 640510014762 metal binding site 2 [ion binding]; metal-binding site 640510014763 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 640510014764 putative DNA binding site [nucleotide binding]; other site 640510014765 putative metal binding site [ion binding]; other site 640510014766 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 640510014767 active site 640510014768 catalytic site [active] 640510014769 substrate binding site [chemical binding]; other site 640510014770 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 640510014771 active site 640510014772 DNA binding site [nucleotide binding] 640510014773 catalytic site [active] 640510014774 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 640510014775 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640510014776 Dienelactone hydrolase family; Region: DLH; pfam01738 640510014777 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 640510014778 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 640510014779 active site residue [active] 640510014780 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 640510014781 active site residue [active] 640510014782 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 640510014783 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 640510014784 [2Fe-2S] cluster binding site [ion binding]; other site 640510014785 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 640510014786 alpha subunit interface [polypeptide binding]; other site 640510014787 active site 640510014788 substrate binding site [chemical binding]; other site 640510014789 Fe binding site [ion binding]; other site 640510014790 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 640510014791 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 640510014792 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 640510014793 substrate binding pocket [chemical binding]; other site 640510014794 chain length determination region; other site 640510014795 substrate-Mg2+ binding site; other site 640510014796 catalytic residues [active] 640510014797 aspartate-rich region 1; other site 640510014798 active site lid residues [active] 640510014799 aspartate-rich region 2; other site 640510014800 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 640510014801 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 640510014802 TPP-binding site; other site 640510014803 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 640510014804 PYR/PP interface [polypeptide binding]; other site 640510014805 dimer interface [polypeptide binding]; other site 640510014806 TPP binding site [chemical binding]; other site 640510014807 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 640510014808 Type I GTP cyclohydrolase folE2; Region: GCHY-1; cl00642 640510014809 UGMP family protein; Validated; Region: PRK09604 640510014810 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 640510014811 HI0933-like protein; Region: HI0933_like; pfam03486 640510014812 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510014813 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 640510014814 GatB domain; Region: GatB_Yqey; cl11497 640510014815 DNA primase; Validated; Region: dnaG; PRK05667 640510014816 CHC2 zinc finger; Region: zf-CHC2; cl15369 640510014817 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 640510014818 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 640510014819 active site 640510014820 metal binding site [ion binding]; metal-binding site 640510014821 interdomain interaction site; other site 640510014822 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 640510014823 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; cl07879 640510014824 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 640510014825 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 640510014826 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 640510014827 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 640510014828 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640510014829 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 640510014830 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 640510014831 DNA binding residues [nucleotide binding] 640510014832 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 640510014833 Helix-turn-helix domains; Region: HTH; cl00088 640510014834 The C-terminal substrate binding domain of LysR-type transcriptional activator of the nhaA gene, encoding Na+/H+ antiporter, contains the type 2 periplasmic binding fold; Region: PBP2_NhaR; cd08429 640510014835 putative dimerization interface [polypeptide binding]; other site 640510014836 Tim44-like domain; Region: Tim44; cl09208 640510014837 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 640510014838 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 640510014839 substrate binding pocket [chemical binding]; other site 640510014840 membrane-bound complex binding site; other site 640510014841 hinge residues; other site 640510014842 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640510014843 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510014844 dimer interface [polypeptide binding]; other site 640510014845 conserved gate region; other site 640510014846 ABC-ATPase subunit interface; other site 640510014847 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510014848 dimer interface [polypeptide binding]; other site 640510014849 conserved gate region; other site 640510014850 putative PBP binding loops; other site 640510014851 ABC-ATPase subunit interface; other site 640510014852 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 640510014853 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 640510014854 Walker A/P-loop; other site 640510014855 ATP binding site [chemical binding]; other site 640510014856 Q-loop/lid; other site 640510014857 ABC transporter signature motif; other site 640510014858 Walker B; other site 640510014859 D-loop; other site 640510014860 H-loop/switch region; other site 640510014861 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640510014862 Helix-turn-helix domains; Region: HTH; cl00088 640510014863 Bacterial transcriptional regulator; Region: IclR; pfam01614 640510014864 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 640510014865 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640510014866 Coenzyme A binding pocket [chemical binding]; other site 640510014867 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 640510014868 Protein of unknown function (DUF1255); Region: DUF1255; cl01202 640510014869 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 640510014870 Asp-box motif; other site 640510014871 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 640510014872 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 640510014873 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 640510014874 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510014875 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 640510014876 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 640510014877 SdhC subunit interface [polypeptide binding]; other site 640510014878 proximal heme binding site [chemical binding]; other site 640510014879 cardiolipin binding site; other site 640510014880 Iron-sulfur protein interface; other site 640510014881 proximal quinone binding site [chemical binding]; other site 640510014882 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 640510014883 Iron-sulfur protein interface; other site 640510014884 proximal quinone binding site [chemical binding]; other site 640510014885 SdhD (CybS) interface [polypeptide binding]; other site 640510014886 proximal heme binding site [chemical binding]; other site 640510014887 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 640510014888 Helix-turn-helix domains; Region: HTH; cl00088 640510014889 The C-terminal substrate binding domain of LysR-type transcrptional regulator BudR, which is responsible for activation of the expression of the butanediol operon genes; contains the type 2 periplasmic binding fold; Region: PBP2_BudR; cd08451 640510014890 putative dimerization interface [polypeptide binding]; other site 640510014891 putative substrate binding pocket [chemical binding]; other site 640510014892 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 640510014893 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 640510014894 dimer interface [polypeptide binding]; other site 640510014895 Trp docking motif [polypeptide binding]; other site 640510014896 active site 640510014897 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 640510014898 membrane-bound complex binding site; other site 640510014899 hinge residues; other site 640510014900 Cytochrome c; Region: Cytochrom_C; cl11414 640510014901 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 640510014902 PqqA family; Region: PqqA; cl15372 640510014903 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 640510014904 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 640510014905 Walker A motif; other site 640510014906 ATP binding site [chemical binding]; other site 640510014907 Walker B motif; other site 640510014908 arginine finger; other site 640510014909 Helix-turn-helix domains; Region: HTH; cl00088 640510014910 Protein of unknown function (DUF2964); Region: DUF2964; pfam11177 640510014911 Protein of unknown function (DUF3564); Region: DUF3564; pfam12087 640510014912 Cytochrome c; Region: Cytochrom_C; cl11414 640510014913 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 640510014914 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 640510014915 ligand binding site [chemical binding]; other site 640510014916 flexible hinge region; other site 640510014917 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 640510014918 putative switch regulator; other site 640510014919 non-specific DNA interactions [nucleotide binding]; other site 640510014920 DNA binding site [nucleotide binding] 640510014921 sequence specific DNA binding site [nucleotide binding]; other site 640510014922 putative cAMP binding site [chemical binding]; other site 640510014923 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640510014924 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510014925 active site 640510014926 phosphorylation site [posttranslational modification] 640510014927 intermolecular recognition site; other site 640510014928 dimerization interface [polypeptide binding]; other site 640510014929 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 640510014930 DNA binding residues [nucleotide binding] 640510014931 dimerization interface [polypeptide binding]; other site 640510014932 PAS domain S-box; Region: sensory_box; TIGR00229 640510014933 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 640510014934 putative active site [active] 640510014935 heme pocket [chemical binding]; other site 640510014936 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 640510014937 Histidine kinase; Region: HisKA_3; pfam07730 640510014938 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510014939 ATP binding site [chemical binding]; other site 640510014940 Mg2+ binding site [ion binding]; other site 640510014941 G-X-G motif; other site 640510014942 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 640510014943 Ligand Binding Site [chemical binding]; other site 640510014944 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 640510014945 Ligand Binding Site [chemical binding]; other site 640510014946 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 640510014947 Ligand Binding Site [chemical binding]; other site 640510014948 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 640510014949 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 640510014950 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 640510014951 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 640510014952 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510014953 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 640510014954 Ligand Binding Site [chemical binding]; other site 640510014955 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 640510014956 putative FMN binding site [chemical binding]; other site 640510014957 NADPH bind site [chemical binding]; other site 640510014958 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 640510014959 hypothetical protein; Provisional; Region: PRK07877 640510014960 FMN binding site [chemical binding]; other site 640510014961 dimer interface [polypeptide binding]; other site 640510014962 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 640510014963 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 640510014964 Beta-Casp domain; Region: Beta-Casp; cl12567 640510014965 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 640510014966 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 640510014967 alpha-crystallin domain (ACD) found in alpha-crystallin-type small heat shock proteins, and a similar domain found in p23 (a cochaperone for Hsp90) and in other p23-like proteins; Region: alpha-crystallin-Hsps_p23-like; cl00175 640510014968 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 640510014969 BON domain; Region: BON; cl02771 640510014970 BON domain; Region: BON; cl02771 640510014971 BON domain; Region: BON; cl02771 640510014972 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 640510014973 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 640510014974 NAD binding site [chemical binding]; other site 640510014975 substrate binding site [chemical binding]; other site 640510014976 catalytic Zn binding site [ion binding]; other site 640510014977 tetramer interface [polypeptide binding]; other site 640510014978 structural Zn binding site [ion binding]; other site 640510014979 FOG: CBS domain [General function prediction only]; Region: COG0517 640510014980 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 640510014981 BON domain; Region: BON; cl02771 640510014982 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 640510014983 Ligand Binding Site [chemical binding]; other site 640510014984 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 640510014985 Ligand Binding Site [chemical binding]; other site 640510014986 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 640510014987 N-terminal plug; other site 640510014988 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 640510014989 ligand-binding site [chemical binding]; other site 640510014990 CsbD-like; Region: CsbD; cl15799 640510014991 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640510014992 Helix-turn-helix domains; Region: HTH; cl00088 640510014993 Bacterial transcriptional regulator; Region: IclR; pfam01614 640510014994 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 640510014995 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 640510014996 active site 640510014997 catalytic tetrad [active] 640510014998 hypothetical protein; Provisional; Region: PRK07482 640510014999 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 640510015000 inhibitor-cofactor binding pocket; inhibition site 640510015001 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510015002 catalytic residue [active] 640510015003 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510015004 FAD dependent oxidoreductase; Region: DAO; pfam01266 640510015005 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 640510015006 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 640510015007 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 640510015008 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 640510015009 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 640510015010 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 640510015011 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510015012 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640510015013 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510015014 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640510015015 putative substrate translocation pore; other site 640510015016 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 640510015017 Protein of unknown function (DUF917); Region: DUF917; pfam06032 640510015018 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 640510015019 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 640510015020 Walker A motif; other site 640510015021 ATP binding site [chemical binding]; other site 640510015022 Walker B motif; other site 640510015023 arginine finger; other site 640510015024 Helix-turn-helix domains; Region: HTH; cl00088 640510015025 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 640510015026 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 640510015027 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640510015028 Helix-turn-helix domains; Region: HTH; cl00088 640510015029 The C-terminal substrate binding domain of LysR-type transcriptional regulators GcdR-like, contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_like; cd08481 640510015030 dimerization interface [polypeptide binding]; other site 640510015031 substrate binding pocket [chemical binding]; other site 640510015032 Domain of unknown function (DUF1338); Region: DUF1338; cl02226 640510015033 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 640510015034 FAD binding domain; Region: FAD_binding_4; pfam01565 640510015035 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 640510015036 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640510015037 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 640510015038 tetrameric interface [polypeptide binding]; other site 640510015039 NAD binding site [chemical binding]; other site 640510015040 catalytic residues [active] 640510015041 FAD dependent oxidoreductase; Region: DAO; pfam01266 640510015042 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510015043 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 640510015044 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 640510015045 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510015046 homodimer interface [polypeptide binding]; other site 640510015047 catalytic residue [active] 640510015048 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640510015049 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640510015050 DNA binding site [nucleotide binding] 640510015051 domain linker motif; other site 640510015052 This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR_like_1; cd06273 640510015053 putative ligand binding site [chemical binding]; other site 640510015054 putative dimerization interface [polypeptide binding]; other site 640510015055 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 640510015056 inhibitor site; inhibition site 640510015057 active site 640510015058 dimer interface [polypeptide binding]; other site 640510015059 catalytic residue [active] 640510015060 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510015061 D-galactonate transporter; Region: 2A0114; TIGR00893 640510015062 putative substrate translocation pore; other site 640510015063 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 640510015064 eyelet of channel; other site 640510015065 trimer interface [polypeptide binding]; other site 640510015066 Cache domain; Region: Cache_2; cl07034 640510015067 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 640510015068 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640510015069 dimer interface [polypeptide binding]; other site 640510015070 putative CheW interface [polypeptide binding]; other site 640510015071 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 640510015072 DNA-binding site [nucleotide binding]; DNA binding site 640510015073 RNA-binding motif; other site 640510015074 LysE type translocator; Region: LysE; cl00565 640510015075 DNA-binding protein H-NS [General function prediction only]; Region: Hns; COG2916 640510015076 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 640510015077 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 640510015078 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 640510015079 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 640510015080 heterodimer interface [polypeptide binding]; other site 640510015081 active site 640510015082 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 640510015083 heterodimer interface [polypeptide binding]; other site 640510015084 multimer interface [polypeptide binding]; other site 640510015085 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 640510015086 active site 640510015087 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 640510015088 Helix-turn-helix domains; Region: HTH; cl00088 640510015089 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 640510015090 putative dimerization interface [polypeptide binding]; other site 640510015091 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 640510015092 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 640510015093 dimer interface [polypeptide binding]; other site 640510015094 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 640510015095 active site 640510015096 Fe binding site [ion binding]; other site 640510015097 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 640510015098 non-specific DNA binding site [nucleotide binding]; other site 640510015099 salt bridge; other site 640510015100 sequence-specific DNA binding site [nucleotide binding]; other site 640510015101 Cupin domain; Region: Cupin_2; cl09118 640510015102 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 640510015103 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640510015104 dimer interface [polypeptide binding]; other site 640510015105 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 640510015106 putative CheW interface [polypeptide binding]; other site 640510015107 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 640510015108 hydrophobic ligand binding site; other site 640510015109 hypothetical protein; Provisional; Region: PRK11281 640510015110 Cache domain; Region: Cache_1; pfam02743 640510015111 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 640510015112 dimerization interface [polypeptide binding]; other site 640510015113 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 640510015114 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640510015115 dimer interface [polypeptide binding]; other site 640510015116 putative CheW interface [polypeptide binding]; other site 640510015117 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640510015118 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 640510015119 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 640510015120 active site 640510015121 catalytic residues [active] 640510015122 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 640510015123 putative dimerization interface [polypeptide binding]; other site 640510015124 putative ligand binding site [chemical binding]; other site 640510015125 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640510015126 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510015127 L-rhamnose isomerase (RhaA); Region: RhaA; cl09945 640510015128 D-xylose transporter subunit XylF; Provisional; Region: xylF; PRK10355 640510015129 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 640510015130 putative ligand binding site [chemical binding]; other site 640510015131 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 640510015132 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 640510015133 Walker A/P-loop; other site 640510015134 ATP binding site [chemical binding]; other site 640510015135 Q-loop/lid; other site 640510015136 ABC transporter signature motif; other site 640510015137 Walker B; other site 640510015138 D-loop; other site 640510015139 H-loop/switch region; other site 640510015140 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 640510015141 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 640510015142 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 640510015143 TM-ABC transporter signature motif; other site 640510015144 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 640510015145 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 640510015146 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640510015147 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640510015148 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 640510015149 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 640510015150 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 640510015151 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640510015152 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 640510015153 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 640510015154 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 640510015155 Protein of unknown function (DUF1656); Region: DUF1656; cl11658 640510015156 Fusaric acid resistance protein family; Region: FUSC; pfam04632 640510015157 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 640510015158 Helix-turn-helix domains; Region: HTH; cl00088 640510015159 DNA topoisomerase 2; Provisional; Region: PLN03237 640510015160 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 640510015161 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 640510015162 dimer interface [polypeptide binding]; other site 640510015163 phosphorylation site [posttranslational modification] 640510015164 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510015165 ATP binding site [chemical binding]; other site 640510015166 Mg2+ binding site [ion binding]; other site 640510015167 G-X-G motif; other site 640510015168 Response regulator receiver domain; Region: Response_reg; pfam00072 640510015169 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510015170 active site 640510015171 phosphorylation site [posttranslational modification] 640510015172 intermolecular recognition site; other site 640510015173 dimerization interface [polypeptide binding]; other site 640510015174 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]; Region: RAD55; COG0467 640510015175 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510015176 Walker A motif; other site 640510015177 ATP binding site [chemical binding]; other site 640510015178 Walker B motif; other site 640510015179 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510015180 hypothetical protein; Provisional; Region: PRK04328 640510015181 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510015182 Walker A motif; other site 640510015183 Walker A motif; other site 640510015184 ATP binding site [chemical binding]; other site 640510015185 ATP binding site [chemical binding]; other site 640510015186 Walker B motif; other site 640510015187 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 640510015188 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 640510015189 Probable cobalt transporter subunit (CbtA); Region: CbtA; cl02266 640510015190 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 640510015191 Uncharacterized protein conserved in bacteria (DUF2138); Region: DUF2138; cl01916 640510015192 Protein of unknown function (DUF1175); Region: DUF1175; cl14898 640510015193 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 640510015194 MG2 domain; Region: A2M_N; pfam01835 640510015195 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 640510015196 Alpha-2-macroglobulin family; Region: A2M; pfam00207 640510015197 Alpha-macro-globulin thiol-ester bond-forming region; Region: Thiol-ester_cl; pfam10569 640510015198 Predicted secreted protein [Function unknown]; Region: COG5445 640510015199 Predicted secreted protein (DUF2300); Region: DUF2300; pfam10062 640510015200 Stage II sporulation protein; Region: SpoIID; pfam08486 640510015201 Predicted secreted protein (DUF2300); Region: DUF2300; pfam10062 640510015202 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4676 640510015203 Uncharacterized protein conserved in bacteria (DUF2135); Region: DUF2135; pfam09906 640510015204 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4676 640510015205 Uncharacterized protein conserved in bacteria (DUF2135); Region: DUF2135; pfam09906 640510015206 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 640510015207 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 640510015208 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 640510015209 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 640510015210 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640510015211 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 640510015212 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 640510015213 DNA binding residues [nucleotide binding] 640510015214 Transcriptional regulators [Transcription]; Region: FadR; COG2186 640510015215 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510015216 DNA-binding site [nucleotide binding]; DNA binding site 640510015217 FCD domain; Region: FCD; cl11656 640510015218 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 640510015219 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 640510015220 putative ligand binding site [chemical binding]; other site 640510015221 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 640510015222 TM-ABC transporter signature motif; other site 640510015223 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 640510015224 TM-ABC transporter signature motif; other site 640510015225 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 640510015226 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 640510015227 Walker A/P-loop; other site 640510015228 ATP binding site [chemical binding]; other site 640510015229 Q-loop/lid; other site 640510015230 ABC transporter signature motif; other site 640510015231 Walker B; other site 640510015232 D-loop; other site 640510015233 H-loop/switch region; other site 640510015234 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 640510015235 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 640510015236 Walker A/P-loop; other site 640510015237 ATP binding site [chemical binding]; other site 640510015238 Q-loop/lid; other site 640510015239 ABC transporter signature motif; other site 640510015240 Walker B; other site 640510015241 D-loop; other site 640510015242 H-loop/switch region; other site 640510015243 allantoate amidohydrolase; Reviewed; Region: PRK12893 640510015244 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 640510015245 active site 640510015246 metal binding site [ion binding]; metal-binding site 640510015247 dimer interface [polypeptide binding]; other site 640510015248 Uncharacterized conserved protein [Function unknown]; Region: COG5476 640510015249 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 640510015250 MlrC C-terminus; Region: MlrC_C; pfam07171 640510015251 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 640510015252 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 640510015253 active site 640510015254 benzoate transport; Region: 2A0115; TIGR00895 640510015255 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510015256 putative substrate translocation pore; other site 640510015257 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 640510015258 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510015259 DNA-binding site [nucleotide binding]; DNA binding site 640510015260 UTRA domain; Region: UTRA; cl01230 640510015261 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640510015262 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510015263 putative substrate translocation pore; other site 640510015264 Predicted permeases [General function prediction only]; Region: COG0701 640510015265 Predicted permease; Region: DUF318; pfam03773 640510015266 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 640510015267 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 640510015268 active site residue [active] 640510015269 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510015270 selenophosphate synthetase; Provisional; Region: PRK00943 640510015271 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 640510015272 dimerization interface [polypeptide binding]; other site 640510015273 putative ATP binding site [chemical binding]; other site 640510015274 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 640510015275 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 640510015276 PYR/PP interface [polypeptide binding]; other site 640510015277 dimer interface [polypeptide binding]; other site 640510015278 TPP binding site [chemical binding]; other site 640510015279 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 640510015280 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 640510015281 TPP-binding site [chemical binding]; other site 640510015282 dimer interface [polypeptide binding]; other site 640510015283 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510015284 D-galactonate transporter; Region: 2A0114; TIGR00893 640510015285 putative substrate translocation pore; other site 640510015286 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640510015287 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510015288 NAD(P) binding site [chemical binding]; other site 640510015289 active site 640510015290 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640510015291 Helix-turn-helix domains; Region: HTH; cl00088 640510015292 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 640510015293 dimerization interface [polypeptide binding]; other site 640510015294 substrate binding pocket [chemical binding]; other site 640510015295 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 640510015296 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510015297 Walker A/P-loop; other site 640510015298 ATP binding site [chemical binding]; other site 640510015299 Q-loop/lid; other site 640510015300 ABC transporter signature motif; other site 640510015301 Walker B; other site 640510015302 D-loop; other site 640510015303 H-loop/switch region; other site 640510015304 Protein of unknown function (DUF3005); Region: DUF3005; pfam11448 640510015305 TadE-like protein; Region: TadE; cl10688 640510015306 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 640510015307 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 640510015308 TadE-like protein; Region: TadE; cl10688 640510015309 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 640510015310 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 640510015311 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 640510015312 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 640510015313 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 640510015314 ATP binding site [chemical binding]; other site 640510015315 Walker A motif; other site 640510015316 hexamer interface [polypeptide binding]; other site 640510015317 Walker B motif; other site 640510015318 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 640510015319 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 640510015320 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510015321 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 640510015322 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 640510015323 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 640510015324 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 640510015325 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 640510015326 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510015327 Walker A motif; other site 640510015328 ATP binding site [chemical binding]; other site 640510015329 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 640510015330 Flp/Fap pilin component; Region: Flp_Fap; cl01585 640510015331 Flp/Fap pilin component; Region: Flp_Fap; cl01585 640510015332 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640510015333 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 640510015334 tetramerization interface [polypeptide binding]; other site 640510015335 NAD(P) binding site [chemical binding]; other site 640510015336 catalytic residues [active] 640510015337 benzoate transport; Region: 2A0115; TIGR00895 640510015338 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510015339 putative substrate translocation pore; other site 640510015340 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510015341 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_7; cd06910 640510015342 putative active site [active] 640510015343 Zn binding site [ion binding]; other site 640510015344 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 640510015345 tartrate dehydrogenase; Provisional; Region: PRK08194 640510015346 transcriptional activator TtdR; Provisional; Region: PRK09801 640510015347 Helix-turn-helix domains; Region: HTH; cl00088 640510015348 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 640510015349 putative effector binding pocket; other site 640510015350 putative dimerization interface [polypeptide binding]; other site 640510015351 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 640510015352 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 640510015353 putative DNA binding site [nucleotide binding]; other site 640510015354 putative Zn2+ binding site [ion binding]; other site 640510015355 AsnC family; Region: AsnC_trans_reg; pfam01037 640510015356 hypothetical protein; Provisional; Region: PRK05965 640510015357 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 640510015358 inhibitor-cofactor binding pocket; inhibition site 640510015359 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510015360 catalytic residue [active] 640510015361 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 640510015362 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510015363 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 640510015364 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640510015365 Coenzyme A binding pocket [chemical binding]; other site 640510015366 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640510015367 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 640510015368 NAD(P) binding site [chemical binding]; other site 640510015369 catalytic residues [active] 640510015370 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 640510015371 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 640510015372 motif II; other site 640510015373 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510015374 FAD dependent oxidoreductase; Region: DAO; pfam01266 640510015375 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 640510015376 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 640510015377 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510015378 dimer interface [polypeptide binding]; other site 640510015379 conserved gate region; other site 640510015380 putative PBP binding loops; other site 640510015381 ABC-ATPase subunit interface; other site 640510015382 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 640510015383 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510015384 dimer interface [polypeptide binding]; other site 640510015385 conserved gate region; other site 640510015386 ABC-ATPase subunit interface; other site 640510015387 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 640510015388 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 640510015389 Walker A/P-loop; other site 640510015390 ATP binding site [chemical binding]; other site 640510015391 Q-loop/lid; other site 640510015392 ABC transporter signature motif; other site 640510015393 Walker B; other site 640510015394 D-loop; other site 640510015395 H-loop/switch region; other site 640510015396 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 640510015397 Walker A/P-loop; other site 640510015398 ATP binding site [chemical binding]; other site 640510015399 Q-loop/lid; other site 640510015400 ABC transporter signature motif; other site 640510015401 Walker B; other site 640510015402 D-loop; other site 640510015403 H-loop/switch region; other site 640510015404 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640510015405 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 640510015406 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 640510015407 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510015408 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 640510015409 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510015410 FAD dependent oxidoreductase; Region: DAO; pfam01266 640510015411 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 640510015412 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510015413 Propionate catabolism activator; Region: PrpR_N; pfam06506 640510015414 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 640510015415 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 640510015416 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 640510015417 Walker A motif; other site 640510015418 ATP binding site [chemical binding]; other site 640510015419 Walker B motif; other site 640510015420 arginine finger; other site 640510015421 Helix-turn-helix domains; Region: HTH; cl00088 640510015422 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 640510015423 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 640510015424 dimer interface [polypeptide binding]; other site 640510015425 active site 640510015426 citrylCoA binding site [chemical binding]; other site 640510015427 oxalacetate/citrate binding site [chemical binding]; other site 640510015428 coenzyme A binding site [chemical binding]; other site 640510015429 catalytic triad [active] 640510015430 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 640510015431 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 640510015432 substrate binding site [chemical binding]; other site 640510015433 ligand binding site [chemical binding]; other site 640510015434 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 640510015435 substrate binding site [chemical binding]; other site 640510015436 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 640510015437 PrpF protein; Region: PrpF; pfam04303 640510015438 Domain of unknown function (DUF305); Region: DUF305; cl15795 640510015439 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 640510015440 metal-binding site [ion binding] 640510015441 Tetratricopeptide repeat; Region: TPR_16; pfam13432 640510015442 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 640510015443 binding surface 640510015444 TPR motif; other site 640510015445 TPR repeat; Region: TPR_11; pfam13414 640510015446 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 640510015447 binding surface 640510015448 TPR motif; other site 640510015449 ADP-heptose:LPS heptosyltransferase II; Provisional; Region: PRK10916; cl15782 640510015450 GDP-fucose protein O-fucosyltransferase and related proteins; Region: O-FucT_like; cl16914 640510015451 GDP-Fucose binding site [chemical binding]; other site 640510015452 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 640510015453 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 640510015454 putative NAD(P) binding site [chemical binding]; other site 640510015455 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 640510015456 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510015457 Walker A/P-loop; other site 640510015458 ATP binding site [chemical binding]; other site 640510015459 Q-loop/lid; other site 640510015460 ABC transporter signature motif; other site 640510015461 Walker B; other site 640510015462 D-loop; other site 640510015463 H-loop/switch region; other site 640510015464 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 640510015465 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 640510015466 Walker A motif; other site 640510015467 ATP binding site [chemical binding]; other site 640510015468 Walker B motif; other site 640510015469 arginine finger; other site 640510015470 Peptidase family M41; Region: Peptidase_M41; pfam01434 640510015471 OpgC protein; Region: OpgC_C; cl00792 640510015472 Acyltransferase family; Region: Acyl_transf_3; pfam01757 640510015473 OpgC protein; Region: OpgC_C; cl00792 640510015474 Tannase and feruloyl esterase; Region: Tannase; pfam07519 640510015475 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 640510015476 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 640510015477 Walker A/P-loop; other site 640510015478 ATP binding site [chemical binding]; other site 640510015479 Q-loop/lid; other site 640510015480 ABC transporter signature motif; other site 640510015481 Walker B; other site 640510015482 D-loop; other site 640510015483 H-loop/switch region; other site 640510015484 ABC-2 type transporter; Region: ABC2_membrane; cl11417 640510015485 Autoinducer binding domain; Region: Autoind_bind; pfam03472 640510015486 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 640510015487 DNA binding residues [nucleotide binding] 640510015488 dimerization interface [polypeptide binding]; other site 640510015489 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 640510015490 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510015491 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510015492 Cyclophilin-like; Region: Cyclophil_like; cl00950 640510015493 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 640510015494 YadA-like C-terminal region; Region: YadA; pfam03895 640510015495 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 640510015496 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510015497 shikimate transporter; Provisional; Region: PRK09952 640510015498 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510015499 putative substrate translocation pore; other site 640510015500 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510015501 DNA-binding site [nucleotide binding]; DNA binding site 640510015502 FCD domain; Region: FCD; cl11656 640510015503 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 640510015504 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 640510015505 PYR/PP interface [polypeptide binding]; other site 640510015506 dimer interface [polypeptide binding]; other site 640510015507 TPP binding site [chemical binding]; other site 640510015508 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 640510015509 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 640510015510 TPP-binding site; other site 640510015511 dimer interface [polypeptide binding]; other site 640510015512 formyl-coenzyme A transferase; Provisional; Region: PRK05398 640510015513 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640510015514 ATP-grasp domain; Region: ATP-grasp_4; cl03087 640510015515 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 640510015516 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510015517 CoA-ligase; Region: Ligase_CoA; cl02894 640510015518 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 640510015519 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 640510015520 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510015521 Helix-turn-helix domains; Region: HTH; cl00088 640510015522 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 640510015523 putative dimerization interface [polypeptide binding]; other site 640510015524 oxalate/formate antiporter; Region: oxa_formateAnti; TIGR04259 640510015525 Helix-turn-helix domains; Region: HTH; cl00088 640510015526 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 640510015527 putative dimerization interface [polypeptide binding]; other site 640510015528 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640510015529 Pseudomonas fluorescens 4-hydroxymuconic semialdehyde dehydrogenase-like; Region: ALDH_HMSADH_HapE; cd07115 640510015530 NAD(P) binding site [chemical binding]; other site 640510015531 catalytic residues [active] 640510015532 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 640510015533 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510015534 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 640510015535 LysE type translocator; Region: LysE; cl00565 640510015536 Uncharacterized conserved protein [Function unknown]; Region: COG1739 640510015537 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 640510015538 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 640510015539 LysE type translocator; Region: LysE; cl00565 640510015540 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 640510015541 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 640510015542 putative catalytic residue [active] 640510015543 Protein of unknown function (DUF2866); Region: DUF2866; pfam11065 640510015544 GAF domain; Region: GAF; cl15785 640510015545 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640510015546 metal binding site [ion binding]; metal-binding site 640510015547 active site 640510015548 I-site; other site 640510015549 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 640510015550 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 640510015551 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 640510015552 Cache domain; Region: Cache_2; cl07034 640510015553 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 640510015554 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 640510015555 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640510015556 dimer interface [polypeptide binding]; other site 640510015557 putative CheW interface [polypeptide binding]; other site 640510015558 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 640510015559 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 640510015560 tetramer interface [polypeptide binding]; other site 640510015561 active site 640510015562 Mg2+/Mn2+ binding site [ion binding]; other site 640510015563 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 640510015564 active site 640510015565 metal-binding site 640510015566 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 640510015567 phosphonopyruvate decarboxylase; Region: Ppyr-DeCO2ase; TIGR03297 640510015568 PYR/PP interface [polypeptide binding]; other site 640510015569 dimer interface [polypeptide binding]; other site 640510015570 TPP binding site [chemical binding]; other site 640510015571 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 640510015572 TPP-binding site; other site 640510015573 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 640510015574 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 640510015575 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640510015576 catalytic residue [active] 640510015577 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 640510015578 Domain of unknown function (DUF4130; Region: DUF4130; cl14836 640510015579 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 640510015580 Fe-S cluster binding site [ion binding]; other site 640510015581 active site 640510015582 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 640510015583 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 640510015584 Ligand binding site; other site 640510015585 metal-binding site 640510015586 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 640510015587 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 640510015588 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640510015589 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 640510015590 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 640510015591 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 640510015592 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 640510015593 3HB-oligomer hydrolase (3HBOH); Region: 3HBOH; pfam10605 640510015594 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 640510015595 putative catalytic site [active] 640510015596 putative phosphate binding site [ion binding]; other site 640510015597 active site 640510015598 metal binding site A [ion binding]; metal-binding site 640510015599 DNA binding site [nucleotide binding] 640510015600 putative AP binding site [nucleotide binding]; other site 640510015601 putative metal binding site B [ion binding]; other site 640510015602 flagellar motor protein MotB; Validated; Region: motB; PRK09041 640510015603 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 640510015604 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640510015605 ligand binding site [chemical binding]; other site 640510015606 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 640510015607 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 640510015608 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; cl12088 640510015609 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 640510015610 NodB motif; other site 640510015611 active site 640510015612 catalytic site [active] 640510015613 metal binding site [ion binding]; metal-binding site 640510015614 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 640510015615 classical (c) SDRs; Region: SDR_c; cd05233 640510015616 NAD(P) binding site [chemical binding]; other site 640510015617 active site 640510015618 Oxidoreductase-like protein, N-terminal; Region: Oxidored-like; pfam09791 640510015619 NAD-dependent deacetylase; Provisional; Region: PRK05333 640510015620 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 640510015621 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 640510015622 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510015623 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 640510015624 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 640510015625 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640510015626 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 640510015627 Cupin domain; Region: Cupin_2; cl09118 640510015628 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 640510015629 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 640510015630 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 640510015631 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 640510015632 tetramer interface [polypeptide binding]; other site 640510015633 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510015634 catalytic residue [active] 640510015635 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510015636 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510015637 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 640510015638 homodimer interface [polypeptide binding]; other site 640510015639 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 640510015640 active site pocket [active] 640510015641 cell density-dependent motility repressor; Provisional; Region: PRK10082 640510015642 Helix-turn-helix domains; Region: HTH; cl00088 640510015643 The 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 640510015644 dimerization interface [polypeptide binding]; other site 640510015645 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 640510015646 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 640510015647 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 640510015648 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 640510015649 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 640510015650 Helix-turn-helix domains; Region: HTH; cl00088 640510015651 The 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 640510015652 dimerization interface [polypeptide binding]; other site 640510015653 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 640510015654 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510015655 Walker A/P-loop; other site 640510015656 ATP binding site [chemical binding]; other site 640510015657 Q-loop/lid; other site 640510015658 ABC transporter signature motif; other site 640510015659 Walker B; other site 640510015660 D-loop; other site 640510015661 H-loop/switch region; other site 640510015662 TOBE domain; Region: TOBE_2; cl01440 640510015663 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 640510015664 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 640510015665 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510015666 FAD dependent oxidoreductase; Region: DAO; pfam01266 640510015667 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510015668 dimer interface [polypeptide binding]; other site 640510015669 conserved gate region; other site 640510015670 putative PBP binding loops; other site 640510015671 ABC-ATPase subunit interface; other site 640510015672 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 640510015673 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510015674 dimer interface [polypeptide binding]; other site 640510015675 conserved gate region; other site 640510015676 putative PBP binding loops; other site 640510015677 ABC-ATPase subunit interface; other site 640510015678 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 640510015679 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640510015680 NAD binding site [chemical binding]; other site 640510015681 catalytic residues [active] 640510015682 choline dehydrogenase; Region: betA; TIGR01810 640510015683 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 640510015684 The 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 640510015685 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 640510015686 RNA polymerase sigma factor; Provisional; Region: PRK11922 640510015687 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 640510015688 DNA binding residues [nucleotide binding] 640510015689 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 640510015690 Domain of unknown function (DUF305); Region: DUF305; cl15795 640510015691 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 640510015692 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510015693 putative substrate translocation pore; other site 640510015694 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 640510015695 tartrate dehydrogenase; Provisional; Region: PRK08194 640510015696 Helix-turn-helix domains; Region: HTH; cl00088 640510015697 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 640510015698 putative effector binding pocket; other site 640510015699 putative dimerization interface [polypeptide binding]; other site 640510015700 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640510015701 C-20 methyltransferase BchU; Region: C20_methyl_CrtF; TIGR02716 640510015702 O-methyltransferase; Region: Methyltransf_2; pfam00891 640510015703 sensor protein QseC; Provisional; Region: PRK10337 640510015704 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 640510015705 dimer interface [polypeptide binding]; other site 640510015706 phosphorylation site [posttranslational modification] 640510015707 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510015708 Mg2+ binding site [ion binding]; other site 640510015709 G-X-G motif; other site 640510015710 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 640510015711 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510015712 active site 640510015713 phosphorylation site [posttranslational modification] 640510015714 intermolecular recognition site; other site 640510015715 dimerization interface [polypeptide binding]; other site 640510015716 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 640510015717 DNA binding site [nucleotide binding] 640510015718 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640510015719 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4705 640510015720 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 640510015721 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 640510015722 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 640510015723 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 640510015724 trimer interface [polypeptide binding]; other site 640510015725 eyelet of channel; other site 640510015726 NMT1-like family; Region: NMT1_2; cl15260 640510015727 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 640510015728 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 640510015729 active site 640510015730 Zn binding site [ion binding]; other site 640510015731 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional; Region: PRK15010 640510015732 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 640510015733 substrate binding pocket [chemical binding]; other site 640510015734 membrane-bound complex binding site; other site 640510015735 hinge residues; other site 640510015736 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 640510015737 The 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 640510015738 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 640510015739 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640510015740 metal binding site [ion binding]; metal-binding site 640510015741 active site 640510015742 I-site; other site 640510015743 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510015744 Guanylate kinase; Region: Guanylate_kin; pfam00625 640510015745 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 640510015746 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 640510015747 metal binding site [ion binding]; metal-binding site 640510015748 putative dimer interface [polypeptide binding]; other site 640510015749 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 640510015750 Helix-turn-helix domains; Region: HTH; cl00088 640510015751 Bacterial transcriptional regulator; Region: IclR; pfam01614 640510015752 Transcriptional regulators [Transcription]; Region: FadR; COG2186 640510015753 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510015754 DNA-binding site [nucleotide binding]; DNA binding site 640510015755 FCD domain; Region: FCD; cl11656 640510015756 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 640510015757 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510015758 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 640510015759 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 640510015760 intersubunit interface [polypeptide binding]; other site 640510015761 active site 640510015762 Zn2+ binding site [ion binding]; other site 640510015763 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 640510015764 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510015765 putative substrate translocation pore; other site 640510015766 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 640510015767 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 640510015768 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 640510015769 putative NAD(P) binding site [chemical binding]; other site 640510015770 active site 640510015771 putative substrate binding site [chemical binding]; other site 640510015772 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 640510015773 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 640510015774 dimer interface [polypeptide binding]; other site 640510015775 active site 640510015776 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 640510015777 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 640510015778 dimer interface [polypeptide binding]; other site 640510015779 phosphorylation site [posttranslational modification] 640510015780 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510015781 ATP binding site [chemical binding]; other site 640510015782 Mg2+ binding site [ion binding]; other site 640510015783 G-X-G motif; other site 640510015784 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510015785 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 640510015786 putative effector binding pocket; other site 640510015787 putative dimerization interface [polypeptide binding]; other site 640510015788 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 640510015789 active site 640510015790 catalytic tetrad [active] 640510015791 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510015792 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 640510015793 putative substrate binding pocket [chemical binding]; other site 640510015794 putative dimerization interface [polypeptide binding]; other site 640510015795 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 640510015796 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 640510015797 Putative esterase; Region: Esterase; pfam00756 640510015798 aspartate carbamoyltransferase; Provisional; Region: PRK11891 640510015799 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 640510015800 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510015801 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 640510015802 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 640510015803 dimer interface [polypeptide binding]; other site 640510015804 active site 640510015805 catalytic residue [active] 640510015806 Peptidase family M23; Region: Peptidase_M23; pfam01551 640510015807 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 640510015808 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 640510015809 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 640510015810 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640510015811 metal binding site [ion binding]; metal-binding site 640510015812 active site 640510015813 I-site; other site 640510015814 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 640510015815 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; cl00988 640510015816 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 640510015817 active site residue [active] 640510015818 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 640510015819 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 640510015820 conserved cys residue [active] 640510015821 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; cl12088 640510015822 Sulfate transporter family; Region: Sulfate_transp; cl15842 640510015823 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 640510015824 Sulfate transporter family; Region: Sulfate_transp; cl15842 640510015825 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 640510015826 LysE type translocator; Region: LysE; cl00565 640510015827 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510015828 Helix-turn-helix domains; Region: HTH; cl00088 640510015829 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 640510015830 putative dimerization interface [polypeptide binding]; other site 640510015831 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 640510015832 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640510015833 putative metal binding site [ion binding]; other site 640510015834 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 640510015835 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 640510015836 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 640510015837 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 640510015838 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640510015839 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 640510015840 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510015841 active site 640510015842 phosphorylation site [posttranslational modification] 640510015843 intermolecular recognition site; other site 640510015844 dimerization interface [polypeptide binding]; other site 640510015845 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 640510015846 DNA binding site [nucleotide binding] 640510015847 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 640510015848 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 640510015849 dimer interface [polypeptide binding]; other site 640510015850 phosphorylation site [posttranslational modification] 640510015851 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510015852 ATP binding site [chemical binding]; other site 640510015853 Mg2+ binding site [ion binding]; other site 640510015854 G-X-G motif; other site 640510015855 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 640510015856 active site 640510015857 DNA polymerase IV; Validated; Region: PRK02406 640510015858 DNA binding site [nucleotide binding] 640510015859 YceI-like domain; Region: YceI; cl01001 640510015860 YceI-like domain; Region: YceI; cl01001 640510015861 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 640510015862 transmembrane helices; other site 640510015863 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 640510015864 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640510015865 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 640510015866 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 640510015867 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 640510015868 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 640510015869 osmolarity response regulator; Provisional; Region: ompR; PRK09468 640510015870 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510015871 active site 640510015872 phosphorylation site [posttranslational modification] 640510015873 intermolecular recognition site; other site 640510015874 dimerization interface [polypeptide binding]; other site 640510015875 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 640510015876 DNA binding site [nucleotide binding] 640510015877 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 640510015878 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 640510015879 dimerization interface [polypeptide binding]; other site 640510015880 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 640510015881 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510015882 ATP binding site [chemical binding]; other site 640510015883 Mg2+ binding site [ion binding]; other site 640510015884 G-X-G motif; other site 640510015885 PAS fold; Region: PAS_4; pfam08448 640510015886 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 640510015887 PAS fold; Region: PAS_3; pfam08447 640510015888 putative active site [active] 640510015889 heme pocket [chemical binding]; other site 640510015890 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 640510015891 dimer interface [polypeptide binding]; other site 640510015892 phosphorylation site [posttranslational modification] 640510015893 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510015894 ATP binding site [chemical binding]; other site 640510015895 G-X-G motif; other site 640510015896 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 640510015897 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510015898 active site 640510015899 phosphorylation site [posttranslational modification] 640510015900 intermolecular recognition site; other site 640510015901 dimerization interface [polypeptide binding]; other site 640510015902 Response regulator receiver domain; Region: Response_reg; pfam00072 640510015903 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510015904 active site 640510015905 phosphorylation site [posttranslational modification] 640510015906 intermolecular recognition site; other site 640510015907 dimerization interface [polypeptide binding]; other site 640510015908 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; cl12088 640510015909 cellulose synthase subunit BcsC; Provisional; Region: PRK11447 640510015910 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 640510015911 binding surface 640510015912 TPR motif; other site 640510015913 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 640510015914 TPR motif; other site 640510015915 binding surface 640510015916 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 640510015917 TPR motif; other site 640510015918 binding surface 640510015919 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 640510015920 TPR motif; other site 640510015921 binding surface 640510015922 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 640510015923 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 640510015924 Bacterial cellulose synthase subunit; Region: BcsB; cl15851 640510015925 cellulose synthase catalytic subunit; Provisional; Region: bcsA; PRK11498 640510015926 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 640510015927 DXD motif; other site 640510015928 PilZ domain; Region: PilZ; cl01260 640510015929 cellulose synthase operon protein YhjQ; Region: cellulose_yhjQ; TIGR03371 640510015930 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 640510015931 P-loop; other site 640510015932 Magnesium ion binding site [ion binding]; other site 640510015933 Cellulose synthase subunit D; Region: Cellsynth_D; pfam03500 640510015934 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640510015935 metal binding site [ion binding]; metal-binding site 640510015936 active site 640510015937 I-site; other site 640510015938 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 640510015939 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 640510015940 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 640510015941 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 640510015942 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 640510015943 putative substrate binding pocket [chemical binding]; other site 640510015944 trimer interface [polypeptide binding]; other site 640510015945 The Class III extradiol dioxygenase, homoprotocatechuate 2,3-dioxygenase, catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate; Region: HPCD; cd07370 640510015946 putative active site [active] 640510015947 putative metal binding site [ion binding]; other site 640510015948 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640510015949 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 640510015950 NAD binding site [chemical binding]; other site 640510015951 catalytic residues [active] 640510015952 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 640510015953 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 640510015954 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 640510015955 Helix-turn-helix domains; Region: HTH; cl00088 640510015956 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640510015957 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510015958 metabolite-proton symporter; Region: 2A0106; TIGR00883 640510015959 putative substrate translocation pore; other site 640510015960 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 640510015961 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640510015962 tetrameric interface [polypeptide binding]; other site 640510015963 NAD binding site [chemical binding]; other site 640510015964 catalytic residues [active] 640510015965 H+ Antiporter protein; Region: 2A0121; TIGR00900 640510015966 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510015967 putative substrate translocation pore; other site 640510015968 Isochorismatase family; Region: Isochorismatase; pfam00857 640510015969 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 640510015970 catalytic triad [active] 640510015971 conserved cis-peptide bond; other site 640510015972 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640510015973 Helix-turn-helix domains; Region: HTH; cl00088 640510015974 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640510015975 metal binding site [ion binding]; metal-binding site 640510015976 active site 640510015977 I-site; other site 640510015978 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 640510015979 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 640510015980 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 640510015981 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 640510015982 N-terminal plug; other site 640510015983 ligand-binding site [chemical binding]; other site 640510015984 CsbD-like; Region: CsbD; cl15799 640510015985 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 640510015986 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 640510015987 NAD binding site [chemical binding]; other site 640510015988 catalytic Zn binding site [ion binding]; other site 640510015989 structural Zn binding site [ion binding]; other site 640510015990 DEAD-like helicases superfamily; Region: DEXDc; smart00487 640510015991 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 640510015992 ATP binding site [chemical binding]; other site 640510015993 putative Mg++ binding site [ion binding]; other site 640510015994 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 640510015995 nucleotide binding region [chemical binding]; other site 640510015996 ATP-binding site [chemical binding]; other site 640510015997 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 640510015998 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 640510015999 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 640510016000 NAD binding site [chemical binding]; other site 640510016001 putative substrate binding site 2 [chemical binding]; other site 640510016002 putative substrate binding site 1 [chemical binding]; other site 640510016003 active site 640510016004 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 640510016005 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 640510016006 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 640510016007 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 640510016008 putative active site [active] 640510016009 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 640510016010 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 640510016011 active site 640510016012 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 640510016013 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 640510016014 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 640510016015 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 640510016016 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 640510016017 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 640510016018 putative active site [active] 640510016019 D,D-heptose 1,7-bisphosphate phosphatase; Region: GmhB_yaeD; TIGR00213 640510016020 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 640510016021 active site 640510016022 motif I; other site 640510016023 motif II; other site 640510016024 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 640510016025 D-inositol-3-phosphate glycosyltransferase; Region: mycothiol_MshA; TIGR03449 640510016026 putative ADP-binding pocket [chemical binding]; other site 640510016027 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 640510016028 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 640510016029 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510016030 Walker A/P-loop; other site 640510016031 ATP binding site [chemical binding]; other site 640510016032 Q-loop/lid; other site 640510016033 ABC transporter signature motif; other site 640510016034 Walker B; other site 640510016035 Protein of unknown function (DUF1822); Region: DUF1822; pfam08852 640510016036 D-loop; other site 640510016037 H-loop/switch region; other site 640510016038 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510016039 active site 640510016040 phosphorylation site [posttranslational modification] 640510016041 intermolecular recognition site; other site 640510016042 dimerization interface [polypeptide binding]; other site 640510016043 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 640510016044 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 640510016045 active site 640510016046 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 640510016047 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 640510016048 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 640510016049 Phophatidylserine decarboxylase; Region: PSDC; pfam12588 640510016050 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 640510016051 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 640510016052 dimanganese center [ion binding]; other site 640510016053 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 640510016054 dimerization interface [polypeptide binding]; other site 640510016055 metal binding site [ion binding]; metal-binding site 640510016056 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 640510016057 nudix motif; other site 640510016058 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 640510016059 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 640510016060 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 640510016061 Trp docking motif [polypeptide binding]; other site 640510016062 putative active site [active] 640510016063 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 640510016064 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 640510016065 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 640510016066 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 640510016067 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 640510016068 putative molybdopterin cofactor binding site [chemical binding]; other site 640510016069 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 640510016070 putative molybdopterin cofactor binding site; other site 640510016071 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 640510016072 NAD synthetase; Reviewed; Region: nadE; PRK02628 640510016073 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 640510016074 multimer interface [polypeptide binding]; other site 640510016075 active site 640510016076 catalytic triad [active] 640510016077 protein interface 1 [polypeptide binding]; other site 640510016078 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 640510016079 homodimer interface [polypeptide binding]; other site 640510016080 NAD binding pocket [chemical binding]; other site 640510016081 ATP binding pocket [chemical binding]; other site 640510016082 Mg binding site [ion binding]; other site 640510016083 active-site loop [active] 640510016084 Competence-damaged protein; Region: CinA; cl00666 640510016085 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 640510016086 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640510016087 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640510016088 Cytochrome c; Region: Cytochrom_C; cl11414 640510016089 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; cl09173 640510016090 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 640510016091 Subunit I/III interface [polypeptide binding]; other site 640510016092 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 640510016093 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 640510016094 D-pathway; other site 640510016095 Putative ubiquinol binding site [chemical binding]; other site 640510016096 Low-spin heme (heme b) binding site [chemical binding]; other site 640510016097 Putative water exit pathway; other site 640510016098 Binuclear center (heme o3/CuB) [ion binding]; other site 640510016099 K-pathway; other site 640510016100 Putative proton exit pathway; other site 640510016101 Cytochrome c oxidase subunit IV; Region: Cyt_c_ox_IV; pfam12270 640510016102 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 640510016103 Cytochrome c; Region: Cytochrom_C; cl11414 640510016104 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 640510016105 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 640510016106 putative active site [active] 640510016107 heme pocket [chemical binding]; other site 640510016108 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 640510016109 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 640510016110 putative active site [active] 640510016111 heme pocket [chemical binding]; other site 640510016112 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 640510016113 dimer interface [polypeptide binding]; other site 640510016114 phosphorylation site [posttranslational modification] 640510016115 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510016116 ATP binding site [chemical binding]; other site 640510016117 Mg2+ binding site [ion binding]; other site 640510016118 G-X-G motif; other site 640510016119 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 640510016120 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510016121 active site 640510016122 phosphorylation site [posttranslational modification] 640510016123 intermolecular recognition site; other site 640510016124 dimerization interface [polypeptide binding]; other site 640510016125 Response regulator receiver domain; Region: Response_reg; pfam00072 640510016126 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510016127 active site 640510016128 phosphorylation site [posttranslational modification] 640510016129 intermolecular recognition site; other site 640510016130 dimerization interface [polypeptide binding]; other site 640510016131 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 640510016132 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 640510016133 putative dimer interface [polypeptide binding]; other site 640510016134 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 640510016135 putative dimer interface [polypeptide binding]; other site 640510016136 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 640510016137 putative ADP-binding pocket [chemical binding]; other site 640510016138 Domain of unknown function (DUF305); Region: DUF305; cl15795 640510016139 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 640510016140 Putative ParB-like nuclease; Region: ParBc_2; pfam08857 640510016141 Low affinity iron permease; Region: Iron_permease; cl12096 640510016142 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 640510016143 GAF domain; Region: GAF_2; pfam13185 640510016144 GAF domain; Region: GAF; cl15785 640510016145 PAS fold; Region: PAS_3; pfam08447 640510016146 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 640510016147 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 640510016148 dimer interface [polypeptide binding]; other site 640510016149 phosphorylation site [posttranslational modification] 640510016150 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510016151 ATP binding site [chemical binding]; other site 640510016152 Mg2+ binding site [ion binding]; other site 640510016153 G-X-G motif; other site 640510016154 Response regulator receiver domain; Region: Response_reg; pfam00072 640510016155 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510016156 active site 640510016157 phosphorylation site [posttranslational modification] 640510016158 intermolecular recognition site; other site 640510016159 dimerization interface [polypeptide binding]; other site 640510016160 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 640510016161 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 640510016162 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 640510016163 FMN binding site [chemical binding]; other site 640510016164 active site 640510016165 substrate binding site [chemical binding]; other site 640510016166 catalytic residue [active] 640510016167 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 640510016168 putative DNA binding site [nucleotide binding]; other site 640510016169 dimerization interface [polypeptide binding]; other site 640510016170 putative Zn2+ binding site [ion binding]; other site 640510016171 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 640510016172 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510016173 PAS domain S-box; Region: sensory_box; TIGR00229 640510016174 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 640510016175 putative active site [active] 640510016176 heme pocket [chemical binding]; other site 640510016177 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 640510016178 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 640510016179 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 640510016180 NAD(P) binding site [chemical binding]; other site 640510016181 RNA polymerase sigma factor; Reviewed; Region: PRK05602 640510016182 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640510016183 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 640510016184 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4102 640510016185 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 640510016186 Helix-Turn-Helix DNA binding domain of the transcription regulators NolA and AlbR; Region: HTH_NolA-AlbR; cd04788 640510016187 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 640510016188 DNA binding residues [nucleotide binding] 640510016189 putative dimer interface [polypeptide binding]; other site 640510016190 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 640510016191 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 640510016192 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 640510016193 trimer interface [polypeptide binding]; other site 640510016194 eyelet of channel; other site 640510016195 Cupin domain; Region: Cupin_2; cl09118 640510016196 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 640510016197 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640510016198 catalytic residue [active] 640510016199 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510016200 metabolite-proton symporter; Region: 2A0106; TIGR00883 640510016201 putative substrate translocation pore; other site 640510016202 hypothetical protein; Provisional; Region: PRK07079 640510016203 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_2; cd05679 640510016204 metal binding site [ion binding]; metal-binding site 640510016205 putative dimer interface [polypeptide binding]; other site 640510016206 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510016207 Helix-turn-helix domains; Region: HTH; cl00088 640510016208 The 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 640510016209 dimerization interface [polypeptide binding]; other site 640510016210 Dehydratase family; Region: ILVD_EDD; cl00340 640510016211 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 640510016212 hypothetical protein; Validated; Region: PRK06201 640510016213 D-galactonate transporter; Region: 2A0114; TIGR00893 640510016214 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510016215 putative substrate translocation pore; other site 640510016216 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640510016217 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640510016218 DNA binding site [nucleotide binding] 640510016219 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 640510016220 putative ligand binding site [chemical binding]; other site 640510016221 putative dimerization interface [polypeptide binding]; other site 640510016222 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 640510016223 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 640510016224 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 640510016225 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 640510016226 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 640510016227 D-pathway; other site 640510016228 Putative ubiquinol binding site [chemical binding]; other site 640510016229 Low-spin heme (heme b) binding site [chemical binding]; other site 640510016230 Putative water exit pathway; other site 640510016231 Binuclear center (heme o3/CuB) [ion binding]; other site 640510016232 K-pathway; other site 640510016233 Putative proton exit pathway; other site 640510016234 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 640510016235 Subunit I/III interface [polypeptide binding]; other site 640510016236 Subunit III/IV interface [polypeptide binding]; other site 640510016237 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 640510016238 ATP-grasp domain; Region: ATP-grasp_4; cl03087 640510016239 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640510016240 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 640510016241 conserved cys residue [active] 640510016242 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510016243 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510016244 tyrosine kinase; Provisional; Region: PRK11519 640510016245 Chain length determinant protein; Region: Wzz; cl15801 640510016246 Chain length determinant protein; Region: Wzz; cl15801 640510016247 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510016248 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510016249 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640510016250 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 640510016251 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 640510016252 active site 640510016253 MatE; Region: MatE; cl10513 640510016254 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640510016255 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 640510016256 putative ADP-binding pocket [chemical binding]; other site 640510016257 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 640510016258 O-Antigen ligase; Region: Wzy_C; cl04850 640510016259 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 640510016260 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 640510016261 Substrate binding site; other site 640510016262 Cupin domain; Region: Cupin_2; cl09118 640510016263 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 640510016264 Bacterial sugar transferase; Region: Bac_transf; cl00939 640510016265 Sugar-transfer associated ATP-grasp; Region: ATPgrasp_ST; pfam14397 640510016266 Phasin protein; Region: Phasin_2; cl11491 640510016267 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 640510016268 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640510016269 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 640510016270 ABC-2 type transporter; Region: ABC2_membrane; cl11417 640510016271 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 640510016272 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 640510016273 Walker A/P-loop; other site 640510016274 ATP binding site [chemical binding]; other site 640510016275 Q-loop/lid; other site 640510016276 ABC transporter signature motif; other site 640510016277 Walker B; other site 640510016278 D-loop; other site 640510016279 H-loop/switch region; other site 640510016280 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 640510016281 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 640510016282 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 640510016283 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640510016284 Helix-turn-helix domains; Region: HTH; cl00088 640510016285 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 640510016286 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 640510016287 intersubunit interface [polypeptide binding]; other site 640510016288 active site 640510016289 Zn2+ binding site [ion binding]; other site 640510016290 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 640510016291 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 640510016292 motif II; other site 640510016293 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510016294 Helix-turn-helix domains; Region: HTH; cl00088 640510016295 The 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 640510016296 dimerization interface [polypeptide binding]; other site 640510016297 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 640510016298 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 640510016299 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 640510016300 Helix-turn-helix domains; Region: HTH; cl00088 640510016301 Protein of unknown function (DUF330); Region: DUF330; cl01135 640510016302 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 640510016303 mce related protein; Region: MCE; pfam02470 640510016304 mce related protein; Region: MCE; pfam02470 640510016305 mce related protein; Region: MCE; pfam02470 640510016306 Paraquat-inducible protein A; Region: PqiA; pfam04403 640510016307 Paraquat-inducible protein A; Region: PqiA; pfam04403 640510016308 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 640510016309 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 640510016310 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 640510016311 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 640510016312 active site 640510016313 LssY C-terminus; Region: LssY_C; pfam14067 640510016314 OsmC-like protein; Region: OsmC; cl00767 640510016315 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 640510016316 Helix-turn-helix domains; Region: HTH; cl00088 640510016317 AsnC family; Region: AsnC_trans_reg; pfam01037 640510016318 LysE type translocator; Region: LysE; cl00565 640510016319 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 640510016320 Uncharacterized BCR, YnfA/UPF0060 family; Region: UPF0060; cl00757 640510016321 Domain of unknown function (DUF1993); Region: DUF1993; cl01567 640510016322 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cd11377 640510016323 peptidase domain interface [polypeptide binding]; other site 640510016324 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 640510016325 active site 640510016326 catalytic triad [active] 640510016327 calcium binding site [ion binding]; other site 640510016328 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 640510016329 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 640510016330 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 640510016331 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 640510016332 homodimer interface [polypeptide binding]; other site 640510016333 NAD binding pocket [chemical binding]; other site 640510016334 ATP binding pocket [chemical binding]; other site 640510016335 Mg binding site [ion binding]; other site 640510016336 active-site loop [active] 640510016337 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 640510016338 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 640510016339 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 640510016340 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 640510016341 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510016342 putative substrate translocation pore; other site 640510016343 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 640510016344 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640510016345 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 640510016346 active site 640510016347 catalytic residues [active] 640510016348 metal binding site [ion binding]; metal-binding site 640510016349 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 640510016350 Helix-turn-helix domains; Region: HTH; cl00088 640510016351 Bacterial transcriptional regulator; Region: IclR; pfam01614 640510016352 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 640510016353 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 640510016354 PAS domain S-box; Region: sensory_box; TIGR00229 640510016355 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 640510016356 putative active site [active] 640510016357 heme pocket [chemical binding]; other site 640510016358 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 640510016359 dimer interface [polypeptide binding]; other site 640510016360 phosphorylation site [posttranslational modification] 640510016361 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510016362 ATP binding site [chemical binding]; other site 640510016363 Mg2+ binding site [ion binding]; other site 640510016364 G-X-G motif; other site 640510016365 Response regulator receiver domain; Region: Response_reg; pfam00072 640510016366 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510016367 active site 640510016368 phosphorylation site [posttranslational modification] 640510016369 intermolecular recognition site; other site 640510016370 dimerization interface [polypeptide binding]; other site 640510016371 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 640510016372 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 640510016373 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 640510016374 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 640510016375 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 640510016376 protein binding site [polypeptide binding]; other site 640510016377 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 640510016378 protein binding site [polypeptide binding]; other site 640510016379 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640510016380 classical (c) SDRs; Region: SDR_c; cd05233 640510016381 NAD(P) binding site [chemical binding]; other site 640510016382 active site 640510016383 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 640510016384 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640510016385 catalytic residue [active] 640510016386 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 640510016387 BON domain; Region: BON; cl02771 640510016388 BON domain; Region: BON; cl02771 640510016389 BON domain; Region: BON; cl02771 640510016390 Lipocalin / cytosolic fatty-acid binding protein family; Region: Lipocalin; cl01150 640510016391 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 640510016392 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 640510016393 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510016394 AAA domain; Region: AAA_33; pfam13671 640510016395 active site 640510016396 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 640510016397 putative FMN binding site [chemical binding]; other site 640510016398 NADPH bind site [chemical binding]; other site 640510016399 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 640510016400 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 640510016401 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 640510016402 Cupin domain; Region: Cupin_2; cl09118 640510016403 OsmC-like protein; Region: OsmC; cl00767 640510016404 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510016405 Helix-turn-helix domains; Region: HTH; cl00088 640510016406 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 640510016407 putative effector binding pocket; other site 640510016408 dimerization interface [polypeptide binding]; other site 640510016409 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 640510016410 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 640510016411 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 640510016412 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 640510016413 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 640510016414 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 640510016415 Surface antigen; Region: Bac_surface_Ag; cl03097 640510016416 Organic solvent tolerance protein; Region: OstA_C; pfam04453 640510016417 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640510016418 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 640510016419 Protein of unknown function (DUF3182); Region: DUF3182; pfam11379 640510016420 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 640510016421 Helix-turn-helix domains; Region: HTH; cl00088 640510016422 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 640510016423 The 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 640510016424 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 640510016425 2-aminoethylphosphonate ABC transport system, ATP-binding component PhnT; Region: PhnT; TIGR03258 640510016426 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510016427 Walker A/P-loop; other site 640510016428 ATP binding site [chemical binding]; other site 640510016429 Q-loop/lid; other site 640510016430 ABC transporter signature motif; other site 640510016431 Walker B; other site 640510016432 D-loop; other site 640510016433 H-loop/switch region; other site 640510016434 TOBE domain; Region: TOBE_2; cl01440 640510016435 2-aminoethylphosphonate transport system permease PhnU; Provisional; Region: PRK15050 640510016436 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510016437 dimer interface [polypeptide binding]; other site 640510016438 conserved gate region; other site 640510016439 putative PBP binding loops; other site 640510016440 ABC-ATPase subunit interface; other site 640510016441 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 640510016442 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 640510016443 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510016444 DNA-binding site [nucleotide binding]; DNA binding site 640510016445 FCD domain; Region: FCD; cl11656 640510016446 Sulfatase; Region: Sulfatase; cl10460 640510016447 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640510016448 Streptomyces putative phosphonoformaldehyde dehydrogenase PhpJ-like; Region: ALDH_PhpJ; cd07146 640510016449 NAD(P) binding site [chemical binding]; other site 640510016450 catalytic residues [active] 640510016451 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 640510016452 Predicted phosphohydrolases [General function prediction only]; Region: COG1408 640510016453 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 640510016454 putative active site [active] 640510016455 putative metal binding site [ion binding]; other site 640510016456 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 640510016457 putative FMN binding site [chemical binding]; other site 640510016458 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 640510016459 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 640510016460 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640510016461 putative ligand binding site [chemical binding]; other site 640510016462 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 640510016463 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 640510016464 Walker A/P-loop; other site 640510016465 ATP binding site [chemical binding]; other site 640510016466 Q-loop/lid; other site 640510016467 ABC transporter signature motif; other site 640510016468 Walker B; other site 640510016469 D-loop; other site 640510016470 H-loop/switch region; other site 640510016471 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 640510016472 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 640510016473 TM-ABC transporter signature motif; other site 640510016474 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 640510016475 TM-ABC transporter signature motif; other site 640510016476 benzoate transport; Region: 2A0115; TIGR00895 640510016477 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510016478 putative substrate translocation pore; other site 640510016479 Protein of unknown function (DUF1445); Region: DUF1445; cl01790 640510016480 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510016481 Helix-turn-helix domains; Region: HTH; cl00088 640510016482 The 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 640510016483 dimerization interface [polypeptide binding]; other site 640510016484 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 640510016485 Acyl transferase domain; Region: Acyl_transf_1; cl08282 640510016486 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; cl07913 640510016487 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 640510016488 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 640510016489 Malonate decarboxylase delta subunit (MdcD); Region: ACP; cl06082 640510016490 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 640510016491 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 640510016492 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 640510016493 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 640510016494 Transcriptional regulators [Transcription]; Region: GntR; COG1802 640510016495 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510016496 DNA-binding site [nucleotide binding]; DNA binding site 640510016497 FCD domain; Region: FCD; cl11656 640510016498 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 640510016499 EamA-like transporter family; Region: EamA; cl01037 640510016500 EamA-like transporter family; Region: EamA; cl01037 640510016501 Helix-turn-helix domains; Region: HTH; cl00088 640510016502 The 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 640510016503 dimerization interface [polypeptide binding]; other site 640510016504 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 640510016505 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 640510016506 N-acetyltransferase; Region: Acetyltransf_2; cl00949 640510016507 Phospholipid methyltransferase; Region: PEMT; cl00763 640510016508 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 640510016509 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 640510016510 substrate binding pocket [chemical binding]; other site 640510016511 membrane-bound complex binding site; other site 640510016512 hinge residues; other site 640510016513 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510016514 dimer interface [polypeptide binding]; other site 640510016515 conserved gate region; other site 640510016516 putative PBP binding loops; other site 640510016517 ABC-ATPase subunit interface; other site 640510016518 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510016519 dimer interface [polypeptide binding]; other site 640510016520 conserved gate region; other site 640510016521 putative PBP binding loops; other site 640510016522 ABC-ATPase subunit interface; other site 640510016523 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 640510016524 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 640510016525 Walker A/P-loop; other site 640510016526 ATP binding site [chemical binding]; other site 640510016527 Q-loop/lid; other site 640510016528 ABC transporter signature motif; other site 640510016529 Walker B; other site 640510016530 D-loop; other site 640510016531 H-loop/switch region; other site 640510016532 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 640510016533 active sites [active] 640510016534 tetramer interface [polypeptide binding]; other site 640510016535 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 640510016536 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510016537 DNA-binding site [nucleotide binding]; DNA binding site 640510016538 UTRA domain; Region: UTRA; cl01230 640510016539 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 640510016540 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510016541 DNA-binding site [nucleotide binding]; DNA binding site 640510016542 UTRA domain; Region: UTRA; cl01230 640510016543 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 640510016544 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 640510016545 Walker A/P-loop; other site 640510016546 ATP binding site [chemical binding]; other site 640510016547 Q-loop/lid; other site 640510016548 ABC transporter signature motif; other site 640510016549 Walker B; other site 640510016550 D-loop; other site 640510016551 H-loop/switch region; other site 640510016552 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510016553 dimer interface [polypeptide binding]; other site 640510016554 conserved gate region; other site 640510016555 putative PBP binding loops; other site 640510016556 ABC-ATPase subunit interface; other site 640510016557 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640510016558 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510016559 dimer interface [polypeptide binding]; other site 640510016560 conserved gate region; other site 640510016561 putative PBP binding loops; other site 640510016562 ABC-ATPase subunit interface; other site 640510016563 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 640510016564 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 640510016565 substrate binding pocket [chemical binding]; other site 640510016566 membrane-bound complex binding site; other site 640510016567 hinge residues; other site 640510016568 oxidase reductase; Provisional; Region: PTZ00273 640510016569 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; cl14733 640510016570 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 640510016571 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 640510016572 FAD binding domain; Region: FAD_binding_4; pfam01565 640510016573 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 640510016574 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 640510016575 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 640510016576 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 640510016577 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 640510016578 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640510016579 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 640510016580 dimer interface [polypeptide binding]; other site 640510016581 phosphorylation site [posttranslational modification] 640510016582 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510016583 ATP binding site [chemical binding]; other site 640510016584 Mg2+ binding site [ion binding]; other site 640510016585 G-X-G motif; other site 640510016586 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 640510016587 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510016588 active site 640510016589 phosphorylation site [posttranslational modification] 640510016590 intermolecular recognition site; other site 640510016591 dimerization interface [polypeptide binding]; other site 640510016592 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640510016593 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510016594 active site 640510016595 phosphorylation site [posttranslational modification] 640510016596 intermolecular recognition site; other site 640510016597 dimerization interface [polypeptide binding]; other site 640510016598 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 640510016599 DNA binding residues [nucleotide binding] 640510016600 dimerization interface [polypeptide binding]; other site 640510016601 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 640510016602 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 640510016603 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 640510016604 extended (e) SDRs; Region: SDR_e; cd08946 640510016605 NAD(P) binding site [chemical binding]; other site 640510016606 active site 640510016607 substrate binding site [chemical binding]; other site 640510016608 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510016609 D-galactonate transporter; Region: 2A0114; TIGR00893 640510016610 putative substrate translocation pore; other site 640510016611 Dehydratase family; Region: ILVD_EDD; cl00340 640510016612 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 640510016613 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 640510016614 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510016615 tartronate semialdehyde reductase; Provisional; Region: PRK15059 640510016616 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 640510016617 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 640510016618 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640510016619 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 640510016620 dimer interface [polypeptide binding]; other site 640510016621 NADP binding site [chemical binding]; other site 640510016622 catalytic residues [active] 640510016623 Transcriptional regulators [Transcription]; Region: FadR; COG2186 640510016624 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510016625 DNA-binding site [nucleotide binding]; DNA binding site 640510016626 FCD domain; Region: FCD; cl11656 640510016627 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510016628 D-galactonate transporter; Region: 2A0114; TIGR00893 640510016629 putative substrate translocation pore; other site 640510016630 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510016631 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 640510016632 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 640510016633 putative active site [active] 640510016634 catalytic residue [active] 640510016635 galactarate dehydratase; Region: galactar-dH20; TIGR03248 640510016636 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 640510016637 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 640510016638 extended (e) SDRs; Region: SDR_e; cd08946 640510016639 NAD(P) binding site [chemical binding]; other site 640510016640 active site 640510016641 substrate binding site [chemical binding]; other site 640510016642 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 640510016643 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 640510016644 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 640510016645 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 640510016646 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 640510016647 DctM-like transporters; Region: DctM; pfam06808 640510016648 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 640510016649 trimer interface [polypeptide binding]; other site 640510016650 eyelet of channel; other site 640510016651 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 640510016652 active site 1 [active] 640510016653 dimer interface [polypeptide binding]; other site 640510016654 hexamer interface [polypeptide binding]; other site 640510016655 active site 2 [active] 640510016656 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 640510016657 intersubunit interface [polypeptide binding]; other site 640510016658 active site 640510016659 Zn2+ binding site [ion binding]; other site 640510016660 Urea transporter; Region: UT; cl01829 640510016661 Putative glycolipid-binding; Region: Glycolipid_bind; cl01425 640510016662 short chain dehydrogenase; Validated; Region: PRK05855 640510016663 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 640510016664 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 640510016665 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 640510016666 short chain dehydrogenase; Provisional; Region: PRK07832 640510016667 classical (c) SDRs; Region: SDR_c; cd05233 640510016668 NAD(P) binding site [chemical binding]; other site 640510016669 active site 640510016670 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 640510016671 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510016672 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg2; cd04778 640510016673 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 640510016674 DNA binding residues [nucleotide binding] 640510016675 putative dimer interface [polypeptide binding]; other site 640510016676 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 640510016677 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640510016678 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 640510016679 Coenzyme A binding pocket [chemical binding]; other site 640510016680 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 640510016681 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 640510016682 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510016683 DNA-binding site [nucleotide binding]; DNA binding site 640510016684 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 640510016685 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510016686 homodimer interface [polypeptide binding]; other site 640510016687 catalytic residue [active] 640510016688 NMT1-like family; Region: NMT1_2; cl15260 640510016689 Response regulator receiver domain; Region: Response_reg; pfam00072 640510016690 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510016691 active site 640510016692 phosphorylation site [posttranslational modification] 640510016693 intermolecular recognition site; other site 640510016694 dimerization interface [polypeptide binding]; other site 640510016695 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 640510016696 metal binding site 2 [ion binding]; metal-binding site 640510016697 putative DNA binding helix; other site 640510016698 metal binding site 1 [ion binding]; metal-binding site 640510016699 dimer interface [polypeptide binding]; other site 640510016700 structural Zn2+ binding site [ion binding]; other site 640510016701 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 640510016702 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 640510016703 putative C-terminal domain interface [polypeptide binding]; other site 640510016704 putative GSH binding site (G-site) [chemical binding]; other site 640510016705 putative dimer interface [polypeptide binding]; other site 640510016706 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 640510016707 putative N-terminal domain interface [polypeptide binding]; other site 640510016708 putative dimer interface [polypeptide binding]; other site 640510016709 putative substrate binding pocket (H-site) [chemical binding]; other site 640510016710 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3972 640510016711 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510016712 Family description; Region: UvrD_C_2; cl15862 640510016713 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 640510016714 active site 640510016715 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 640510016716 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 640510016717 dimer interface [polypeptide binding]; other site 640510016718 phosphorylation site [posttranslational modification] 640510016719 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510016720 ATP binding site [chemical binding]; other site 640510016721 Mg2+ binding site [ion binding]; other site 640510016722 G-X-G motif; other site 640510016723 Response regulator receiver domain; Region: Response_reg; pfam00072 640510016724 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510016725 active site 640510016726 phosphorylation site [posttranslational modification] 640510016727 intermolecular recognition site; other site 640510016728 dimerization interface [polypeptide binding]; other site 640510016729 BetR domain; Region: BetR; pfam08667 640510016730 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510016731 active site 640510016732 phosphorylation site [posttranslational modification] 640510016733 intermolecular recognition site; other site 640510016734 dimerization interface [polypeptide binding]; other site 640510016735 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640510016736 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510016737 Peptidase_C39 like family; Region: Peptidase_C39_2; pfam13529 640510016738 ornithine cyclodeaminase; Validated; Region: PRK07340 640510016739 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510016740 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 640510016741 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 640510016742 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 640510016743 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 640510016744 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522; cl01406 640510016745 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 640510016746 Type VI secretion lipoprotein; Region: T6SS-SciN; cl01405 640510016747 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 640510016748 TPR motif; other site 640510016749 binding surface 640510016750 Protein of unknown function (DUF770); Region: DUF770; cl01402 640510016751 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 640510016752 Protein of unknown function (DUF877); Region: DUF877; pfam05943 640510016753 Protein of unknown function (DUF796); Region: DUF796; cl01226 640510016754 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 640510016755 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 640510016756 Bacterial protein of unknown function (DUF879); Region: DUF879; cl15462 640510016757 Protein of unknown function (DUF1305); Region: DUF1305; cl01404 640510016758 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 640510016759 Clp amino terminal domain; Region: Clp_N; pfam02861 640510016760 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 640510016761 Walker A motif; other site 640510016762 ATP binding site [chemical binding]; other site 640510016763 Walker B motif; other site 640510016764 arginine finger; other site 640510016765 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 640510016766 Walker A motif; other site 640510016767 ATP binding site [chemical binding]; other site 640510016768 Walker B motif; other site 640510016769 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 640510016770 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 640510016771 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 640510016772 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 640510016773 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640510016774 ligand binding site [chemical binding]; other site 640510016775 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; cl01611 640510016776 Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]; Region: IcmF; COG3523 640510016777 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 640510016778 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 640510016779 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 640510016780 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 640510016781 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 640510016782 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 640510016783 active site 640510016784 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510016785 Helix-turn-helix domains; Region: HTH; cl00088 640510016786 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 640510016787 putative effector binding pocket; other site 640510016788 putative dimerization interface [polypeptide binding]; other site 640510016789 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 640510016790 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 640510016791 putative NAD(P) binding site [chemical binding]; other site 640510016792 putative substrate binding site [chemical binding]; other site 640510016793 catalytic Zn binding site [ion binding]; other site 640510016794 structural Zn binding site [ion binding]; other site 640510016795 dimer interface [polypeptide binding]; other site 640510016796 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 640510016797 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 640510016798 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510016799 PAS domain; Region: PAS_9; pfam13426 640510016800 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 640510016801 PAS domain; Region: PAS_9; pfam13426 640510016802 putative active site [active] 640510016803 heme pocket [chemical binding]; other site 640510016804 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640510016805 metal binding site [ion binding]; metal-binding site 640510016806 active site 640510016807 I-site; other site 640510016808 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 640510016809 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510016810 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 640510016811 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640510016812 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 640510016813 dimerization interface [polypeptide binding]; other site 640510016814 PAS domain S-box; Region: sensory_box; TIGR00229 640510016815 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 640510016816 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 640510016817 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 640510016818 Histidine kinase; Region: HisKA_3; pfam07730 640510016819 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510016820 ATP binding site [chemical binding]; other site 640510016821 Mg2+ binding site [ion binding]; other site 640510016822 G-X-G motif; other site 640510016823 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 640510016824 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 640510016825 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 640510016826 active site 640510016827 dimer interface [polypeptide binding]; other site 640510016828 effector binding site; other site 640510016829 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 640510016830 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 640510016831 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 640510016832 Predicted esterase [General function prediction only]; Region: COG0627 640510016833 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 640510016834 OpgC protein; Region: OpgC_C; cl00792 640510016835 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 640510016836 trimer interface [polypeptide binding]; other site 640510016837 eyelet of channel; other site 640510016838 Protein of unknown function (DUF3465); Region: DUF3465; pfam11948 640510016839 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 640510016840 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 640510016841 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640510016842 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 640510016843 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 640510016844 catalytic loop [active] 640510016845 iron binding site [ion binding]; other site 640510016846 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 640510016847 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 640510016848 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640510016849 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 640510016850 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640510016851 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640510016852 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640510016853 Cytochrome c; Region: Cytochrom_C; cl11414 640510016854 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640510016855 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510016856 dimer interface [polypeptide binding]; other site 640510016857 conserved gate region; other site 640510016858 putative PBP binding loops; other site 640510016859 ABC-ATPase subunit interface; other site 640510016860 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510016861 dimer interface [polypeptide binding]; other site 640510016862 conserved gate region; other site 640510016863 putative PBP binding loops; other site 640510016864 ABC-ATPase subunit interface; other site 640510016865 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 640510016866 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 640510016867 substrate binding pocket [chemical binding]; other site 640510016868 membrane-bound complex binding site; other site 640510016869 hinge residues; other site 640510016870 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein; Region: PhnT2; TIGR03265 640510016871 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510016872 Walker A/P-loop; other site 640510016873 ATP binding site [chemical binding]; other site 640510016874 Q-loop/lid; other site 640510016875 ABC transporter signature motif; other site 640510016876 Walker B; other site 640510016877 D-loop; other site 640510016878 H-loop/switch region; other site 640510016879 TOBE domain; Region: TOBE_2; cl01440 640510016880 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510016881 dimer interface [polypeptide binding]; other site 640510016882 conserved gate region; other site 640510016883 putative PBP binding loops; other site 640510016884 ABC-ATPase subunit interface; other site 640510016885 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 640510016886 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510016887 putative PBP binding loops; other site 640510016888 dimer interface [polypeptide binding]; other site 640510016889 ABC-ATPase subunit interface; other site 640510016890 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 640510016891 The 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 640510016892 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640510016893 Helix-turn-helix domains; Region: HTH; cl00088 640510016894 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 640510016895 substrate binding pocket [chemical binding]; other site 640510016896 dimerization interface [polypeptide binding]; other site 640510016897 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 640510016898 BON domain; Region: BON; cl02771 640510016899 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 640510016900 active site 640510016901 DNA binding site [nucleotide binding] 640510016902 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640510016903 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 640510016904 FOG: CBS domain [General function prediction only]; Region: COG0517 640510016905 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 640510016906 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 640510016907 dimerization interface [polypeptide binding]; other site 640510016908 active site 640510016909 HTH-like domain; Region: HTH_21; pfam13276 640510016910 Integrase core domain; Region: rve; cl01316 640510016911 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 640510016912 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510016913 Helix-turn-helix domains; Region: HTH; cl00088 640510016914 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 640510016915 putative effector binding pocket; other site 640510016916 putative dimerization interface [polypeptide binding]; other site 640510016917 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 640510016918 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 640510016919 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 640510016920 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 640510016921 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640510016922 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640510016923 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 640510016924 conserved cys residue [active] 640510016925 Helix-turn-helix domains; Region: HTH; cl00088 640510016926 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510016927 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 640510016928 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 640510016929 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 640510016930 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 640510016931 dimer interface [polypeptide binding]; other site 640510016932 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 640510016933 active site 640510016934 Fe binding site [ion binding]; other site 640510016935 Electron transfer flavoprotein domain; Region: ETF; pfam01012 640510016936 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 640510016937 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 640510016938 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 640510016939 Ligand binding site [chemical binding]; other site 640510016940 Electron transfer flavoprotein domain; Region: ETF; pfam01012 640510016941 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 640510016942 FAD binding domain; Region: FAD_binding_4; pfam01565 640510016943 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510016944 D-galactonate transporter; Region: 2A0114; TIGR00893 640510016945 putative substrate translocation pore; other site 640510016946 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510016947 Helix-turn-helix domains; Region: HTH; cl00088 640510016948 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 640510016949 putative dimerization interface [polypeptide binding]; other site 640510016950 Protein of unknown function (DUF3788); Region: DUF3788; pfam12663 640510016951 Protein of unknown function, DUF417; Region: DUF417; cl01162 640510016952 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 640510016953 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 640510016954 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 640510016955 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 640510016956 C-terminal domain interface [polypeptide binding]; other site 640510016957 GSH binding site (G-site) [chemical binding]; other site 640510016958 dimer interface [polypeptide binding]; other site 640510016959 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 640510016960 dimer interface [polypeptide binding]; other site 640510016961 N-terminal domain interface [polypeptide binding]; other site 640510016962 Uncharacterized conserved protein [Function unknown]; Region: COG2128 640510016963 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 640510016964 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 640510016965 dimer interface [polypeptide binding]; other site 640510016966 FMN binding site [chemical binding]; other site 640510016967 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640510016968 Cupin domain; Region: Cupin_2; cl09118 640510016969 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640510016970 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510016971 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 640510016972 classical (c) SDRs; Region: SDR_c; cd05233 640510016973 NAD(P) binding site [chemical binding]; other site 640510016974 active site 640510016975 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 640510016976 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 640510016977 dimer interface [polypeptide binding]; other site 640510016978 FMN binding site [chemical binding]; other site 640510016979 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 640510016980 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510016981 DNA-binding site [nucleotide binding]; DNA binding site 640510016982 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 640510016983 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510016984 homodimer interface [polypeptide binding]; other site 640510016985 catalytic residue [active] 640510016986 haemagglutination activity domain; Region: Haemagg_act; cl05436 640510016987 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 640510016988 Surface antigen; Region: Bac_surface_Ag; cl03097 640510016989 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 640510016990 PPIC-type PPIASE domain; Region: Rotamase; cl08278 640510016991 haemagglutination activity domain; Region: Haemagg_act; cl05436 640510016992 Protein of unknown function (DUF342); Region: DUF342; pfam03961 640510016993 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 640510016994 FAD dependent oxidoreductase; Region: DAO; pfam01266 640510016995 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 640510016996 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510016997 putative substrate translocation pore; other site 640510016998 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510016999 Helix-turn-helix domains; Region: HTH; cl00088 640510017000 The 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 640510017001 dimerization interface [polypeptide binding]; other site 640510017002 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640510017003 Helix-turn-helix domains; Region: HTH; cl00088 640510017004 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640510017005 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 640510017006 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 640510017007 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 640510017008 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 640510017009 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640510017010 Helix-turn-helix domains; Region: HTH; cl00088 640510017011 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 640510017012 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 640510017013 N-terminal domain of 2,4,5-trihydroxytoluene (THT) oxygenase; Region: THT_Oxygenase_N; cd07267 640510017014 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 640510017015 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640510017016 putative active site [active] 640510017017 putative metal binding site [ion binding]; other site 640510017018 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 640510017019 AMP-binding domain protein; Validated; Region: PRK07529 640510017020 AMP-binding enzyme; Region: AMP-binding; cl15778 640510017021 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 640510017022 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 640510017023 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 640510017024 molybdopterin cofactor binding site; other site 640510017025 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 640510017026 molybdopterin cofactor binding site; other site 640510017027 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 640510017028 The 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 640510017029 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 640510017030 homotrimer interaction site [polypeptide binding]; other site 640510017031 putative active site [active] 640510017032 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 640510017033 aldehyde reductase, extended (e) SDRs; Region: AR_SDR_e; cd05227 640510017034 NADP binding site [chemical binding]; other site 640510017035 putative substrate binding site [chemical binding]; other site 640510017036 active site 640510017037 Cupin domain; Region: Cupin_2; cl09118 640510017038 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 640510017039 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510017040 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640510017041 Helix-turn-helix domains; Region: HTH; cl00088 640510017042 Helix-turn-helix domains; Region: HTH; cl00088 640510017043 benzoate transport; Region: 2A0115; TIGR00895 640510017044 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510017045 putative substrate translocation pore; other site 640510017046 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510017047 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 640510017048 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 640510017049 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 640510017050 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640510017051 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 640510017052 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 640510017053 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640510017054 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640510017055 DoxX; Region: DoxX; cl00976 640510017056 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 640510017057 Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes; Region: MAR; cd08177 640510017058 active site 640510017059 dimer interface [polypeptide binding]; other site 640510017060 metal binding site [ion binding]; metal-binding site 640510017061 Stress responsive A/B Barrel Domain; Region: Dabb; cl15807 640510017062 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 640510017063 chlorocatechol 1,2-dioxygenase; Region: chlorocat_1_2; TIGR02465 640510017064 dimer interface [polypeptide binding]; other site 640510017065 active site 640510017066 Helix-turn-helix domains; Region: HTH; cl00088 640510017067 LysR family transcriptional regulator; Provisional; Region: PRK14997 640510017068 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 640510017069 putative effector binding pocket; other site 640510017070 dimerization interface [polypeptide binding]; other site 640510017071 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 640510017072 Helix-turn-helix domains; Region: HTH; cl00088 640510017073 The C-terminal substrate binding domain of LysR-type transcrptional regulator BudR, which is responsible for activation of the expression of the butanediol operon genes; contains the type 2 periplasmic binding fold; Region: PBP2_BudR; cd08451 640510017074 putative dimerization interface [polypeptide binding]; other site 640510017075 putative substrate binding pocket [chemical binding]; other site 640510017076 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510017077 metabolite-proton symporter; Region: 2A0106; TIGR00883 640510017078 putative substrate translocation pore; other site 640510017079 Tannase and feruloyl esterase; Region: Tannase; pfam07519 640510017080 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 640510017081 FtsX-like permease family; Region: FtsX; cl15850 640510017082 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 640510017083 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 640510017084 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 640510017085 Walker A/P-loop; other site 640510017086 ATP binding site [chemical binding]; other site 640510017087 Q-loop/lid; other site 640510017088 ABC transporter signature motif; other site 640510017089 Walker B; other site 640510017090 D-loop; other site 640510017091 H-loop/switch region; other site 640510017092 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 640510017093 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 640510017094 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510017095 NAD(P) binding site [chemical binding]; other site 640510017096 active site 640510017097 DNA-binding transcriptional activator DcuR; Provisional; Region: PRK10430 640510017098 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 640510017099 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 640510017100 Putative zinc-finger; Region: zf-HC2; cl15806 640510017101 RNA polymerase sigma factor; Provisional; Region: PRK12547 640510017102 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640510017103 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 640510017104 DNA binding residues [nucleotide binding] 640510017105 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 640510017106 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640510017107 FAD dependent oxidoreductase; Region: DAO; pfam01266 640510017108 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510017109 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 640510017110 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 640510017111 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 640510017112 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 640510017113 Helix-turn-helix domains; Region: HTH; cl00088 640510017114 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 640510017115 Uncharacterized conserved protein [Function unknown]; Region: COG4715 640510017116 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 640510017117 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 640510017118 ATP binding site [chemical binding]; other site 640510017119 putative Mg++ binding site [ion binding]; other site 640510017120 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 640510017121 nucleotide binding region [chemical binding]; other site 640510017122 ATP-binding site [chemical binding]; other site 640510017123 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 640510017124 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 640510017125 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 640510017126 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 640510017127 non-specific DNA binding site [nucleotide binding]; other site 640510017128 salt bridge; other site 640510017129 sequence-specific DNA binding site [nucleotide binding]; other site 640510017130 HipA N-terminal domain; Region: Couple_hipA; cl11853 640510017131 HipA-like N-terminal domain; Region: HipA_N; pfam07805 640510017132 HipA-like C-terminal domain; Region: HipA_C; pfam07804 640510017133 Transcriptional regulators [Transcription]; Region: GntR; COG1802 640510017134 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510017135 DNA-binding site [nucleotide binding]; DNA binding site 640510017136 FCD domain; Region: FCD; cl11656 640510017137 Amino acid synthesis; Region: AA_synth; pfam06684 640510017138 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 640510017139 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640510017140 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 640510017141 Flavin Reductases; Region: FlaRed; cl00801 640510017142 Luciferase-like monooxygenase; Region: Bac_luciferase; pfam00296 640510017143 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 640510017144 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640510017145 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 640510017146 NAD(P) binding site [chemical binding]; other site 640510017147 catalytic residues [active] 640510017148 NIPSNAP; Region: NIPSNAP; pfam07978 640510017149 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 640510017150 The 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 640510017151 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510017152 dimer interface [polypeptide binding]; other site 640510017153 conserved gate region; other site 640510017154 putative PBP binding loops; other site 640510017155 ABC-ATPase subunit interface; other site 640510017156 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 640510017157 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 640510017158 PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D. PotA has two domains with the N-terminal domain containing the ATPase activity and the residues required...; Region: ABC_PotA_N; cd03300 640510017159 Walker A/P-loop; other site 640510017160 ATP binding site [chemical binding]; other site 640510017161 Q-loop/lid; other site 640510017162 ABC transporter signature motif; other site 640510017163 Walker B; other site 640510017164 D-loop; other site 640510017165 H-loop/switch region; other site 640510017166 TOBE domain; Region: TOBE_2; cl01440 640510017167 Transcriptional regulators [Transcription]; Region: GntR; COG1802 640510017168 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510017169 DNA-binding site [nucleotide binding]; DNA binding site 640510017170 FCD domain; Region: FCD; cl11656 640510017171 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 640510017172 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510017173 active site 640510017174 phosphorylation site [posttranslational modification] 640510017175 intermolecular recognition site; other site 640510017176 dimerization interface [polypeptide binding]; other site 640510017177 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 640510017178 DNA binding site [nucleotide binding] 640510017179 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 640510017180 FecR protein; Region: FecR; pfam04773 640510017181 CHASE2 domain; Region: CHASE2; cl01732 640510017182 sensory histidine kinase AtoS; Provisional; Region: PRK11360 640510017183 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 640510017184 dimer interface [polypeptide binding]; other site 640510017185 phosphorylation site [posttranslational modification] 640510017186 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510017187 ATP binding site [chemical binding]; other site 640510017188 Mg2+ binding site [ion binding]; other site 640510017189 G-X-G motif; other site 640510017190 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 640510017191 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 640510017192 putative FMN binding site [chemical binding]; other site 640510017193 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 640510017194 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 640510017195 catalytic triad [active] 640510017196 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 640510017197 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 640510017198 homodimer interface [polypeptide binding]; other site 640510017199 Walker A motif; other site 640510017200 ATP binding site [chemical binding]; other site 640510017201 hydroxycobalamin binding site [chemical binding]; other site 640510017202 Walker B motif; other site 640510017203 Cobalamin synthesis G C-terminus; Region: CbiG_C; cl12133 640510017204 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 640510017205 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 640510017206 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 640510017207 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510017208 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 640510017209 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 640510017210 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 640510017211 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 640510017212 cobaltochelatase subunit; Region: Cob-chelat-sub; TIGR02442 640510017213 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 640510017214 Walker A motif; other site 640510017215 ATP binding site [chemical binding]; other site 640510017216 Walker B motif; other site 640510017217 arginine finger; other site 640510017218 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 640510017219 metal ion-dependent adhesion site (MIDAS); other site 640510017220 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 640510017221 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 640510017222 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 640510017223 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 640510017224 FtsX-like permease family; Region: FtsX; cl15850 640510017225 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 640510017226 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 640510017227 Walker A/P-loop; other site 640510017228 ATP binding site [chemical binding]; other site 640510017229 Q-loop/lid; other site 640510017230 ABC transporter signature motif; other site 640510017231 Walker B; other site 640510017232 D-loop; other site 640510017233 H-loop/switch region; other site 640510017234 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 640510017235 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 640510017236 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 640510017237 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 640510017238 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 640510017239 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 640510017240 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 640510017241 putative NAD(P) binding site [chemical binding]; other site 640510017242 active site 640510017243 BON domain; Region: BON; cl02771 640510017244 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640510017245 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 640510017246 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 640510017247 Walker A/P-loop; other site 640510017248 ATP binding site [chemical binding]; other site 640510017249 Q-loop/lid; other site 640510017250 ABC transporter signature motif; other site 640510017251 Walker B; other site 640510017252 D-loop; other site 640510017253 H-loop/switch region; other site 640510017254 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 640510017255 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510017256 dimer interface [polypeptide binding]; other site 640510017257 conserved gate region; other site 640510017258 putative PBP binding loops; other site 640510017259 ABC-ATPase subunit interface; other site 640510017260 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640510017261 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 640510017262 conserved cys residue [active] 640510017263 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 640510017264 NMT1-like family; Region: NMT1_2; cl15260 640510017265 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640510017266 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 640510017267 conserved cys residue [active] 640510017268 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 640510017269 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510017270 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 640510017271 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 640510017272 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 640510017273 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 640510017274 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510017275 Sarcosine oxidase, delta subunit family; Region: SoxD; cl01767 640510017276 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 640510017277 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 640510017278 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 640510017279 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 640510017280 benzoate transport; Region: 2A0115; TIGR00895 640510017281 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510017282 putative substrate translocation pore; other site 640510017283 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510017284 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 640510017285 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 640510017286 choline dehydrogenase; Validated; Region: PRK02106 640510017287 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 640510017288 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640510017289 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 640510017290 tetrameric interface [polypeptide binding]; other site 640510017291 NAD binding site [chemical binding]; other site 640510017292 catalytic residues [active] 640510017293 transcriptional regulator BetI; Validated; Region: PRK00767 640510017294 Helix-turn-helix domains; Region: HTH; cl00088 640510017295 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 640510017296 formaldehyde dehydrogenase, glutathione-independent; Region: fdhA_non_GSH; TIGR02819 640510017297 Pseudomonas putida aldehyde-dismutating formaldehyde dehydrogenase (PFDH); Region: PFDH_like; cd08282 640510017298 NAD binding site [chemical binding]; other site 640510017299 catalytic Zn binding site [ion binding]; other site 640510017300 structural Zn binding site [ion binding]; other site 640510017301 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640510017302 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 640510017303 conserved cys residue [active] 640510017304 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510017305 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 640510017306 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 640510017307 dimer interface [polypeptide binding]; other site 640510017308 active site 640510017309 glycine-pyridoxal phosphate binding site [chemical binding]; other site 640510017310 folate binding site [chemical binding]; other site 640510017311 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 640510017312 active site 640510017313 dimer interface [polypeptide binding]; other site 640510017314 Predicted hydrocarbon binding protein (contains V4R domain) [General function prediction only]; Region: COG1719 640510017315 Heme NO binding; Region: HNOB; cl15268 640510017316 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 640510017317 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 640510017318 putative active site [active] 640510017319 putative FMN binding site [chemical binding]; other site 640510017320 putative substrate binding site [chemical binding]; other site 640510017321 putative catalytic residue [active] 640510017322 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510017323 Domain of unknown function (DUF3483); Region: DUF3483; pfam11982 640510017324 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 640510017325 Cysteine-rich domain; Region: CCG; pfam02754 640510017326 Cysteine-rich domain; Region: CCG; pfam02754 640510017327 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 640510017328 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 640510017329 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 640510017330 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 640510017331 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 640510017332 [2Fe-2S] cluster binding site [ion binding]; other site 640510017333 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 640510017334 putative alpha subunit interface [polypeptide binding]; other site 640510017335 putative active site [active] 640510017336 putative substrate binding site [chemical binding]; other site 640510017337 Fe binding site [ion binding]; other site 640510017338 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 640510017339 HCP oxidoreductase, NADH-dependent; Provisional; Region: PRK10684 640510017340 FAD binding pocket [chemical binding]; other site 640510017341 FAD binding motif [chemical binding]; other site 640510017342 phosphate binding motif [ion binding]; other site 640510017343 beta-alpha-beta structure motif; other site 640510017344 NAD binding pocket [chemical binding]; other site 640510017345 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 640510017346 catalytic loop [active] 640510017347 iron binding site [ion binding]; other site 640510017348 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 640510017349 NMT1-like family; Region: NMT1_2; cl15260 640510017350 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 640510017351 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 640510017352 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 640510017353 putative active site [active] 640510017354 putative substrate binding site [chemical binding]; other site 640510017355 putative cosubstrate binding site; other site 640510017356 catalytic site [active] 640510017357 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 640510017358 Helix-turn-helix domains; Region: HTH; cl00088 640510017359 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 640510017360 dimerization interface [polypeptide binding]; other site 640510017361 substrate binding pocket [chemical binding]; other site 640510017362 choline-sulfatase; Region: chol_sulfatase; TIGR03417 640510017363 Sulfatase; Region: Sulfatase; cl10460 640510017364 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 640510017365 NMT1-like family; Region: NMT1_2; cl15260 640510017366 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 640510017367 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 640510017368 trimer interface [polypeptide binding]; other site 640510017369 eyelet of channel; other site 640510017370 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 640510017371 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 640510017372 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 640510017373 NAD(P) binding site [chemical binding]; other site 640510017374 homotetramer interface [polypeptide binding]; other site 640510017375 homodimer interface [polypeptide binding]; other site 640510017376 active site 640510017377 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 640510017378 dimerization interface [polypeptide binding]; other site 640510017379 putative DNA binding site [nucleotide binding]; other site 640510017380 putative Zn2+ binding site [ion binding]; other site 640510017381 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 640510017382 ATPase, P-type (transporting), HAD superfamily, subfamily IC; Region: ATPase_P-type; TIGR01494 640510017383 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 640510017384 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 640510017385 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 640510017386 CreA protein; Region: CreA; pfam05981 640510017387 Sulphur transport; Region: Sulf_transp; cl01018 640510017388 Predicted transporter component [General function prediction only]; Region: COG2391 640510017389 Sulphur transport; Region: Sulf_transp; cl01018 640510017390 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 640510017391 LemA family; Region: LemA; cl00742 640510017392 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 640510017393 Ligand Binding Site [chemical binding]; other site 640510017394 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 640510017395 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; cl15276 640510017396 ABC-type ATPase fused to a predicted acetyltransferase domain [General function prediction only]; Region: COG2401 640510017397 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 640510017398 catalytic residue [active] 640510017399 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 640510017400 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; cl15276 640510017401 Domain of unknown function DUF87; Region: DUF87; pfam01935 640510017402 HerA helicase [Replication, recombination, and repair]; Region: COG0433 640510017403 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 640510017404 catalytic residue [active] 640510017405 Phage integrase protein; Region: DUF3701; pfam12482 640510017406 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 640510017407 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 640510017408 Int/Topo IB signature motif; other site 640510017409 Nucleotidyltransferase (NT) domain of 2'5'-oligoadenylate (2-5A)synthetase (2-5OAS) and class I CCA-adding enzyme; Region: NT_2-5OAS_ClassI-CCAase; cd05400 640510017410 active site 640510017411 NTP binding site [chemical binding]; other site 640510017412 metal binding triad [ion binding]; metal-binding site 640510017413 replication factor C large subunit; Provisional; Region: PRK04195 640510017414 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 640510017415 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 640510017416 Walker A motif; other site 640510017417 ATP binding site [chemical binding]; other site 640510017418 Walker B motif; other site 640510017419 arginine finger; other site 640510017420 Protein of unknown function (DUF4236); Region: DUF4236; pfam14020 640510017421 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 640510017422 Protein of unknown function (DUF4011); Region: DUF4011; pfam13195 640510017423 DNA helicase, putative; Region: TIGR00376 640510017424 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510017425 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510017426 Family description; Region: UvrD_C_2; cl15862 640510017427 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 640510017428 putative active site [active] 640510017429 Protein of unknown function (DUF3320); Region: DUF3320; pfam11784 640510017430 Helix-turn-helix domain; Region: HTH_39; pfam14090 640510017431 H-NS histone family; Region: Histone_HNS; pfam00816 640510017432 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 640510017433 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 640510017434 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 640510017435 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 640510017436 Cell division inhibitor SulA; Region: SulA; cl01880 640510017437 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 640510017438 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 640510017439 dimer interface [polypeptide binding]; other site 640510017440 active site 640510017441 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 640510017442 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 640510017443 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 640510017444 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 640510017445 Electron transfer flavoprotein domain; Region: ETF; pfam01012 640510017446 Ligand binding site [chemical binding]; other site 640510017447 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 640510017448 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 640510017449 substrate binding site [chemical binding]; other site 640510017450 oxyanion hole (OAH) forming residues; other site 640510017451 trimer interface [polypeptide binding]; other site 640510017452 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510017453 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 640510017454 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 640510017455 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 640510017456 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510017457 CoA-ligase; Region: Ligase_CoA; cl02894 640510017458 ATP-grasp domain; Region: ATP-grasp_4; cl03087 640510017459 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 640510017460 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640510017461 active site 640510017462 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640510017463 Helix-turn-helix domains; Region: HTH; cl00088 640510017464 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 640510017465 dimerization interface [polypeptide binding]; other site 640510017466 substrate binding pocket [chemical binding]; other site 640510017467 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 640510017468 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640510017469 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510017470 metabolite-proton symporter; Region: 2A0106; TIGR00883 640510017471 putative substrate translocation pore; other site 640510017472 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640510017473 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510017474 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 640510017475 putative substrate translocation pore; other site 640510017476 hypothetical protein; Validated; Region: PRK06201 640510017477 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 640510017478 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510017479 D-galactonate transporter; Region: 2A0114; TIGR00893 640510017480 putative substrate translocation pore; other site 640510017481 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 640510017482 substrate binding pocket [chemical binding]; other site 640510017483 active site 640510017484 iron coordination sites [ion binding]; other site 640510017485 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 640510017486 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 640510017487 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 640510017488 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 640510017489 trimer interface [polypeptide binding]; other site 640510017490 eyelet of channel; other site 640510017491 transketolase; Reviewed; Region: PRK12753 640510017492 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 640510017493 TPP-binding site [chemical binding]; other site 640510017494 dimer interface [polypeptide binding]; other site 640510017495 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 640510017496 PYR/PP interface [polypeptide binding]; other site 640510017497 dimer interface [polypeptide binding]; other site 640510017498 TPP binding site [chemical binding]; other site 640510017499 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 640510017500 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510017501 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640510017502 NAD(P) binding site [chemical binding]; other site 640510017503 active site 640510017504 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510017505 sorbitol dehydrogenase; Provisional; Region: PRK07067 640510017506 NAD(P) binding site [chemical binding]; other site 640510017507 active site 640510017508 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 640510017509 The 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 640510017510 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 640510017511 Helix-turn-helix domains; Region: HTH; cl00088 640510017512 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 640510017513 ribulokinase; Provisional; Region: PRK04123 640510017514 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 640510017515 N- and C-terminal domain interface [polypeptide binding]; other site 640510017516 active site 640510017517 MgATP binding site [chemical binding]; other site 640510017518 catalytic site [active] 640510017519 metal binding site [ion binding]; metal-binding site 640510017520 carbohydrate binding site [chemical binding]; other site 640510017521 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 640510017522 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 640510017523 Walker A/P-loop; other site 640510017524 ATP binding site [chemical binding]; other site 640510017525 Q-loop/lid; other site 640510017526 ABC transporter signature motif; other site 640510017527 Walker B; other site 640510017528 D-loop; other site 640510017529 H-loop/switch region; other site 640510017530 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 640510017531 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 640510017532 TM-ABC transporter signature motif; other site 640510017533 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_11; cd06321 640510017534 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640510017535 putative ligand binding site [chemical binding]; other site 640510017536 Domain of unknown function (DUF1917); Region: DUF1917; pfam08939 640510017537 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 640510017538 AAA domain; Region: AAA_22; pfam13401 640510017539 atypical (a) SDRs, subgroup 7; Region: SDR_a7; cd05262 640510017540 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 640510017541 putative NAD(P) binding site [chemical binding]; other site 640510017542 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 640510017543 salt bridge; other site 640510017544 non-specific DNA binding site [nucleotide binding]; other site 640510017545 sequence-specific DNA binding site [nucleotide binding]; other site 640510017546 YCII-related domain; Region: YCII; cl00999 640510017547 Isochorismatase family; Region: Isochorismatase; pfam00857 640510017548 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 640510017549 catalytic triad [active] 640510017550 conserved cis-peptide bond; other site 640510017551 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 640510017552 Dak1 domain; Region: Dak1; pfam02733 640510017553 DAK2 domain; Region: Dak2; cl03685 640510017554 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 640510017555 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 640510017556 Walker A/P-loop; other site 640510017557 ATP binding site [chemical binding]; other site 640510017558 Q-loop/lid; other site 640510017559 ABC transporter signature motif; other site 640510017560 Walker B; other site 640510017561 D-loop; other site 640510017562 H-loop/switch region; other site 640510017563 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 640510017564 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 640510017565 Walker A/P-loop; other site 640510017566 ATP binding site [chemical binding]; other site 640510017567 Q-loop/lid; other site 640510017568 ABC transporter signature motif; other site 640510017569 Walker B; other site 640510017570 D-loop; other site 640510017571 H-loop/switch region; other site 640510017572 TOBE domain; Region: TOBE_2; cl01440 640510017573 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 640510017574 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510017575 dimer interface [polypeptide binding]; other site 640510017576 conserved gate region; other site 640510017577 putative PBP binding loops; other site 640510017578 ABC-ATPase subunit interface; other site 640510017579 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 640510017580 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510017581 dimer interface [polypeptide binding]; other site 640510017582 conserved gate region; other site 640510017583 putative PBP binding loops; other site 640510017584 ABC-ATPase subunit interface; other site 640510017585 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 640510017586 The 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 640510017587 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640510017588 DNA binding site [nucleotide binding] 640510017589 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 640510017590 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640510017591 putative ligand binding site [chemical binding]; other site 640510017592 Helix-turn-helix domains; Region: HTH; cl00088 640510017593 LysR family transcriptional regulator; Provisional; Region: PRK14997 640510017594 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 640510017595 putative effector binding pocket; other site 640510017596 dimerization interface [polypeptide binding]; other site 640510017597 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 640510017598 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 640510017599 PYR/PP interface [polypeptide binding]; other site 640510017600 dimer interface [polypeptide binding]; other site 640510017601 TPP binding site [chemical binding]; other site 640510017602 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 640510017603 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 640510017604 TPP-binding site [chemical binding]; other site 640510017605 dimer interface [polypeptide binding]; other site 640510017606 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 640510017607 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 640510017608 transcriptional regulator; Provisional; Region: PRK10632 640510017609 Helix-turn-helix domains; Region: HTH; cl00088 640510017610 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 640510017611 putative effector binding pocket; other site 640510017612 putative dimerization interface [polypeptide binding]; other site 640510017613 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 640510017614 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640510017615 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 640510017616 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 640510017617 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 640510017618 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 640510017619 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510017620 putative substrate translocation pore; other site 640510017621 G:T/U mismatch specific DNA glcosylase (MUG); Region: UDG_F2_MUG; cd10028 640510017622 active site 640510017623 SUMO-1 interface [polypeptide binding]; other site 640510017624 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640510017625 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 640510017626 conserved cys residue [active] 640510017627 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510017628 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 640510017629 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 640510017630 conserved cys residue [active] 640510017631 Helix-turn-helix domains; Region: HTH; cl00088 640510017632 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510017633 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640510017634 putative substrate translocation pore; other site 640510017635 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510017636 Helix-turn-helix domains; Region: HTH; cl00088 640510017637 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 640510017638 putative effector binding pocket; other site 640510017639 dimerization interface [polypeptide binding]; other site 640510017640 H-NS histone family; Region: Histone_HNS; pfam00816 640510017641 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 640510017642 Glycoside hydrolase family 71; Region: GH71; cd11577 640510017643 putative ligand binding site [chemical binding]; other site 640510017644 putative catalytic site [active] 640510017645 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640510017646 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 640510017647 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 640510017648 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640510017649 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 640510017650 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 640510017651 Chain length determinant protein; Region: Wzz; cl15801 640510017652 Chain length determinant protein; Region: Wzz; cl15801 640510017653 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 640510017654 P loop; other site 640510017655 Nucleotide binding site [chemical binding]; other site 640510017656 DTAP/Switch II; other site 640510017657 Switch I; other site 640510017658 Low molecular weight phosphatase family; Region: LMWPc; cd00115 640510017659 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 640510017660 active site 640510017661 polysaccharide export protein Wza; Provisional; Region: PRK15078 640510017662 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 640510017663 SLBB domain; Region: SLBB; pfam10531 640510017664 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 640510017665 Bacterial sugar transferase; Region: Bac_transf; cl00939 640510017666 OpgC protein; Region: OpgC_C; cl00792 640510017667 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640510017668 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 640510017669 conserved cys residue [active] 640510017670 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510017671 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510017672 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640510017673 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 640510017674 conserved cys residue [active] 640510017675 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510017676 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510017677 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 640510017678 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510017679 Predicted amidohydrolase [General function prediction only]; Region: COG0388 640510017680 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_2; cd07580 640510017681 putative active site [active] 640510017682 catalytic triad [active] 640510017683 putative dimer interface [polypeptide binding]; other site 640510017684 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 640510017685 Type I periplasmic-binding protein of the nitrile hydratase (NHase) system that selectively converts nitriles to corresponding amides; Region: PBP1_NHase; cd06358 640510017686 putative ligand binding site [chemical binding]; other site 640510017687 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 640510017688 TM-ABC transporter signature motif; other site 640510017689 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 640510017690 TM-ABC transporter signature motif; other site 640510017691 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 640510017692 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 640510017693 Walker A/P-loop; other site 640510017694 ATP binding site [chemical binding]; other site 640510017695 Q-loop/lid; other site 640510017696 ABC transporter signature motif; other site 640510017697 Walker B; other site 640510017698 D-loop; other site 640510017699 H-loop/switch region; other site 640510017700 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 640510017701 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 640510017702 Walker A/P-loop; other site 640510017703 ATP binding site [chemical binding]; other site 640510017704 Q-loop/lid; other site 640510017705 ABC transporter signature motif; other site 640510017706 Walker B; other site 640510017707 D-loop; other site 640510017708 H-loop/switch region; other site 640510017709 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 640510017710 Amidase; Region: Amidase; cl11426 640510017711 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 640510017712 Periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family; Region: PBP1_AmiC; cd06357 640510017713 ligand binding site [chemical binding]; other site 640510017714 regulator interaction site; other site 640510017715 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 640510017716 ANTAR domain; Region: ANTAR; cl04297 640510017717 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640510017718 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 640510017719 DNA binding site [nucleotide binding] 640510017720 Bacterial type III secretion protein (HrpB1_HrpK); Region: HrpB1_HrpK; pfam09613 640510017721 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 640510017722 Protein of unknown function (DUF3455); Region: DUF3455; pfam11937 640510017723 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 640510017724 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 640510017725 iron-sulfur cluster [ion binding]; other site 640510017726 [2Fe-2S] cluster binding site [ion binding]; other site 640510017727 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 640510017728 alpha subunit interface [polypeptide binding]; other site 640510017729 active site 640510017730 substrate binding site [chemical binding]; other site 640510017731 Fe binding site [ion binding]; other site 640510017732 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 640510017733 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510017734 active site 640510017735 phosphorylation site [posttranslational modification] 640510017736 dimerization interface [polypeptide binding]; other site 640510017737 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 640510017738 DNA binding site [nucleotide binding] 640510017739 type III secretion outer membrane pore, YscC/HrcC family; Region: type_III_yscC; TIGR02516 640510017740 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 640510017741 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 640510017742 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 640510017743 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 640510017744 type III secretion system ATPase; Provisional; Region: PRK09099 640510017745 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 640510017746 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 640510017747 Walker A motif/ATP binding site; other site 640510017748 Walker B motif; other site 640510017749 type III secretion system protein HrpB; Validated; Region: PRK09098 640510017750 Flagellar assembly protein FliH; Region: FliH; pfam02108 640510017751 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 640510017752 Bacterial type III secretion protein (HrpB2); Region: HrpB2; cl09721 640510017753 Bacterial type III secretion protein (HrpB1_HrpK); Region: HrpB1_HrpK; pfam09613 640510017754 type III secretion system protein HrcU; Validated; Region: PRK09108 640510017755 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 640510017756 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 640510017757 FHIPEP family; Region: FHIPEP; pfam00771 640510017758 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 640510017759 type III secretion system apparatus protein YscQ/HrcQ; Region: SpaO_YscQ; TIGR02551 640510017760 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 640510017761 FliP family; Region: FliP; cl00593 640510017762 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 640510017763 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 640510017764 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 640510017765 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 640510017766 substrate binding pocket [chemical binding]; other site 640510017767 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 640510017768 N-acetyl-D-glucosamine binding site [chemical binding]; other site 640510017769 catalytic residue [active] 640510017770 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 640510017771 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 640510017772 substrate binding pocket [chemical binding]; other site 640510017773 membrane-bound complex binding site; other site 640510017774 hinge residues; other site 640510017775 56kDa selenium binding protein (SBP56); Region: SBP56; pfam05694 640510017776 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 640510017777 Catalytic domain, repeat 1, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_1; cd09140 640510017778 putative active site [active] 640510017779 catalytic site [active] 640510017780 Catalytic domain, repeat 2, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_2; cd09143 640510017781 putative active site [active] 640510017782 catalytic site [active] 640510017783 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 640510017784 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 640510017785 putative catalytic site [active] 640510017786 putative metal binding site [ion binding]; other site 640510017787 putative phosphate binding site [ion binding]; other site