-- dump date 20140619_012518 -- class Genbank::misc_feature -- table misc_feature_note -- id note 640510000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 640510000002 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 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 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 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 Uncharacterized conserved protein [Function unknown]; Region: COG1434 640510000033 putative active site [active] 640510000034 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 640510000035 amidase catalytic site [active] 640510000036 Zn binding residues [ion binding]; other site 640510000037 substrate binding site [chemical binding]; other site 640510000038 PAAR motif; Region: PAAR_motif; pfam05488 640510000039 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 640510000040 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 640510000041 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 640510000042 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 640510000043 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 640510000044 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 640510000045 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 640510000046 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640510000047 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510000048 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 640510000049 ethanolamine permease; Region: 2A0305; TIGR00908 640510000050 hypothetical protein; Provisional; Region: PHA02764 640510000051 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 640510000052 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 640510000053 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 640510000054 Protein of unknown function (DUF779); Region: DUF779; pfam05610 640510000055 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 640510000056 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640510000057 NAD(P) binding site [chemical binding]; other site 640510000058 catalytic residues [active] 640510000059 Helix-turn-helix domain; Region: HTH_18; pfam12833 640510000060 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510000061 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 640510000062 Heavy-metal-associated domain; Region: HMA; pfam00403 640510000063 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 640510000064 Soluble P-type ATPase [General function prediction only]; Region: COG4087 640510000065 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 640510000066 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 640510000067 DNA binding residues [nucleotide binding] 640510000068 dimer interface [polypeptide binding]; other site 640510000069 putative metal binding site [ion binding]; other site 640510000070 NAD-dependent protein deacetylases, SIR2 family [Transcription]; Region: SIR2; COG0846 640510000071 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 640510000072 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 640510000073 ATP binding site [chemical binding]; other site 640510000074 Mg++ binding site [ion binding]; other site 640510000075 motif III; other site 640510000076 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 640510000077 nucleotide binding region [chemical binding]; other site 640510000078 ATP-binding site [chemical binding]; other site 640510000079 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 640510000080 putative RNA binding site [nucleotide binding]; other site 640510000081 putative aminotransferase; Provisional; Region: PRK12414 640510000082 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 640510000083 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510000084 homodimer interface [polypeptide binding]; other site 640510000085 catalytic residue [active] 640510000086 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 640510000087 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 640510000088 substrate binding pocket [chemical binding]; other site 640510000089 membrane-bound complex binding site; other site 640510000090 hinge residues; other site 640510000091 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 640510000092 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 640510000093 active site residue [active] 640510000094 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 640510000095 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 640510000096 dimer interface [polypeptide binding]; other site 640510000097 decamer (pentamer of dimers) interface [polypeptide binding]; other site 640510000098 catalytic triad [active] 640510000099 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 640510000100 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 640510000101 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 640510000102 N-terminal plug; other site 640510000103 ligand-binding site [chemical binding]; other site 640510000104 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 640510000105 CoenzymeA binding site [chemical binding]; other site 640510000106 subunit interaction site [polypeptide binding]; other site 640510000107 PHB binding site; other site 640510000108 Patatin-like phospholipase; Region: Patatin; pfam01734 640510000109 active site 640510000110 nucleophile elbow; other site 640510000111 Putative D-3-Phosphoglycerate Dehydrogenases; Region: PGDH_like_1; cd12169 640510000112 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 640510000113 dimerization interface [polypeptide binding]; other site 640510000114 NAD binding site [chemical binding]; other site 640510000115 ligand binding site [chemical binding]; other site 640510000116 catalytic site [active] 640510000117 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 640510000118 active site 640510000119 substrate-binding site [chemical binding]; other site 640510000120 metal-binding site [ion binding] 640510000121 GTP binding site [chemical binding]; other site 640510000122 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510000123 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510000124 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 640510000125 putative effector binding pocket; other site 640510000126 dimerization interface [polypeptide binding]; other site 640510000127 DNA topoisomerase III; Validated; Region: PRK08173 640510000128 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 640510000129 active site 640510000130 putative interdomain interaction site [polypeptide binding]; other site 640510000131 putative metal-binding site [ion binding]; other site 640510000132 putative nucleotide binding site [chemical binding]; other site 640510000133 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 640510000134 domain I; other site 640510000135 DNA binding groove [nucleotide binding] 640510000136 phosphate binding site [ion binding]; other site 640510000137 domain II; other site 640510000138 domain III; other site 640510000139 nucleotide binding site [chemical binding]; other site 640510000140 catalytic site [active] 640510000141 domain IV; other site 640510000142 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 640510000143 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 640510000144 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 640510000145 catalytic residues [active] 640510000146 DNA protecting protein DprA; Region: dprA; TIGR00732 640510000147 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 640510000148 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 640510000149 active site 640510000150 catalytic residues [active] 640510000151 metal binding site [ion binding]; metal-binding site 640510000152 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 640510000153 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 640510000154 putative active site [active] 640510000155 substrate binding site [chemical binding]; other site 640510000156 putative cosubstrate binding site; other site 640510000157 catalytic site [active] 640510000158 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 640510000159 substrate binding site [chemical binding]; other site 640510000160 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 640510000161 M48 family peptidase; Provisional; Region: PRK03001 640510000162 16S rRNA methyltransferase B; Provisional; Region: PRK10901 640510000163 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 640510000164 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 640510000165 S-adenosylmethionine binding site [chemical binding]; other site 640510000166 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 640510000167 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 640510000168 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 640510000169 dimerization interface [polypeptide binding]; other site 640510000170 PAS domain; Region: PAS; smart00091 640510000171 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 640510000172 dimer interface [polypeptide binding]; other site 640510000173 phosphorylation site [posttranslational modification] 640510000174 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510000175 ATP binding site [chemical binding]; other site 640510000176 Mg2+ binding site [ion binding]; other site 640510000177 G-X-G motif; other site 640510000178 Response regulator receiver domain; Region: Response_reg; pfam00072 640510000179 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510000180 active site 640510000181 phosphorylation site [posttranslational modification] 640510000182 intermolecular recognition site; other site 640510000183 dimerization interface [polypeptide binding]; other site 640510000184 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 640510000185 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 640510000186 Ligand Binding Site [chemical binding]; other site 640510000187 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 640510000188 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 640510000189 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 640510000190 active site 640510000191 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 640510000192 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 640510000193 Sel1-like repeats; Region: SEL1; smart00671 640510000194 Sel1-like repeats; Region: SEL1; smart00671 640510000195 Sel1-like repeats; Region: SEL1; smart00671 640510000196 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 640510000197 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 640510000198 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 640510000199 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 640510000200 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreD; COG2891 640510000201 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 640510000202 rod shape-determining protein MreC; Region: MreC; pfam04085 640510000203 rod shape-determining protein MreB; Provisional; Region: PRK13927 640510000204 MreB and similar proteins; Region: MreB_like; cd10225 640510000205 nucleotide binding site [chemical binding]; other site 640510000206 Mg binding site [ion binding]; other site 640510000207 putative protofilament interaction site [polypeptide binding]; other site 640510000208 RodZ interaction site [polypeptide binding]; other site 640510000209 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 640510000210 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 640510000211 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 640510000212 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 640510000213 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 640510000214 GatB domain; Region: GatB_Yqey; smart00845 640510000215 polyphosphate:nucleotide phosphotransferase, PPK2 family; Region: PPK2_rel_1; TIGR03709 640510000216 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 640510000217 putative active site [active] 640510000218 putative catalytic site [active] 640510000219 putative DNA binding site [nucleotide binding]; other site 640510000220 putative phosphate binding site [ion binding]; other site 640510000221 metal binding site A [ion binding]; metal-binding site 640510000222 putative AP binding site [nucleotide binding]; other site 640510000223 putative metal binding site B [ion binding]; other site 640510000224 Peptidase family M48; Region: Peptidase_M48; cl12018 640510000225 Acetyl-coenzyme A transporter 1; Region: Acatn; pfam13000 640510000226 muropeptide transporter; Reviewed; Region: ampG; PRK11902 640510000227 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510000228 putative substrate translocation pore; other site 640510000229 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 640510000230 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 640510000231 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 640510000232 division inhibitor protein; Provisional; Region: slmA; PRK09480 640510000233 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640510000234 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 640510000235 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 640510000236 motif II; other site 640510000237 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 640510000238 feedback inhibition sensing region; other site 640510000239 homohexameric interface [polypeptide binding]; other site 640510000240 nucleotide binding site [chemical binding]; other site 640510000241 N-acetyl-L-glutamate binding site [chemical binding]; other site 640510000242 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 640510000243 binding surface 640510000244 TPR motif; other site 640510000245 TPR repeat; Region: TPR_11; pfam13414 640510000246 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 640510000247 binding surface 640510000248 TPR motif; other site 640510000249 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 640510000250 binding surface 640510000251 TPR motif; other site 640510000252 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640510000253 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 640510000254 dimer interface [polypeptide binding]; other site 640510000255 phosphorylation site [posttranslational modification] 640510000256 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510000257 ATP binding site [chemical binding]; other site 640510000258 Mg2+ binding site [ion binding]; other site 640510000259 G-X-G motif; other site 640510000260 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 640510000261 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510000262 active site 640510000263 phosphorylation site [posttranslational modification] 640510000264 intermolecular recognition site; other site 640510000265 dimerization interface [polypeptide binding]; other site 640510000266 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 640510000267 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 640510000268 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 640510000269 Walker A motif; other site 640510000270 ATP binding site [chemical binding]; other site 640510000271 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 640510000272 Walker B motif; other site 640510000273 arginine finger; other site 640510000274 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 640510000275 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 640510000276 active site 640510000277 HslU subunit interaction site [polypeptide binding]; other site 640510000278 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 640510000279 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 640510000280 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 640510000281 P-loop, Walker A motif; other site 640510000282 Base recognition motif; other site 640510000283 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 640510000284 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 640510000285 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 640510000286 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 640510000287 putative RNA binding site [nucleotide binding]; other site 640510000288 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 640510000289 S-adenosylmethionine binding site [chemical binding]; other site 640510000290 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 640510000291 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 640510000292 active site 640510000293 DNA binding site [nucleotide binding] 640510000294 Int/Topo IB signature motif; other site 640510000295 Protein of unknown function, DUF484; Region: DUF484; cl17449 640510000296 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 640510000297 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 640510000298 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 640510000299 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 640510000300 putative acyl-acceptor binding pocket; other site 640510000301 S-adenosylmethionine synthetase; Validated; Region: PRK05250 640510000302 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 640510000303 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 640510000304 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 640510000305 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 640510000306 Protein of unknown function (DUF3185); Region: DUF3185; pfam11381 640510000307 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 640510000308 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 640510000309 active site 640510000310 catalytic tetrad [active] 640510000311 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 640510000312 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510000313 putative substrate translocation pore; other site 640510000314 serine/threonine protein kinase; Provisional; Region: PRK11768 640510000315 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 640510000316 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 640510000317 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 640510000318 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 640510000319 XdhC Rossmann domain; Region: XdhC_C; pfam13478 640510000320 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 640510000321 putative hydrophobic ligand binding site [chemical binding]; other site 640510000322 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 640510000323 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 640510000324 metal ion-dependent adhesion site (MIDAS); other site 640510000325 MoxR-like ATPases [General function prediction only]; Region: COG0714 640510000326 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 640510000327 Walker A motif; other site 640510000328 ATP binding site [chemical binding]; other site 640510000329 Walker B motif; other site 640510000330 arginine finger; other site 640510000331 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 640510000332 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 640510000333 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 640510000334 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 640510000335 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640510000336 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 640510000337 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 640510000338 catalytic loop [active] 640510000339 iron binding site [ion binding]; other site 640510000340 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 640510000341 amino acid transporter; Region: 2A0306; TIGR00909 640510000342 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 640510000343 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640510000344 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510000345 active site 640510000346 phosphorylation site [posttranslational modification] 640510000347 intermolecular recognition site; other site 640510000348 dimerization interface [polypeptide binding]; other site 640510000349 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 640510000350 DNA binding residues [nucleotide binding] 640510000351 dimerization interface [polypeptide binding]; other site 640510000352 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 640510000353 Histidine kinase; Region: HisKA_3; pfam07730 640510000354 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510000355 ATP binding site [chemical binding]; other site 640510000356 Mg2+ binding site [ion binding]; other site 640510000357 G-X-G motif; other site 640510000358 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 640510000359 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 640510000360 FAD binding pocket [chemical binding]; other site 640510000361 FAD binding motif [chemical binding]; other site 640510000362 phosphate binding motif [ion binding]; other site 640510000363 beta-alpha-beta structure motif; other site 640510000364 NAD binding pocket [chemical binding]; other site 640510000365 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 640510000366 putative catalytic site [active] 640510000367 putative phosphate binding site [ion binding]; other site 640510000368 putative metal binding site [ion binding]; other site 640510000369 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 640510000370 Walker A motif; other site 640510000371 ATP binding site [chemical binding]; other site 640510000372 Walker B motif; other site 640510000373 arginine finger; other site 640510000374 Predicted dehydrogenase [General function prediction only]; Region: COG0579 640510000375 hydroxyglutarate oxidase; Provisional; Region: PRK11728 640510000376 High potential iron-sulfur protein; Region: HIPIP; pfam01355 640510000377 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 640510000378 Amidase; Region: Amidase; cl11426 640510000379 Dienelactone hydrolase family; Region: DLH; pfam01738 640510000380 Nitronate monooxygenase; Region: NMO; pfam03060 640510000381 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 640510000382 FMN binding site [chemical binding]; other site 640510000383 substrate binding site [chemical binding]; other site 640510000384 putative catalytic residue [active] 640510000385 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 640510000386 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 640510000387 dimerization interface [polypeptide binding]; other site 640510000388 ligand binding site [chemical binding]; other site 640510000389 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 640510000390 H-NS histone family; Region: Histone_HNS; pfam00816 640510000391 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 640510000392 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 640510000393 Cation efflux family; Region: Cation_efflux; pfam01545 640510000394 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 640510000395 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 640510000396 putative DNA binding site [nucleotide binding]; other site 640510000397 putative Zn2+ binding site [ion binding]; other site 640510000398 AsnC family; Region: AsnC_trans_reg; pfam01037 640510000399 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 640510000400 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 640510000401 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 640510000402 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 640510000403 Predicted methyltransferases [General function prediction only]; Region: COG0313 640510000404 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 640510000405 putative SAM binding site [chemical binding]; other site 640510000406 putative homodimer interface [polypeptide binding]; other site 640510000407 hypothetical protein; Provisional; Region: PRK14673 640510000408 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 640510000409 dimer interface [polypeptide binding]; other site 640510000410 active site 640510000411 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 640510000412 BON domain; Region: BON; pfam04972 640510000413 BON domain; Region: BON; pfam04972 640510000414 Cytochrome c; Region: Cytochrom_C; cl11414 640510000415 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640510000416 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640510000417 metal binding site [ion binding]; metal-binding site 640510000418 active site 640510000419 I-site; other site 640510000420 Uncharacterized protein conserved in bacteria (DUF2239); Region: DUF2239; pfam09998 640510000421 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 640510000422 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 640510000423 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 640510000424 CutC family; Region: CutC; cl01218 640510000425 2-oxoacid ferredoxin oxidoreductase; Provisional; Region: PRK13030 640510000426 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 640510000427 dimer interface [polypeptide binding]; other site 640510000428 PYR/PP interface [polypeptide binding]; other site 640510000429 TPP binding site [chemical binding]; other site 640510000430 substrate binding site [chemical binding]; other site 640510000431 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 640510000432 TPP-binding site [chemical binding]; other site 640510000433 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 640510000434 Inward rectifier potassium channel; Region: IRK; pfam01007 640510000435 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 640510000436 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 640510000437 putative substrate binding site [chemical binding]; other site 640510000438 putative ATP binding site [chemical binding]; other site 640510000439 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 640510000440 dimerization interface [polypeptide binding]; other site 640510000441 putative active cleft [active] 640510000442 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640510000443 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640510000444 DNA binding site [nucleotide binding] 640510000445 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 640510000446 ligand binding site [chemical binding]; other site 640510000447 dimerization interface [polypeptide binding]; other site 640510000448 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 640510000449 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 640510000450 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640510000451 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640510000452 metal binding site [ion binding]; metal-binding site 640510000453 active site 640510000454 I-site; other site 640510000455 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 640510000456 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 640510000457 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640510000458 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 640510000459 eyelet of channel; other site 640510000460 trimer interface [polypeptide binding]; other site 640510000461 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510000462 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510000463 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 640510000464 putative effector binding pocket; other site 640510000465 dimerization interface [polypeptide binding]; other site 640510000466 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 640510000467 B12 binding site [chemical binding]; other site 640510000468 cobalt ligand [ion binding]; other site 640510000469 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 640510000470 Walker A; other site 640510000471 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 640510000472 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 640510000473 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 640510000474 FMN binding site [chemical binding]; other site 640510000475 substrate binding site [chemical binding]; other site 640510000476 putative catalytic residue [active] 640510000477 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 640510000478 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 640510000479 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 640510000480 putative DNA binding site [nucleotide binding]; other site 640510000481 putative Zn2+ binding site [ion binding]; other site 640510000482 AsnC family; Region: AsnC_trans_reg; pfam01037 640510000483 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 640510000484 EamA-like transporter family; Region: EamA; pfam00892 640510000485 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 640510000486 (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 640510000487 active site 640510000488 catalytic site [active] 640510000489 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 640510000490 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 640510000491 putative deacylase active site [active] 640510000492 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 640510000493 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 640510000494 active site 640510000495 catalytic residues [active] 640510000496 metal binding site [ion binding]; metal-binding site 640510000497 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 640510000498 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 640510000499 putative ligand binding site [chemical binding]; other site 640510000500 NAD binding site [chemical binding]; other site 640510000501 dimerization interface [polypeptide binding]; other site 640510000502 catalytic site [active] 640510000503 Serine hydrolase; Region: Ser_hydrolase; pfam06821 640510000504 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640510000505 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 640510000506 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 640510000507 biotin synthase; Region: bioB; TIGR00433 640510000508 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 640510000509 FeS/SAM binding site; other site 640510000510 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 640510000511 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 640510000512 AAA domain; Region: AAA_26; pfam13500 640510000513 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 640510000514 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 640510000515 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640510000516 catalytic residue [active] 640510000517 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06943 640510000518 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 640510000519 inhibitor-cofactor binding pocket; inhibition site 640510000520 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510000521 catalytic residue [active] 640510000522 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 640510000523 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 640510000524 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 640510000525 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 640510000526 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 640510000527 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 640510000528 Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]; Region: ImpE; COG4455 640510000529 ImpE protein; Region: ImpE; pfam07024 640510000530 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 640510000531 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 640510000532 Walker A motif; other site 640510000533 ATP binding site [chemical binding]; other site 640510000534 Walker B motif; other site 640510000535 arginine finger; other site 640510000536 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 640510000537 Walker A motif; other site 640510000538 ATP binding site [chemical binding]; other site 640510000539 Walker B motif; other site 640510000540 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 640510000541 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3516 640510000542 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517 640510000543 Protein of unknown function (DUF877); Region: DUF877; pfam05943 640510000544 Protein of unknown function (DUF796); Region: DUF796; pfam05638 640510000545 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 640510000546 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 640510000547 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 640510000548 hypothetical protein; Provisional; Region: PRK08126 640510000549 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 640510000550 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640510000551 ligand binding site [chemical binding]; other site 640510000552 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 640510000553 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 640510000554 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 640510000555 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 640510000556 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 640510000557 hypothetical protein; Provisional; Region: PRK01842 640510000558 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 640510000559 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640510000560 active site 640510000561 C factor cell-cell signaling protein; Provisional; Region: PRK09009 640510000562 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 640510000563 NADP binding site [chemical binding]; other site 640510000564 homodimer interface [polypeptide binding]; other site 640510000565 active site 640510000566 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 640510000567 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 640510000568 dimer interface [polypeptide binding]; other site 640510000569 active site 640510000570 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 640510000571 active site clefts [active] 640510000572 zinc binding site [ion binding]; other site 640510000573 dimer interface [polypeptide binding]; other site 640510000574 bifunctional isocitrate dehydrogenase kinase/phosphatase protein; Validated; Region: aceK; PRK02946 640510000575 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 640510000576 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 640510000577 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 640510000578 DNA binding residues [nucleotide binding] 640510000579 putative dimer interface [polypeptide binding]; other site 640510000580 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 640510000581 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 640510000582 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 640510000583 peptide binding site [polypeptide binding]; other site 640510000584 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 640510000585 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 640510000586 intersubunit interface [polypeptide binding]; other site 640510000587 short chain dehydrogenase; Provisional; Region: PRK07024 640510000588 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510000589 NAD(P) binding site [chemical binding]; other site 640510000590 active site 640510000591 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 640510000592 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 640510000593 catalytic residues [active] 640510000594 hinge region; other site 640510000595 alpha helical domain; other site 640510000596 Sporulation related domain; Region: SPOR; pfam05036 640510000597 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 640510000598 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 640510000599 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 640510000600 active site 640510000601 HIGH motif; other site 640510000602 KMSK motif region; other site 640510000603 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 640510000604 tRNA binding surface [nucleotide binding]; other site 640510000605 anticodon binding site; other site 640510000606 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 640510000607 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 640510000608 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 640510000609 substrate binding pocket [chemical binding]; other site 640510000610 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 640510000611 B12 binding site [chemical binding]; other site 640510000612 cobalt ligand [ion binding]; other site 640510000613 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 640510000614 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 640510000615 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 640510000616 Protein of unknown function (DUF3567); Region: DUF3567; pfam12091 640510000617 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 640510000618 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 640510000619 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 640510000620 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 640510000621 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640510000622 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 640510000623 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 640510000624 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 640510000625 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 640510000626 putative ligand binding site [chemical binding]; other site 640510000627 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 640510000628 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 640510000629 substrate binding site [chemical binding]; other site 640510000630 oxyanion hole (OAH) forming residues; other site 640510000631 trimer interface [polypeptide binding]; other site 640510000632 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 640510000633 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 640510000634 dinuclear metal binding motif [ion binding]; other site 640510000635 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 640510000636 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 640510000637 active site 640510000638 HIGH motif; other site 640510000639 nucleotide binding site [chemical binding]; other site 640510000640 pantothenate kinase; Reviewed; Region: PRK13328 640510000641 biotin--protein ligase; Provisional; Region: PRK06955 640510000642 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 640510000643 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 640510000644 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 640510000645 Permease; Region: Permease; pfam02405 640510000646 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 640510000647 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 640510000648 Walker A/P-loop; other site 640510000649 ATP binding site [chemical binding]; other site 640510000650 Q-loop/lid; other site 640510000651 ABC transporter signature motif; other site 640510000652 Walker B; other site 640510000653 D-loop; other site 640510000654 H-loop/switch region; other site 640510000655 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 640510000656 mce related protein; Region: MCE; pfam02470 640510000657 Protein of unknown function (DUF330); Region: DUF330; pfam03886 640510000658 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 640510000659 dimer interface [polypeptide binding]; other site 640510000660 [2Fe-2S] cluster binding site [ion binding]; other site 640510000661 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 640510000662 Serine hydrolase (FSH1); Region: FSH1; pfam03959 640510000663 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 640510000664 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 640510000665 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 640510000666 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 640510000667 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 640510000668 homodimer interface [polypeptide binding]; other site 640510000669 substrate-cofactor binding pocket; other site 640510000670 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510000671 catalytic residue [active] 640510000672 Protein of unknown function (DUF493); Region: DUF493; cl01102 640510000673 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640510000674 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510000675 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 640510000676 dimerization interface [polypeptide binding]; other site 640510000677 substrate binding pocket [chemical binding]; other site 640510000678 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 640510000679 lipoate-protein ligase B; Provisional; Region: PRK14343 640510000680 lipoyl synthase; Provisional; Region: PRK05481 640510000681 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 640510000682 FeS/SAM binding site; other site 640510000683 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 640510000684 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 640510000685 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 640510000686 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 640510000687 PhoU domain; Region: PhoU; pfam01895 640510000688 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 640510000689 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 640510000690 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 640510000691 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 640510000692 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 640510000693 putative active site [active] 640510000694 catalytic site [active] 640510000695 putative metal binding site [ion binding]; other site 640510000696 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 640510000697 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 640510000698 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 640510000699 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510000700 putative PBP binding loops; other site 640510000701 dimer interface [polypeptide binding]; other site 640510000702 ABC-ATPase subunit interface; other site 640510000703 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 640510000704 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 640510000705 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510000706 dimer interface [polypeptide binding]; other site 640510000707 ABC-ATPase subunit interface; other site 640510000708 putative PBP binding loops; other site 640510000709 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 640510000710 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640510000711 Walker A/P-loop; other site 640510000712 ATP binding site [chemical binding]; other site 640510000713 Q-loop/lid; other site 640510000714 ABC transporter signature motif; other site 640510000715 Walker B; other site 640510000716 D-loop; other site 640510000717 H-loop/switch region; other site 640510000718 TOBE domain; Region: TOBE_2; pfam08402 640510000719 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 640510000720 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 640510000721 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 640510000722 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 640510000723 dimer interface [polypeptide binding]; other site 640510000724 phosphorylation site [posttranslational modification] 640510000725 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510000726 ATP binding site [chemical binding]; other site 640510000727 Mg2+ binding site [ion binding]; other site 640510000728 G-X-G motif; other site 640510000729 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 640510000730 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510000731 active site 640510000732 phosphorylation site [posttranslational modification] 640510000733 intermolecular recognition site; other site 640510000734 dimerization interface [polypeptide binding]; other site 640510000735 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 640510000736 Walker A motif; other site 640510000737 ATP binding site [chemical binding]; other site 640510000738 Walker B motif; other site 640510000739 arginine finger; other site 640510000740 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 640510000741 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 640510000742 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 640510000743 catalytic residues [active] 640510000744 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 640510000745 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 640510000746 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 640510000747 Walker A motif; other site 640510000748 ATP binding site [chemical binding]; other site 640510000749 Walker B motif; other site 640510000750 arginine finger; other site 640510000751 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 640510000752 Membrane fusogenic activity; Region: BMFP; pfam04380 640510000753 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 640510000754 Nitrogen regulatory protein P-II; Region: P-II; smart00938 640510000755 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 640510000756 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 640510000757 Glutamate-cysteine ligase; Region: GshA; pfam08886 640510000758 glutathione synthetase; Provisional; Region: PRK05246 640510000759 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 640510000760 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 640510000761 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 640510000762 active pocket/dimerization site; other site 640510000763 active site 640510000764 phosphorylation site [posttranslational modification] 640510000765 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 640510000766 dimerization domain swap beta strand [polypeptide binding]; other site 640510000767 regulatory protein interface [polypeptide binding]; other site 640510000768 active site 640510000769 regulatory phosphorylation site [posttranslational modification]; other site 640510000770 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 640510000771 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 640510000772 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 640510000773 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 640510000774 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 640510000775 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 640510000776 ATP binding site [chemical binding]; other site 640510000777 substrate interface [chemical binding]; other site 640510000778 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 640510000779 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 640510000780 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 640510000781 protein binding site [polypeptide binding]; other site 640510000782 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 640510000783 Catalytic dyad [active] 640510000784 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 640510000785 catalytic core [active] 640510000786 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 640510000787 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 640510000788 active site residue [active] 640510000789 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 640510000790 GSH binding site [chemical binding]; other site 640510000791 catalytic residues [active] 640510000792 preprotein translocase subunit SecB; Validated; Region: PRK05751 640510000793 SecA binding site; other site 640510000794 Preprotein binding site; other site 640510000795 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 640510000796 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 640510000797 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 640510000798 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 640510000799 putative ADP-ribose binding site [chemical binding]; other site 640510000800 putative active site [active] 640510000801 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 640510000802 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 640510000803 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 640510000804 active site 640510000805 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 640510000806 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 640510000807 S-adenosylmethionine binding site [chemical binding]; other site 640510000808 Integral membrane protein (DUF2244); Region: DUF2244; pfam10003 640510000809 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 640510000810 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 640510000811 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 640510000812 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640510000813 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 640510000814 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640510000815 ligand binding site [chemical binding]; other site 640510000816 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 640510000817 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 640510000818 Subunit I/III interface [polypeptide binding]; other site 640510000819 D-pathway; other site 640510000820 Subunit I/VIIc interface [polypeptide binding]; other site 640510000821 Subunit I/IV interface [polypeptide binding]; other site 640510000822 Subunit I/II interface [polypeptide binding]; other site 640510000823 Low-spin heme (heme a) binding site [chemical binding]; other site 640510000824 Subunit I/VIIa interface [polypeptide binding]; other site 640510000825 Subunit I/VIa interface [polypeptide binding]; other site 640510000826 Dimer interface; other site 640510000827 Putative water exit pathway; other site 640510000828 Binuclear center (heme a3/CuB) [ion binding]; other site 640510000829 K-pathway; other site 640510000830 Subunit I/Vb interface [polypeptide binding]; other site 640510000831 Putative proton exit pathway; other site 640510000832 Subunit I/VIb interface; other site 640510000833 Subunit I/VIc interface [polypeptide binding]; other site 640510000834 Electron transfer pathway; other site 640510000835 Subunit I/VIIIb interface [polypeptide binding]; other site 640510000836 Subunit I/VIIb interface [polypeptide binding]; other site 640510000837 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 640510000838 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 640510000839 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 640510000840 Subunit III/VIIa interface [polypeptide binding]; other site 640510000841 Phospholipid binding site [chemical binding]; other site 640510000842 Subunit I/III interface [polypeptide binding]; other site 640510000843 Subunit III/VIb interface [polypeptide binding]; other site 640510000844 Subunit III/VIa interface; other site 640510000845 Subunit III/Vb interface [polypeptide binding]; other site 640510000846 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 640510000847 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 640510000848 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 640510000849 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 640510000850 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 640510000851 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 640510000852 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 640510000853 UbiA prenyltransferase family; Region: UbiA; pfam01040 640510000854 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 640510000855 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 640510000856 Cu(I) binding site [ion binding]; other site 640510000857 YCII-related domain; Region: YCII; cl00999 640510000858 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 640510000859 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 640510000860 MarR family; Region: MarR_2; pfam12802 640510000861 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640510000862 Coenzyme A binding pocket [chemical binding]; other site 640510000863 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 640510000864 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510000865 DNA-binding site [nucleotide binding]; DNA binding site 640510000866 UTRA domain; Region: UTRA; pfam07702 640510000867 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 640510000868 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 640510000869 active site 640510000870 dimer interface [polypeptide binding]; other site 640510000871 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 640510000872 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 640510000873 dimer interface [polypeptide binding]; other site 640510000874 active site 640510000875 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 640510000876 dimer interface [polypeptide binding]; other site 640510000877 active site 640510000878 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 640510000879 HPr interaction site; other site 640510000880 glycerol kinase (GK) interaction site [polypeptide binding]; other site 640510000881 active site 640510000882 phosphorylation site [posttranslational modification] 640510000883 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 640510000884 dimerization domain swap beta strand [polypeptide binding]; other site 640510000885 regulatory protein interface [polypeptide binding]; other site 640510000886 active site 640510000887 regulatory phosphorylation site [posttranslational modification]; other site 640510000888 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 640510000889 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 640510000890 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 640510000891 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 640510000892 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 640510000893 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 640510000894 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 640510000895 active site turn [active] 640510000896 phosphorylation site [posttranslational modification] 640510000897 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 640510000898 active site turn [active] 640510000899 phosphorylation site [posttranslational modification] 640510000900 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 640510000901 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 640510000902 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640510000903 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 640510000904 DNA binding residues [nucleotide binding] 640510000905 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 640510000906 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 640510000907 SnoaL-like domain; Region: SnoaL_3; pfam13474 640510000908 glycosyl transferase family protein; Provisional; Region: PRK08136 640510000909 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 640510000910 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 640510000911 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 640510000912 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 640510000913 maleylacetoacetate isomerase; Region: maiA; TIGR01262 640510000914 C-terminal domain interface [polypeptide binding]; other site 640510000915 GSH binding site (G-site) [chemical binding]; other site 640510000916 putative dimer interface [polypeptide binding]; other site 640510000917 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 640510000918 dimer interface [polypeptide binding]; other site 640510000919 N-terminal domain interface [polypeptide binding]; other site 640510000920 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 640510000921 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 640510000922 signal recognition particle-docking protein FtsY; Region: ftsY; TIGR00064 640510000923 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 640510000924 P loop; other site 640510000925 GTP binding site [chemical binding]; other site 640510000926 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 640510000927 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 640510000928 S-adenosylmethionine binding site [chemical binding]; other site 640510000929 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 640510000930 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 640510000931 active site 640510000932 (T/H)XGH motif; other site 640510000933 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 640510000934 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 640510000935 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 640510000936 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510000937 homodimer interface [polypeptide binding]; other site 640510000938 catalytic residue [active] 640510000939 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 640510000940 putative active site [active] 640510000941 catalytic residue [active] 640510000942 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 640510000943 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 640510000944 5S rRNA interface [nucleotide binding]; other site 640510000945 CTC domain interface [polypeptide binding]; other site 640510000946 L16 interface [polypeptide binding]; other site 640510000947 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 640510000948 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 640510000949 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 640510000950 active site 640510000951 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 640510000952 outer membrane lipoprotein LolB; Region: lolB; TIGR00548 640510000953 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 640510000954 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 640510000955 TPR motif; other site 640510000956 binding surface 640510000957 TPR repeat; Region: TPR_11; pfam13414 640510000958 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 640510000959 TPR motif; other site 640510000960 binding surface 640510000961 TPR repeat; Region: TPR_11; pfam13414 640510000962 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 640510000963 binding surface 640510000964 TPR motif; other site 640510000965 TPR repeat; Region: TPR_11; pfam13414 640510000966 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 640510000967 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 640510000968 DNA binding site [nucleotide binding] 640510000969 catalytic residue [active] 640510000970 H2TH interface [polypeptide binding]; other site 640510000971 putative catalytic residues [active] 640510000972 turnover-facilitating residue; other site 640510000973 intercalation triad [nucleotide binding]; other site 640510000974 8OG recognition residue [nucleotide binding]; other site 640510000975 putative reading head residues; other site 640510000976 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 640510000977 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 640510000978 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 640510000979 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 640510000980 minor groove reading motif; other site 640510000981 helix-hairpin-helix signature motif; other site 640510000982 substrate binding pocket [chemical binding]; other site 640510000983 active site 640510000984 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 640510000985 DNA binding and oxoG recognition site [nucleotide binding] 640510000986 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 640510000987 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 640510000988 HPr kinase/phosphorylase; Provisional; Region: PRK05428 640510000989 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 640510000990 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 640510000991 Hpr binding site; other site 640510000992 active site 640510000993 homohexamer subunit interaction site [polypeptide binding]; other site 640510000994 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 640510000995 active site 640510000996 phosphorylation site [posttranslational modification] 640510000997 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 640510000998 30S subunit binding site; other site 640510000999 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 640510001000 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 640510001001 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 640510001002 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 640510001003 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 640510001004 Walker A/P-loop; other site 640510001005 ATP binding site [chemical binding]; other site 640510001006 Q-loop/lid; other site 640510001007 ABC transporter signature motif; other site 640510001008 Walker B; other site 640510001009 D-loop; other site 640510001010 H-loop/switch region; other site 640510001011 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 640510001012 OstA-like protein; Region: OstA; pfam03968 640510001013 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 640510001014 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 640510001015 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 640510001016 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 640510001017 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 640510001018 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 640510001019 putative active site [active] 640510001020 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 640510001021 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 640510001022 putative cation:proton antiport protein; Provisional; Region: PRK10669 640510001023 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 640510001024 TrkA-N domain; Region: TrkA_N; pfam02254 640510001025 TrkA-C domain; Region: TrkA_C; pfam02080 640510001026 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 640510001027 active site 640510001028 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 640510001029 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 640510001030 nudix motif; other site 640510001031 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 640510001032 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 640510001033 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 640510001034 putative active site [active] 640510001035 putative substrate binding site [chemical binding]; other site 640510001036 putative cosubstrate binding site; other site 640510001037 catalytic site [active] 640510001038 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 640510001039 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 640510001040 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 640510001041 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 640510001042 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 640510001043 N-terminal plug; other site 640510001044 ligand-binding site [chemical binding]; other site 640510001045 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 640510001046 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 640510001047 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 640510001048 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 640510001049 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 640510001050 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510001051 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640510001052 putative substrate translocation pore; other site 640510001053 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 640510001054 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 640510001055 dimer interface [polypeptide binding]; other site 640510001056 ssDNA binding site [nucleotide binding]; other site 640510001057 tetramer (dimer of dimers) interface [polypeptide binding]; other site 640510001058 Tar ligand binding domain homologue; Region: TarH; pfam02203 640510001059 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 640510001060 dimerization interface [polypeptide binding]; other site 640510001061 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 640510001062 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640510001063 dimer interface [polypeptide binding]; other site 640510001064 putative CheW interface [polypeptide binding]; other site 640510001065 Cytochrome c; Region: Cytochrom_C; cl11414 640510001066 Cytochrome c; Region: Cytochrom_C; cl11414 640510001067 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 640510001068 Putative D-pathway homolog; other site 640510001069 Low-spin heme binding site [chemical binding]; other site 640510001070 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 640510001071 Subunit I/II interface [polypeptide binding]; other site 640510001072 Putative Q-pathway; other site 640510001073 Putative alternate electron transfer pathway; other site 640510001074 Putative water exit pathway; other site 640510001075 Binuclear center (active site) [active] 640510001076 Putative K-pathway homolog; other site 640510001077 Putative proton exit pathway; other site 640510001078 Subunit I/IIa interface [polypeptide binding]; other site 640510001079 Electron transfer pathway; other site 640510001080 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 640510001081 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640510001082 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640510001083 Cytochrome c; Region: Cytochrom_C; pfam00034 640510001084 Cytochrome c; Region: Cytochrom_C; cl11414 640510001085 Cytochrome c; Region: Cytochrom_C; cl11414 640510001086 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510001087 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510001088 The 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 640510001089 dimerization interface [polypeptide binding]; other site 640510001090 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510001091 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640510001092 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510001093 active site 640510001094 phosphorylation site [posttranslational modification] 640510001095 intermolecular recognition site; other site 640510001096 dimerization interface [polypeptide binding]; other site 640510001097 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 640510001098 DNA binding residues [nucleotide binding] 640510001099 dimerization interface [polypeptide binding]; other site 640510001100 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640510001101 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510001102 active site 640510001103 phosphorylation site [posttranslational modification] 640510001104 intermolecular recognition site; other site 640510001105 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 640510001106 DNA binding residues [nucleotide binding] 640510001107 dimerization interface [polypeptide binding]; other site 640510001108 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 640510001109 amphipathic channel; other site 640510001110 Asn-Pro-Ala signature motifs; other site 640510001111 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 640510001112 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 640510001113 substrate binding pocket [chemical binding]; other site 640510001114 membrane-bound complex binding site; other site 640510001115 hinge residues; other site 640510001116 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 640510001117 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 640510001118 substrate binding pocket [chemical binding]; other site 640510001119 membrane-bound complex binding site; other site 640510001120 hinge residues; other site 640510001121 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 640510001122 PAS domain; Region: PAS_9; pfam13426 640510001123 putative active site [active] 640510001124 heme pocket [chemical binding]; other site 640510001125 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 640510001126 dimer interface [polypeptide binding]; other site 640510001127 phosphorylation site [posttranslational modification] 640510001128 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510001129 ATP binding site [chemical binding]; other site 640510001130 Mg2+ binding site [ion binding]; other site 640510001131 G-X-G motif; other site 640510001132 Response regulator receiver domain; Region: Response_reg; pfam00072 640510001133 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510001134 active site 640510001135 phosphorylation site [posttranslational modification] 640510001136 intermolecular recognition site; other site 640510001137 dimerization interface [polypeptide binding]; other site 640510001138 CHRD domain; Region: CHRD; pfam07452 640510001139 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 640510001140 EcsC protein family; Region: EcsC; pfam12787 640510001141 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510001142 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640510001143 putative substrate translocation pore; other site 640510001144 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510001145 Transcriptional regulators [Transcription]; Region: MarR; COG1846 640510001146 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 640510001147 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 640510001148 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Bacterial Cryptic D-Serine Dehydratase; Region: PLPDE_III_cryptic_DSD; cd06818 640510001149 dimer interface [polypeptide binding]; other site 640510001150 active site 640510001151 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 640510001152 substrate binding site [chemical binding]; other site 640510001153 catalytic residue [active] 640510001154 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 640510001155 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 640510001156 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 640510001157 putative active site [active] 640510001158 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 640510001159 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 640510001160 active site 640510001161 putative substrate binding pocket [chemical binding]; other site 640510001162 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 640510001163 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 640510001164 homotrimer interaction site [polypeptide binding]; other site 640510001165 putative active site [active] 640510001166 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 640510001167 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 640510001168 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 640510001169 5'-nucleotidase; Region: 5-nucleotidase; pfam06189 640510001170 threonine dehydratase; Reviewed; Region: PRK09224 640510001171 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 640510001172 tetramer interface [polypeptide binding]; other site 640510001173 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510001174 catalytic residue [active] 640510001175 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 640510001176 putative Ile/Val binding site [chemical binding]; other site 640510001177 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 640510001178 putative Ile/Val binding site [chemical binding]; other site 640510001179 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 640510001180 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 640510001181 putative NAD(P) binding site [chemical binding]; other site 640510001182 active site 640510001183 DoxX-like family; Region: DoxX_3; pfam13781 640510001184 Predicted integral membrane protein (DUF2269); Region: DUF2269; pfam10027 640510001185 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 640510001186 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 640510001187 FAD binding domain; Region: FAD_binding_4; pfam01565 640510001188 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 640510001189 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 640510001190 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 640510001191 Cysteine-rich domain; Region: CCG; pfam02754 640510001192 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 640510001193 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 640510001194 nucleotide binding site/active site [active] 640510001195 HIT family signature motif; other site 640510001196 catalytic residue [active] 640510001197 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 640510001198 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 640510001199 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 640510001200 S-adenosylmethionine binding site [chemical binding]; other site 640510001201 Tim44 is an essential component of the machinery that mediates the translocation of nuclear-encoded proteins across the mitochondrial inner membrane; Region: Tim44; smart00978 640510001202 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 640510001203 SCP-2 sterol transfer family; Region: SCP2; pfam02036 640510001204 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 640510001205 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 640510001206 Thiopurine S-methyltransferase (TPMT); Region: TPMT; pfam05724 640510001207 Methyltransferase domain; Region: Methyltransf_12; pfam08242 640510001208 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 640510001209 Uncharacterized conserved protein [Function unknown]; Region: COG2928 640510001210 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 640510001211 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 640510001212 dimer interface [polypeptide binding]; other site 640510001213 anticodon binding site; other site 640510001214 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 640510001215 homodimer interface [polypeptide binding]; other site 640510001216 motif 1; other site 640510001217 active site 640510001218 motif 2; other site 640510001219 GAD domain; Region: GAD; pfam02938 640510001220 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 640510001221 motif 3; other site 640510001222 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 640510001223 nudix motif; other site 640510001224 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 640510001225 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 640510001226 putative active site [active] 640510001227 catalytic site [active] 640510001228 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 640510001229 putative active site [active] 640510001230 catalytic site [active] 640510001231 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640510001232 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640510001233 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 640510001234 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 640510001235 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 640510001236 FAD binding site [chemical binding]; other site 640510001237 substrate binding site [chemical binding]; other site 640510001238 catalytic residues [active] 640510001239 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 640510001240 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 640510001241 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 640510001242 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 640510001243 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 640510001244 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 640510001245 substrate binding site [chemical binding]; other site 640510001246 oxyanion hole (OAH) forming residues; other site 640510001247 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 640510001248 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 640510001249 dimer interface [polypeptide binding]; other site 640510001250 active site 640510001251 enoyl-CoA hydratase; Provisional; Region: PRK06688 640510001252 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 640510001253 substrate binding site [chemical binding]; other site 640510001254 oxyanion hole (OAH) forming residues; other site 640510001255 trimer interface [polypeptide binding]; other site 640510001256 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 640510001257 Conserved nitrate reductase-associated protein (Nitr_red_assoc); Region: Nitr_red_assoc; pfam09655 640510001258 PAS domain; Region: PAS_8; pfam13188 640510001259 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 640510001260 PAS domain; Region: PAS_9; pfam13426 640510001261 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 640510001262 putative active site [active] 640510001263 heme pocket [chemical binding]; other site 640510001264 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640510001265 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640510001266 metal binding site [ion binding]; metal-binding site 640510001267 active site 640510001268 I-site; other site 640510001269 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 640510001270 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 640510001271 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 640510001272 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 640510001273 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 640510001274 Walker A/P-loop; other site 640510001275 ATP binding site [chemical binding]; other site 640510001276 Q-loop/lid; other site 640510001277 ABC transporter signature motif; other site 640510001278 Walker B; other site 640510001279 D-loop; other site 640510001280 H-loop/switch region; other site 640510001281 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 640510001282 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 640510001283 Substrate binding site; other site 640510001284 metal-binding site 640510001285 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 640510001286 Phosphotransferase enzyme family; Region: APH; pfam01636 640510001287 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 640510001288 Organic solvent tolerance protein; Region: OstA_C; pfam04453 640510001289 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 640510001290 SurA N-terminal domain; Region: SurA_N; pfam09312 640510001291 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 640510001292 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 640510001293 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK01909 640510001294 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 640510001295 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 640510001296 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 640510001297 EamA-like transporter family; Region: EamA; pfam00892 640510001298 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640510001299 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 640510001300 trimer interface [polypeptide binding]; other site 640510001301 eyelet of channel; other site 640510001302 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640510001303 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 640510001304 dimer interface [polypeptide binding]; other site 640510001305 active site 640510001306 metal binding site [ion binding]; metal-binding site 640510001307 glutathione binding site [chemical binding]; other site 640510001308 Protein of unknown function DUF45; Region: DUF45; pfam01863 640510001309 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 640510001310 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 640510001311 putative acyl-acceptor binding pocket; other site 640510001312 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 640510001313 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 640510001314 active site 640510001315 motif I; other site 640510001316 motif II; other site 640510001317 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 640510001318 DALR anticodon binding domain; Region: DALR_1; pfam05746 640510001319 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 640510001320 dimer interface [polypeptide binding]; other site 640510001321 motif 1; other site 640510001322 active site 640510001323 motif 2; other site 640510001324 motif 3; other site 640510001325 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 640510001326 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 640510001327 active site 640510001328 FMN binding site [chemical binding]; other site 640510001329 substrate binding site [chemical binding]; other site 640510001330 3Fe-4S cluster binding site [ion binding]; other site 640510001331 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 640510001332 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 640510001333 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 640510001334 nudix motif; other site 640510001335 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 640510001336 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 640510001337 ligand binding site [chemical binding]; other site 640510001338 homodimer interface [polypeptide binding]; other site 640510001339 NAD(P) binding site [chemical binding]; other site 640510001340 trimer interface B [polypeptide binding]; other site 640510001341 trimer interface A [polypeptide binding]; other site 640510001342 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 640510001343 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 640510001344 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 640510001345 Predicted transcriptional regulator [Transcription]; Region: COG2378 640510001346 HTH domain; Region: HTH_11; pfam08279 640510001347 WYL domain; Region: WYL; pfam13280 640510001348 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 640510001349 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640510001350 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 640510001351 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 640510001352 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 640510001353 Protein of unknown function (DUF330); Region: DUF330; pfam03886 640510001354 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 640510001355 mce related protein; Region: MCE; pfam02470 640510001356 mce related protein; Region: MCE; pfam02470 640510001357 mce related protein; Region: MCE; pfam02470 640510001358 Paraquat-inducible protein A; Region: PqiA; pfam04403 640510001359 Paraquat-inducible protein A; Region: PqiA; pfam04403 640510001360 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 640510001361 YceI-like domain; Region: YceI; smart00867 640510001362 Uncharacterized conserved protein [Function unknown]; Region: COG2353 640510001363 citrate-proton symporter; Provisional; Region: PRK15075 640510001364 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510001365 putative substrate translocation pore; other site 640510001366 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 640510001367 Protein export membrane protein; Region: SecD_SecF; pfam02355 640510001368 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 640510001369 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 640510001370 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 640510001371 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 640510001372 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 640510001373 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 640510001374 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 640510001375 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 640510001376 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 640510001377 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 640510001378 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 640510001379 generic binding surface II; other site 640510001380 ssDNA binding site; other site 640510001381 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 640510001382 ATP binding site [chemical binding]; other site 640510001383 putative Mg++ binding site [ion binding]; other site 640510001384 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 640510001385 nucleotide binding region [chemical binding]; other site 640510001386 ATP-binding site [chemical binding]; other site 640510001387 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510001388 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510001389 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 640510001390 dimerization interface [polypeptide binding]; other site 640510001391 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 640510001392 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 640510001393 tetramer interface [polypeptide binding]; other site 640510001394 heme binding pocket [chemical binding]; other site 640510001395 NADPH binding site [chemical binding]; other site 640510001396 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 640510001397 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 640510001398 dimerization interface [polypeptide binding]; other site 640510001399 DPS ferroxidase diiron center [ion binding]; other site 640510001400 ion pore; other site 640510001401 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 640510001402 UbiA prenyltransferase family; Region: UbiA; pfam01040 640510001403 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 640510001404 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 640510001405 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 640510001406 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 640510001407 catalytic residue [active] 640510001408 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 640510001409 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 640510001410 Cysteine-rich domain; Region: CCG; pfam02754 640510001411 Cysteine-rich domain; Region: CCG; pfam02754 640510001412 FAD binding domain; Region: FAD_binding_4; pfam01565 640510001413 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 640510001414 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 640510001415 FAD binding domain; Region: FAD_binding_4; pfam01565 640510001416 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 640510001417 FAD binding domain; Region: FAD_binding_4; pfam01565 640510001418 ATP:cob(I)alamin adenosyltransferase; Region: PduO_Nterm; TIGR00636 640510001419 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 640510001420 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 640510001421 heme-binding site [chemical binding]; other site 640510001422 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 640510001423 FAD binding pocket [chemical binding]; other site 640510001424 FAD binding motif [chemical binding]; other site 640510001425 phosphate binding motif [ion binding]; other site 640510001426 beta-alpha-beta structure motif; other site 640510001427 NAD binding pocket [chemical binding]; other site 640510001428 Heme binding pocket [chemical binding]; other site 640510001429 Uncharacterized conserved small protein [Function unknown]; Region: COG5606 640510001430 non-specific DNA binding site [nucleotide binding]; other site 640510001431 salt bridge; other site 640510001432 sequence-specific DNA binding site [nucleotide binding]; other site 640510001433 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 640510001434 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 640510001435 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 640510001436 protease TldD; Provisional; Region: tldD; PRK10735 640510001437 nitrilase; Region: PLN02798 640510001438 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 640510001439 putative active site [active] 640510001440 catalytic triad [active] 640510001441 dimer interface [polypeptide binding]; other site 640510001442 TIGR02099 family protein; Region: TIGR02099 640510001443 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 640510001444 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 640510001445 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 640510001446 metal binding triad; other site 640510001447 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 640510001448 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 640510001449 metal binding triad; other site 640510001450 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 640510001451 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 640510001452 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 640510001453 Walker A/P-loop; other site 640510001454 ATP binding site [chemical binding]; other site 640510001455 Q-loop/lid; other site 640510001456 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 640510001457 ABC transporter signature motif; other site 640510001458 Walker B; other site 640510001459 D-loop; other site 640510001460 H-loop/switch region; other site 640510001461 NAD(+)/NADH kinase family protein; Provisional; Region: ppnK; PRK02155 640510001462 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 640510001463 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 640510001464 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 640510001465 ferrochelatase; Reviewed; Region: hemH; PRK00035 640510001466 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 640510001467 C-terminal domain interface [polypeptide binding]; other site 640510001468 active site 640510001469 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 640510001470 active site 640510001471 N-terminal domain interface [polypeptide binding]; other site 640510001472 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 640510001473 RNA binding surface [nucleotide binding]; other site 640510001474 GrpE; Region: GrpE; pfam01025 640510001475 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 640510001476 dimer interface [polypeptide binding]; other site 640510001477 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 640510001478 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 640510001479 catalytic residues [active] 640510001480 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 640510001481 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 640510001482 nucleotide binding site [chemical binding]; other site 640510001483 chaperone protein DnaJ; Provisional; Region: PRK10767 640510001484 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 640510001485 HSP70 interaction site [polypeptide binding]; other site 640510001486 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 640510001487 Zn binding sites [ion binding]; other site 640510001488 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 640510001489 dimer interface [polypeptide binding]; other site 640510001490 chorismate binding enzyme; Region: Chorismate_bind; cl10555 640510001491 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 640510001492 hypothetical protein; Provisional; Region: PRK07546 640510001493 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 640510001494 substrate-cofactor binding pocket; other site 640510001495 homodimer interface [polypeptide binding]; other site 640510001496 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510001497 catalytic residue [active] 640510001498 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 640510001499 oligomerization interface [polypeptide binding]; other site 640510001500 active site 640510001501 metal binding site [ion binding]; metal-binding site 640510001502 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 640510001503 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 640510001504 Substrate-binding site [chemical binding]; other site 640510001505 Substrate specificity [chemical binding]; other site 640510001506 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 640510001507 catalytic center binding site [active] 640510001508 ATP binding site [chemical binding]; other site 640510001509 poly(A) polymerase; Region: pcnB; TIGR01942 640510001510 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 640510001511 active site 640510001512 NTP binding site [chemical binding]; other site 640510001513 metal binding triad [ion binding]; metal-binding site 640510001514 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 640510001515 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 640510001516 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 640510001517 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 640510001518 DnaA regulatory inactivator Hda; Validated; Region: PRK08903 640510001519 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 640510001520 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 640510001521 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 640510001522 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 640510001523 dimerization interface [polypeptide binding]; other site 640510001524 putative ATP binding site [chemical binding]; other site 640510001525 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 640510001526 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 640510001527 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 640510001528 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510001529 ATP binding site [chemical binding]; other site 640510001530 Mg2+ binding site [ion binding]; other site 640510001531 G-X-G motif; other site 640510001532 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 640510001533 ATP binding site [chemical binding]; other site 640510001534 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 640510001535 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 640510001536 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 640510001537 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 640510001538 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 640510001539 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640510001540 ligand binding site [chemical binding]; other site 640510001541 translocation protein TolB; Provisional; Region: tolB; PRK02889 640510001542 TolB amino-terminal domain; Region: TolB_N; pfam04052 640510001543 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 640510001544 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 640510001545 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 640510001546 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 640510001547 TolA protein; Region: tolA_full; TIGR02794 640510001548 TolA protein; Region: tolA_full; TIGR02794 640510001549 TonB C terminal; Region: TonB_2; pfam13103 640510001550 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 640510001551 TolR protein; Region: tolR; TIGR02801 640510001552 TolQ protein; Region: tolQ; TIGR02796 640510001553 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 640510001554 active site 640510001555 malonic semialdehyde reductase; Provisional; Region: PRK10538 640510001556 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 640510001557 putative NAD(P) binding site [chemical binding]; other site 640510001558 homodimer interface [polypeptide binding]; other site 640510001559 homotetramer interface [polypeptide binding]; other site 640510001560 active site 640510001561 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 640510001562 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 640510001563 dimer interface [polypeptide binding]; other site 640510001564 active site 640510001565 glycine-pyridoxal phosphate binding site [chemical binding]; other site 640510001566 folate binding site [chemical binding]; other site 640510001567 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 640510001568 ATP cone domain; Region: ATP-cone; pfam03477 640510001569 Type II transport protein GspH; Region: GspH; pfam12019 640510001570 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 640510001571 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 640510001572 Protein of unknown function (DUF3318); Region: DUF3318; pfam11780 640510001573 Predicted membrane protein [Function unknown]; Region: COG5393 640510001574 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 640510001575 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 640510001576 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 640510001577 dimer interface [polypeptide binding]; other site 640510001578 decamer (pentamer of dimers) interface [polypeptide binding]; other site 640510001579 catalytic triad [active] 640510001580 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 640510001581 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 640510001582 FAD binding site [chemical binding]; other site 640510001583 substrate binding pocket [chemical binding]; other site 640510001584 catalytic base [active] 640510001585 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640510001586 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 640510001587 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 640510001588 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 640510001589 fumarylacetoacetase; Region: PLN02856 640510001590 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 640510001591 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 640510001592 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 640510001593 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510001594 putative substrate translocation pore; other site 640510001595 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 640510001596 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 640510001597 substrate binding site [chemical binding]; other site 640510001598 oxyanion hole (OAH) forming residues; other site 640510001599 trimer interface [polypeptide binding]; other site 640510001600 aspartate-alanine antiporter; Region: Asp_Ala_antiprt; TIGR03802 640510001601 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 640510001602 TrkA-C domain; Region: TrkA_C; pfam02080 640510001603 TrkA-C domain; Region: TrkA_C; pfam02080 640510001604 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 640510001605 aspartate 4-decarboxylase; Region: asp_4_decarbox; TIGR03801 640510001606 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 640510001607 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510001608 homodimer interface [polypeptide binding]; other site 640510001609 catalytic residue [active] 640510001610 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 640510001611 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640510001612 catalytic residue [active] 640510001613 major facilitator superfamily transporter; Provisional; Region: PRK05122 640510001614 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510001615 putative substrate translocation pore; other site 640510001616 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 640510001617 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 640510001618 catalytic loop [active] 640510001619 iron binding site [ion binding]; other site 640510001620 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 640510001621 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 640510001622 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 640510001623 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 640510001624 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640510001625 XdhC Rossmann domain; Region: XdhC_C; pfam13478 640510001626 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510001627 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510001628 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 640510001629 putative substrate binding pocket [chemical binding]; other site 640510001630 putative dimerization interface [polypeptide binding]; other site 640510001631 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 640510001632 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 640510001633 putative catalytic residue [active] 640510001634 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 640510001635 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 640510001636 BON domain; Region: BON; cl02771 640510001637 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 640510001638 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 640510001639 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510001640 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510001641 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 640510001642 putative dimerization interface [polypeptide binding]; other site 640510001643 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 640510001644 active site 640510001645 catalytic residues [active] 640510001646 metal binding site [ion binding]; metal-binding site 640510001647 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 640510001648 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640510001649 benzoate transport; Region: 2A0115; TIGR00895 640510001650 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510001651 putative substrate translocation pore; other site 640510001652 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510001653 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640510001654 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 640510001655 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 640510001656 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 640510001657 putative sugar binding sites [chemical binding]; other site 640510001658 Q-X-W motif; other site 640510001659 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 640510001660 active site 640510001661 GDP-Mannose binding site [chemical binding]; other site 640510001662 dimer interface [polypeptide binding]; other site 640510001663 modified nudix motif 640510001664 metal binding site [ion binding]; metal-binding site 640510001665 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640510001666 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 640510001667 conserved cys residue [active] 640510001668 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510001669 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 640510001670 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 640510001671 Substrate binding site; other site 640510001672 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 640510001673 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 640510001674 Bacterial sugar transferase; Region: Bac_transf; pfam02397 640510001675 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 640510001676 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 640510001677 SLBB domain; Region: SLBB; pfam10531 640510001678 tyrosine kinase; Provisional; Region: PRK11519 640510001679 Chain length determinant protein; Region: Wzz; pfam02706 640510001680 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 640510001681 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 640510001682 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 640510001683 NADP-binding site; other site 640510001684 homotetramer interface [polypeptide binding]; other site 640510001685 substrate binding site [chemical binding]; other site 640510001686 homodimer interface [polypeptide binding]; other site 640510001687 active site 640510001688 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 640510001689 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 640510001690 NADP binding site [chemical binding]; other site 640510001691 active site 640510001692 putative substrate binding site [chemical binding]; other site 640510001693 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640510001694 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 640510001695 putative glycosyl transferase; Provisional; Region: PRK10307 640510001696 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 640510001697 putative acyl transferase; Provisional; Region: PRK10502 640510001698 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 640510001699 putative trimer interface [polypeptide binding]; other site 640510001700 putative active site [active] 640510001701 putative substrate binding site [chemical binding]; other site 640510001702 putative CoA binding site [chemical binding]; other site 640510001703 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 640510001704 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 640510001705 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640510001706 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 640510001707 putative ADP-binding pocket [chemical binding]; other site 640510001708 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 640510001709 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640510001710 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 640510001711 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 640510001712 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640510001713 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 640510001714 Transcriptional regulator [Transcription]; Region: PaiB; COG2808 640510001715 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 640510001716 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510001717 DNA-binding site [nucleotide binding]; DNA binding site 640510001718 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 640510001719 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510001720 homodimer interface [polypeptide binding]; other site 640510001721 catalytic residue [active] 640510001722 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640510001723 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 640510001724 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 640510001725 Tannase and feruloyl esterase; Region: Tannase; pfam07519 640510001726 Transposase; Region: DEDD_Tnp_IS110; pfam01548 640510001727 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 640510001728 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 640510001729 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 640510001730 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 640510001731 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 640510001732 S-adenosylmethionine binding site [chemical binding]; other site 640510001733 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 640510001734 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640510001735 Methyltransferase domain; Region: Methyltransf_31; pfam13847 640510001736 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 640510001737 S-adenosylmethionine binding site [chemical binding]; other site 640510001738 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 640510001739 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 640510001740 active site 640510001741 catalytic tetrad [active] 640510001742 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640510001743 classical (c) SDRs; Region: SDR_c; cd05233 640510001744 NAD(P) binding site [chemical binding]; other site 640510001745 active site 640510001746 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510001747 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510001748 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 640510001749 putative effector binding pocket; other site 640510001750 putative dimerization interface [polypeptide binding]; other site 640510001751 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 640510001752 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 640510001753 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 640510001754 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510001755 putative substrate translocation pore; other site 640510001756 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640510001757 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640510001758 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510001759 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 640510001760 dimerization interface [polypeptide binding]; other site 640510001761 substrate binding pocket [chemical binding]; other site 640510001762 Transcriptional regulators [Transcription]; Region: FadR; COG2186 640510001763 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510001764 DNA-binding site [nucleotide binding]; DNA binding site 640510001765 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 640510001766 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510001767 D-galactonate transporter; Region: 2A0114; TIGR00893 640510001768 putative substrate translocation pore; other site 640510001769 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 640510001770 galactarate dehydratase; Region: galactar-dH20; TIGR03248 640510001771 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 640510001772 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 640510001773 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 640510001774 phosphate binding site [ion binding]; other site 640510001775 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 640510001776 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640510001777 putative ligand binding site [chemical binding]; other site 640510001778 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 640510001779 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 640510001780 Walker A/P-loop; other site 640510001781 ATP binding site [chemical binding]; other site 640510001782 Q-loop/lid; other site 640510001783 ABC transporter signature motif; other site 640510001784 Walker B; other site 640510001785 D-loop; other site 640510001786 H-loop/switch region; other site 640510001787 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 640510001788 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640510001789 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 640510001790 TM-ABC transporter signature motif; other site 640510001791 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 640510001792 TM-ABC transporter signature motif; other site 640510001793 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 640510001794 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 640510001795 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640510001796 putative ligand binding site [chemical binding]; other site 640510001797 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 640510001798 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640510001799 putative metal binding site [ion binding]; other site 640510001800 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl17904 640510001801 putative substrate translocation pore; other site 640510001802 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 640510001803 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 640510001804 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510001805 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510001806 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 640510001807 substrate binding pocket [chemical binding]; other site 640510001808 dimerization interface [polypeptide binding]; other site 640510001809 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 640510001810 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 640510001811 catalytic loop [active] 640510001812 iron binding site [ion binding]; other site 640510001813 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 640510001814 FAD binding pocket [chemical binding]; other site 640510001815 FAD binding motif [chemical binding]; other site 640510001816 phosphate binding motif [ion binding]; other site 640510001817 beta-alpha-beta structure motif; other site 640510001818 NAD binding pocket [chemical binding]; other site 640510001819 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 640510001820 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 640510001821 iron-sulfur cluster [ion binding]; other site 640510001822 [2Fe-2S] cluster binding site [ion binding]; other site 640510001823 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 640510001824 putative alpha subunit interface [polypeptide binding]; other site 640510001825 putative active site [active] 640510001826 putative substrate binding site [chemical binding]; other site 640510001827 Fe binding site [ion binding]; other site 640510001828 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 640510001829 inter-subunit interface; other site 640510001830 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 640510001831 [2Fe-2S] cluster binding site [ion binding]; other site 640510001832 gentisate 1,2-dioxygenase; Region: gentisate_1_2; TIGR02272 640510001833 Cupin domain; Region: Cupin_2; pfam07883 640510001834 Cupin domain; Region: Cupin_2; cl17218 640510001835 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 640510001836 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 640510001837 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 640510001838 maleylacetoacetate isomerase; Region: maiA; TIGR01262 640510001839 C-terminal domain interface [polypeptide binding]; other site 640510001840 GSH binding site (G-site) [chemical binding]; other site 640510001841 putative dimer interface [polypeptide binding]; other site 640510001842 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 640510001843 dimer interface [polypeptide binding]; other site 640510001844 N-terminal domain interface [polypeptide binding]; other site 640510001845 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 640510001846 MarR family; Region: MarR_2; cl17246 640510001847 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640510001848 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 640510001849 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 640510001850 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640510001851 active site 640510001852 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 640510001853 benzoate transport; Region: 2A0115; TIGR00895 640510001854 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510001855 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640510001856 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 640510001857 trimer interface [polypeptide binding]; other site 640510001858 eyelet of channel; other site 640510001859 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 640510001860 Rossmann-like domain; Region: Rossmann-like; pfam10727 640510001861 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 640510001862 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640510001863 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 640510001864 NAD(P) binding site [chemical binding]; other site 640510001865 catalytic residues [active] 640510001866 catalytic residues [active] 640510001867 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 640510001868 tartrate dehydrogenase; Region: TTC; TIGR02089 640510001869 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510001870 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510001871 The 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 640510001872 dimerization interface [polypeptide binding]; other site 640510001873 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 640510001874 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510001875 putative substrate translocation pore; other site 640510001876 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 640510001877 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 640510001878 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 640510001879 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 640510001880 phosphate binding site [ion binding]; other site 640510001881 Cupin domain; Region: Cupin_2; cl17218 640510001882 polyhydroxyalkanoate depolymerase, intracellular; Region: PHB_depoly_PhaZ; TIGR01849 640510001883 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 640510001884 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 640510001885 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 640510001886 putative C-terminal domain interface [polypeptide binding]; other site 640510001887 putative GSH binding site (G-site) [chemical binding]; other site 640510001888 putative dimer interface [polypeptide binding]; other site 640510001889 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 640510001890 putative N-terminal domain interface [polypeptide binding]; other site 640510001891 putative dimer interface [polypeptide binding]; other site 640510001892 putative substrate binding pocket (H-site) [chemical binding]; other site 640510001893 glutathione S-transferase; Provisional; Region: PRK15113 640510001894 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 640510001895 C-terminal domain interface [polypeptide binding]; other site 640510001896 GSH binding site (G-site) [chemical binding]; other site 640510001897 dimer interface [polypeptide binding]; other site 640510001898 C-terminal, alpha helical domain of an unknown subfamily 4 of Glutathione S-transferases; Region: GST_C_4; cd03195 640510001899 putative substrate binding pocket (H-site) [chemical binding]; other site 640510001900 N-terminal domain interface [polypeptide binding]; other site 640510001901 L-asparaginase II; Region: Asparaginase_II; pfam06089 640510001902 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510001903 metabolite-proton symporter; Region: 2A0106; TIGR00883 640510001904 putative substrate translocation pore; other site 640510001905 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 640510001906 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 640510001907 metal binding site [ion binding]; metal-binding site 640510001908 putative dimer interface [polypeptide binding]; other site 640510001909 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510001910 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510001911 The 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 640510001912 dimerization interface [polypeptide binding]; other site 640510001913 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 640510001914 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 640510001915 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 640510001916 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 640510001917 NAD(P) binding site [chemical binding]; other site 640510001918 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 640510001919 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510001920 putative substrate translocation pore; other site 640510001921 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 640510001922 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 640510001923 Cupin domain; Region: Cupin_2; pfam07883 640510001924 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 640510001925 chlorocatechol 1,2-dioxygenase; Region: chlorocat_1_2; TIGR02465 640510001926 active site 640510001927 Uncharacterized conserved protein [Function unknown]; Region: COG1359 640510001928 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510001929 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510001930 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 640510001931 putative dimerization interface [polypeptide binding]; other site 640510001932 lipoprotein signal peptidase; Provisional; Region: PRK14787 640510001933 Signal peptidase (SPase) II; Region: Peptidase_A8; pfam01252 640510001934 FAD dependent oxidoreductase; Region: DAO; pfam01266 640510001935 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 640510001936 YheO-like PAS domain; Region: PAS_6; pfam08348 640510001937 HTH domain; Region: HTH_22; pfam13309 640510001938 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 640510001939 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 640510001940 threonine synthase; Validated; Region: PRK08197 640510001941 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 640510001942 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640510001943 catalytic residue [active] 640510001944 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cl00216 640510001945 active site 640510001946 homodimer interface [polypeptide binding]; other site 640510001947 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 640510001948 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 640510001949 dimerization interface [polypeptide binding]; other site 640510001950 ligand binding site [chemical binding]; other site 640510001951 4Fe-4S single cluster domain; Region: Fer4_13; pfam13370 640510001952 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 640510001953 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 640510001954 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 640510001955 Cl- selectivity filter; other site 640510001956 Cl- binding residues [ion binding]; other site 640510001957 pore gating glutamate residue; other site 640510001958 dimer interface [polypeptide binding]; other site 640510001959 FOG: CBS domain [General function prediction only]; Region: COG0517 640510001960 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 640510001961 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 640510001962 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 640510001963 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 640510001964 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 640510001965 haemagglutination activity domain; Region: Haemagg_act; pfam05860 640510001966 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 640510001967 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 640510001968 putative active site [active] 640510001969 catalytic site [active] 640510001970 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 640510001971 putative active site [active] 640510001972 catalytic site [active] 640510001973 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 640510001974 oligomerisation interface [polypeptide binding]; other site 640510001975 mobile loop; other site 640510001976 roof hairpin; other site 640510001977 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 640510001978 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 640510001979 ring oligomerisation interface [polypeptide binding]; other site 640510001980 ATP/Mg binding site [chemical binding]; other site 640510001981 stacking interactions; other site 640510001982 hinge regions; other site 640510001983 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 640510001984 ligand-binding site [chemical binding]; other site 640510001985 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 640510001986 dimer interface [polypeptide binding]; other site 640510001987 substrate binding site [chemical binding]; other site 640510001988 ATP binding site [chemical binding]; other site 640510001989 Rubredoxin [Energy production and conversion]; Region: COG1773 640510001990 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 640510001991 iron binding site [ion binding]; other site 640510001992 hypothetical protein; Validated; Region: PRK00228 640510001993 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 640510001994 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 640510001995 active site 640510001996 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 640510001997 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 640510001998 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 640510001999 dihydroorotase; Provisional; Region: PRK07627 640510002000 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 640510002001 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 640510002002 active site 640510002003 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 640510002004 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 640510002005 putative acyl-acceptor binding pocket; other site 640510002006 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 640510002007 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 640510002008 active site 640510002009 metal binding site [ion binding]; metal-binding site 640510002010 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 640510002011 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 640510002012 NADP-binding site; other site 640510002013 homotetramer interface [polypeptide binding]; other site 640510002014 substrate binding site [chemical binding]; other site 640510002015 homodimer interface [polypeptide binding]; other site 640510002016 active site 640510002017 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 640510002018 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 640510002019 NAD binding site [chemical binding]; other site 640510002020 substrate binding site [chemical binding]; other site 640510002021 homodimer interface [polypeptide binding]; other site 640510002022 active site 640510002023 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 640510002024 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 640510002025 substrate binding site; other site 640510002026 tetramer interface; other site 640510002027 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 640510002028 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 640510002029 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 640510002030 NADP binding site [chemical binding]; other site 640510002031 active site 640510002032 putative substrate binding site [chemical binding]; other site 640510002033 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 640510002034 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 640510002035 Substrate binding site; other site 640510002036 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 640510002037 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 640510002038 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 640510002039 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 640510002040 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 640510002041 Walker A/P-loop; other site 640510002042 ATP binding site [chemical binding]; other site 640510002043 Q-loop/lid; other site 640510002044 ABC transporter signature motif; other site 640510002045 Walker B; other site 640510002046 D-loop; other site 640510002047 H-loop/switch region; other site 640510002048 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 640510002049 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 640510002050 acyl-activating enzyme (AAE) consensus motif; other site 640510002051 active site 640510002052 AMP binding site [chemical binding]; other site 640510002053 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u6; cd10930 640510002054 NodB motif; other site 640510002055 putative active site [active] 640510002056 putative catalytic site [active] 640510002057 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 640510002058 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 640510002059 active site 640510002060 homodimer interface [polypeptide binding]; other site 640510002061 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 640510002062 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640510002063 putative homodimer interface [polypeptide binding]; other site 640510002064 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640510002065 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 640510002066 putative ADP-binding pocket [chemical binding]; other site 640510002067 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 640510002068 hydroxyglutarate oxidase; Provisional; Region: PRK11728 640510002069 FAD dependent oxidoreductase; Region: DAO; pfam01266 640510002070 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 640510002071 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 640510002072 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 640510002073 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 640510002074 Ligand binding site; other site 640510002075 Putative Catalytic site; other site 640510002076 DXD motif; other site 640510002077 Methyltransferase domain; Region: Methyltransf_12; pfam08242 640510002078 Methyltransferase domain; Region: Methyltransf_23; pfam13489 640510002079 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 640510002080 S-adenosylmethionine binding site [chemical binding]; other site 640510002081 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 640510002082 catalytic core [active] 640510002083 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 640510002084 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640510002085 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640510002086 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 640510002087 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640510002088 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 640510002089 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 640510002090 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640510002091 Myxococcus xanthus RfbC like proteins are required for O-antigen biosynthesis; Region: GT2_RfbC_Mx_like; cd04184 640510002092 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 640510002093 Probable Catalytic site; other site 640510002094 metal-binding site 640510002095 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 640510002096 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 640510002097 Probable Catalytic site; other site 640510002098 metal-binding site 640510002099 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 640510002100 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640510002101 glutathione reductase; Region: PLN02546 640510002102 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 640510002103 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510002104 NAD(P) binding site [chemical binding]; other site 640510002105 active site 640510002106 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 640510002107 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 640510002108 Mg++ binding site [ion binding]; other site 640510002109 putative catalytic motif [active] 640510002110 putative substrate binding site [chemical binding]; other site 640510002111 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 640510002112 CoA binding domain; Region: CoA_binding; cl17356 640510002113 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 640510002114 NAD(P) binding site [chemical binding]; other site 640510002115 homodimer interface [polypeptide binding]; other site 640510002116 substrate binding site [chemical binding]; other site 640510002117 active site 640510002118 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 640510002119 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 640510002120 Mg++ binding site [ion binding]; other site 640510002121 putative catalytic motif [active] 640510002122 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 640510002123 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 640510002124 dimerization interface [polypeptide binding]; other site 640510002125 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640510002126 dimer interface [polypeptide binding]; other site 640510002127 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 640510002128 putative CheW interface [polypeptide binding]; other site 640510002129 UDP-glucose 4-epimerase; Region: PLN02240 640510002130 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 640510002131 NAD binding site [chemical binding]; other site 640510002132 homodimer interface [polypeptide binding]; other site 640510002133 active site 640510002134 substrate binding site [chemical binding]; other site 640510002135 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 640510002136 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640510002137 putative ADP-binding pocket [chemical binding]; other site 640510002138 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 640510002139 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 640510002140 active site 640510002141 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 640510002142 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 640510002143 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 640510002144 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 640510002145 active site 640510002146 substrate binding site [chemical binding]; other site 640510002147 metal binding site [ion binding]; metal-binding site 640510002148 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 640510002149 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 640510002150 putative active site [active] 640510002151 3-deoxy-D-manno-oct-2-ulosonic acid (Kdo) hydroxylase; Region: Kdo_hydroxy; pfam11004 640510002152 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 640510002153 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 640510002154 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 640510002155 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 640510002156 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 640510002157 UreF; Region: UreF; pfam01730 640510002158 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 640510002159 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 640510002160 dimer interface [polypeptide binding]; other site 640510002161 catalytic residues [active] 640510002162 urease subunit alpha; Reviewed; Region: ureC; PRK13207 640510002163 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 640510002164 subunit interactions [polypeptide binding]; other site 640510002165 active site 640510002166 flap region; other site 640510002167 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 640510002168 gamma-beta subunit interface [polypeptide binding]; other site 640510002169 alpha-beta subunit interface [polypeptide binding]; other site 640510002170 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 640510002171 alpha-gamma subunit interface [polypeptide binding]; other site 640510002172 beta-gamma subunit interface [polypeptide binding]; other site 640510002173 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 640510002174 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 640510002175 substrate binding pocket [chemical binding]; other site 640510002176 membrane-bound complex binding site; other site 640510002177 hinge residues; other site 640510002178 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 640510002179 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 640510002180 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 640510002181 Walker A/P-loop; other site 640510002182 ATP binding site [chemical binding]; other site 640510002183 Q-loop/lid; other site 640510002184 ABC transporter signature motif; other site 640510002185 Walker B; other site 640510002186 D-loop; other site 640510002187 H-loop/switch region; other site 640510002188 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 640510002189 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 640510002190 Walker A/P-loop; other site 640510002191 ATP binding site [chemical binding]; other site 640510002192 Q-loop/lid; other site 640510002193 ABC transporter signature motif; other site 640510002194 Walker B; other site 640510002195 D-loop; other site 640510002196 H-loop/switch region; other site 640510002197 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 640510002198 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 640510002199 TM-ABC transporter signature motif; other site 640510002200 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 640510002201 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640510002202 TM-ABC transporter signature motif; other site 640510002203 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 640510002204 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 640510002205 putative ligand binding site [chemical binding]; other site 640510002206 Protein of unknown function (DUF3443); Region: DUF3443; pfam11925 640510002207 Protein of unknown function (DUF2844); Region: DUF2844; pfam11005 640510002208 Protein of unknown function (DUF3443); Region: DUF3443; pfam11925 640510002209 Protein of unknown function (DUF2844); Region: DUF2844; pfam11005 640510002210 short chain dehydrogenase; Provisional; Region: PRK06500 640510002211 classical (c) SDRs; Region: SDR_c; cd05233 640510002212 NAD(P) binding site [chemical binding]; other site 640510002213 active site 640510002214 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 640510002215 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510002216 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 640510002217 putative effector binding pocket; other site 640510002218 dimerization interface [polypeptide binding]; other site 640510002219 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 640510002220 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 640510002221 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 640510002222 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 640510002223 active site residue [active] 640510002224 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 640510002225 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 640510002226 S-adenosylmethionine binding site [chemical binding]; other site 640510002227 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640510002228 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640510002229 DNA binding site [nucleotide binding] 640510002230 domain linker motif; other site 640510002231 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 640510002232 dimerization interface [polypeptide binding]; other site 640510002233 ligand binding site [chemical binding]; other site 640510002234 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 640510002235 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 640510002236 Walker A/P-loop; other site 640510002237 ATP binding site [chemical binding]; other site 640510002238 Q-loop/lid; other site 640510002239 ABC transporter signature motif; other site 640510002240 Walker B; other site 640510002241 D-loop; other site 640510002242 H-loop/switch region; other site 640510002243 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 640510002244 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640510002245 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 640510002246 TM-ABC transporter signature motif; other site 640510002247 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_3; cd06311 640510002248 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640510002249 putative ligand binding site [chemical binding]; other site 640510002250 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 640510002251 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 640510002252 Metal-binding active site; metal-binding site 640510002253 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 640510002254 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 640510002255 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 640510002256 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 640510002257 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 640510002258 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 640510002259 putative ligand binding site [chemical binding]; other site 640510002260 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12684 640510002261 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510002262 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 640510002263 substrate binding site [chemical binding]; other site 640510002264 dimerization interface [polypeptide binding]; other site 640510002265 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 640510002266 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 640510002267 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 640510002268 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 640510002269 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 640510002270 Active Sites [active] 640510002271 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 640510002272 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 640510002273 Active Sites [active] 640510002274 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 640510002275 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 640510002276 CysD dimerization site [polypeptide binding]; other site 640510002277 G1 box; other site 640510002278 putative GEF interaction site [polypeptide binding]; other site 640510002279 GTP/Mg2+ binding site [chemical binding]; other site 640510002280 Switch I region; other site 640510002281 G2 box; other site 640510002282 G3 box; other site 640510002283 Switch II region; other site 640510002284 G4 box; other site 640510002285 G5 box; other site 640510002286 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 640510002287 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 640510002288 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 640510002289 active site 640510002290 SAM binding site [chemical binding]; other site 640510002291 homodimer interface [polypeptide binding]; other site 640510002292 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 640510002293 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 640510002294 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 640510002295 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 640510002296 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 640510002297 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 640510002298 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 640510002299 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 640510002300 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 640510002301 Peptidase family M23; Region: Peptidase_M23; pfam01551 640510002302 PAAR motif; Region: PAAR_motif; pfam05488 640510002303 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 640510002304 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 640510002305 putative active site [active] 640510002306 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 640510002307 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 640510002308 Predicted permeases [General function prediction only]; Region: COG0795 640510002309 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 640510002310 multifunctional aminopeptidase A; Provisional; Region: PRK00913 640510002311 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 640510002312 interface (dimer of trimers) [polypeptide binding]; other site 640510002313 Substrate-binding/catalytic site; other site 640510002314 Zn-binding sites [ion binding]; other site 640510002315 DNA polymerase III subunit chi; Validated; Region: PRK05728 640510002316 Protein of unknown function (DUF2486); Region: DUF2486; pfam10667 640510002317 Cytochrome c; Region: Cytochrom_C; cl11414 640510002318 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640510002319 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 640510002320 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 640510002321 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510002322 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 640510002323 putative dimerization interface [polypeptide binding]; other site 640510002324 putative substrate binding pocket [chemical binding]; other site 640510002325 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 640510002326 Protein of unknown function (DUF541); Region: SIMPL; cl01077 640510002327 Uncharacterized conserved protein [Function unknown]; Region: COG2947 640510002328 Cell division protein ZapA; Region: ZapA; pfam05164 640510002329 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 640510002330 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 640510002331 N-terminal plug; other site 640510002332 ligand-binding site [chemical binding]; other site 640510002333 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 640510002334 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 640510002335 ABC-ATPase subunit interface; other site 640510002336 dimer interface [polypeptide binding]; other site 640510002337 putative PBP binding regions; other site 640510002338 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 640510002339 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 640510002340 Walker A/P-loop; other site 640510002341 ATP binding site [chemical binding]; other site 640510002342 Q-loop/lid; other site 640510002343 ABC transporter signature motif; other site 640510002344 Walker B; other site 640510002345 D-loop; other site 640510002346 H-loop/switch region; other site 640510002347 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 640510002348 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 640510002349 putative dimer interface [polypeptide binding]; other site 640510002350 active site pocket [active] 640510002351 putative cataytic base [active] 640510002352 cobalamin synthase; Reviewed; Region: cobS; PRK00235 640510002353 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 640510002354 catalytic core [active] 640510002355 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 640510002356 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 640510002357 cobalamin binding residues [chemical binding]; other site 640510002358 putative BtuC binding residues; other site 640510002359 dimer interface [polypeptide binding]; other site 640510002360 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 640510002361 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 640510002362 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510002363 homodimer interface [polypeptide binding]; other site 640510002364 catalytic residue [active] 640510002365 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 640510002366 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 640510002367 homotrimer interface [polypeptide binding]; other site 640510002368 Walker A motif; other site 640510002369 GTP binding site [chemical binding]; other site 640510002370 Walker B motif; other site 640510002371 cobyric acid synthase; Provisional; Region: PRK00784 640510002372 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 640510002373 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 640510002374 catalytic triad [active] 640510002375 Predicted membrane protein [Function unknown]; Region: COG2259 640510002376 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 640510002377 CoenzymeA binding site [chemical binding]; other site 640510002378 subunit interaction site [polypeptide binding]; other site 640510002379 PHB binding site; other site 640510002380 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 640510002381 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 640510002382 P-loop; other site 640510002383 Magnesium ion binding site [ion binding]; other site 640510002384 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 640510002385 tetramerization interface [polypeptide binding]; other site 640510002386 active site 640510002387 pantoate--beta-alanine ligase; Region: panC; TIGR00018 640510002388 Pantoate-beta-alanine ligase; Region: PanC; cd00560 640510002389 active site 640510002390 ATP-binding site [chemical binding]; other site 640510002391 pantoate-binding site; other site 640510002392 HXXH motif; other site 640510002393 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 640510002394 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 640510002395 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 640510002396 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 640510002397 Surface antigen; Region: Bac_surface_Ag; pfam01103 640510002398 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 640510002399 Family of unknown function (DUF490); Region: DUF490; pfam04357 640510002400 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 640510002401 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 640510002402 active site 640510002403 HIGH motif; other site 640510002404 KMSKS motif; other site 640510002405 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 640510002406 tRNA binding surface [nucleotide binding]; other site 640510002407 anticodon binding site; other site 640510002408 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 640510002409 dimer interface [polypeptide binding]; other site 640510002410 putative tRNA-binding site [nucleotide binding]; other site 640510002411 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 640510002412 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640510002413 ligand binding site [chemical binding]; other site 640510002414 Domain of unknown function DUF59; Region: DUF59; pfam01883 640510002415 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 640510002416 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 640510002417 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 640510002418 Copper/zinc superoxide dismutase (SODC); Region: Sod_Cu; pfam00080 640510002419 E-class dimer interface [polypeptide binding]; other site 640510002420 P-class dimer interface [polypeptide binding]; other site 640510002421 active site 640510002422 Cu2+ binding site [ion binding]; other site 640510002423 Zn2+ binding site [ion binding]; other site 640510002424 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 640510002425 trimer interface [polypeptide binding]; other site 640510002426 active site 640510002427 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 640510002428 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 640510002429 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 640510002430 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640510002431 catalytic residue [active] 640510002432 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 640510002433 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 640510002434 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 640510002435 bifunctional glucokinase/RpiR family transcriptional regulator; Provisional; Region: PRK14101 640510002436 glucokinase; Provisional; Region: glk; PRK00292 640510002437 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 640510002438 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 640510002439 putative active site [active] 640510002440 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 640510002441 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 640510002442 putative active site [active] 640510002443 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 640510002444 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 640510002445 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 640510002446 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 640510002447 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 640510002448 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 640510002449 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510002450 putative PBP binding loops; other site 640510002451 dimer interface [polypeptide binding]; other site 640510002452 ABC-ATPase subunit interface; other site 640510002453 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 640510002454 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510002455 dimer interface [polypeptide binding]; other site 640510002456 conserved gate region; other site 640510002457 putative PBP binding loops; other site 640510002458 ABC-ATPase subunit interface; other site 640510002459 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 640510002460 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 640510002461 Walker A/P-loop; other site 640510002462 ATP binding site [chemical binding]; other site 640510002463 Q-loop/lid; other site 640510002464 ABC transporter signature motif; other site 640510002465 Walker B; other site 640510002466 D-loop; other site 640510002467 H-loop/switch region; other site 640510002468 TOBE domain; Region: TOBE; cl01440 640510002469 transcriptional regulator; Provisional; Region: PRK10632 640510002470 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510002471 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 640510002472 putative effector binding pocket; other site 640510002473 putative dimerization interface [polypeptide binding]; other site 640510002474 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 640510002475 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 640510002476 C-terminal domain interface [polypeptide binding]; other site 640510002477 GSH binding site (G-site) [chemical binding]; other site 640510002478 dimer interface [polypeptide binding]; other site 640510002479 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 640510002480 dimer interface [polypeptide binding]; other site 640510002481 substrate binding pocket (H-site) [chemical binding]; other site 640510002482 Predicted membrane protein [Function unknown]; Region: COG2860 640510002483 UPF0126 domain; Region: UPF0126; pfam03458 640510002484 UPF0126 domain; Region: UPF0126; pfam03458 640510002485 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 640510002486 Smr domain; Region: Smr; pfam01713 640510002487 thioredoxin reductase; Provisional; Region: PRK10262 640510002488 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 640510002489 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640510002490 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 640510002491 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 640510002492 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 640510002493 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 640510002494 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 640510002495 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510002496 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510002497 The 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 640510002498 dimerization interface [polypeptide binding]; other site 640510002499 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 640510002500 agmatinase; Region: agmatinase; TIGR01230 640510002501 oligomer interface [polypeptide binding]; other site 640510002502 putative active site [active] 640510002503 Mn binding site [ion binding]; other site 640510002504 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 640510002505 recombination factor protein RarA; Reviewed; Region: PRK13342 640510002506 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 640510002507 Walker A motif; other site 640510002508 ATP binding site [chemical binding]; other site 640510002509 Walker B motif; other site 640510002510 arginine finger; other site 640510002511 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 640510002512 seryl-tRNA synthetase; Provisional; Region: PRK05431 640510002513 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 640510002514 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 640510002515 dimer interface [polypeptide binding]; other site 640510002516 active site 640510002517 motif 1; other site 640510002518 motif 2; other site 640510002519 motif 3; other site 640510002520 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 640510002521 active site 640510002522 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640510002523 Coenzyme A binding pocket [chemical binding]; other site 640510002524 septum formation inhibitor; Reviewed; Region: PRK01973 640510002525 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 640510002526 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 640510002527 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 640510002528 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 640510002529 Switch I; other site 640510002530 Switch II; other site 640510002531 cell division topological specificity factor MinE; Provisional; Region: PRK13989 640510002532 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 640510002533 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 640510002534 putative ion selectivity filter; other site 640510002535 putative pore gating glutamate residue; other site 640510002536 putative H+/Cl- coupling transport residue; other site 640510002537 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 640510002538 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 640510002539 putative active site [active] 640510002540 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510002541 metabolite-proton symporter; Region: 2A0106; TIGR00883 640510002542 putative substrate translocation pore; other site 640510002543 Gram-negative bacterial tonB protein; Region: TonB; cl10048 640510002544 argininosuccinate lyase; Provisional; Region: PRK00855 640510002545 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 640510002546 active sites [active] 640510002547 tetramer interface [polypeptide binding]; other site 640510002548 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 640510002549 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 640510002550 sequence-specific DNA binding site [nucleotide binding]; other site 640510002551 salt bridge; other site 640510002552 Methyltransferase domain; Region: Methyltransf_31; pfam13847 640510002553 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 640510002554 S-adenosylmethionine binding site [chemical binding]; other site 640510002555 Peptidase M35-like domain of uncharacterized proteins; Region: M35_like_1; cd11007 640510002556 putative active site [active] 640510002557 putative Zn binding site [ion binding]; other site 640510002558 PAAR motif; Region: PAAR_motif; pfam05488 640510002559 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 640510002560 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 640510002561 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 640510002562 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 640510002563 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cl17708 640510002564 domain interfaces; other site 640510002565 active site 640510002566 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed; Region: PRK06975 640510002567 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 640510002568 active site 640510002569 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 640510002570 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 640510002571 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 640510002572 TPR motif; other site 640510002573 binding surface 640510002574 TIGR02646 family protein; Region: TIGR02646 640510002575 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 640510002576 active site 640510002577 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 640510002578 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510002579 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 640510002580 dimerization interface [polypeptide binding]; other site 640510002581 putative substrate binding pocket [chemical binding]; other site 640510002582 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 640510002583 active site 1 [active] 640510002584 dimer interface [polypeptide binding]; other site 640510002585 hexamer interface [polypeptide binding]; other site 640510002586 active site 2 [active] 640510002587 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 640510002588 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 640510002589 acetaldehyde dehydrogenase; Validated; Region: PRK08300 640510002590 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 640510002591 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 640510002592 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 640510002593 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 640510002594 active site 640510002595 catalytic residues [active] 640510002596 metal binding site [ion binding]; metal-binding site 640510002597 DmpG-like communication domain; Region: DmpG_comm; pfam07836 640510002598 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 640510002599 Spore germination protein; Region: Spore_permease; cl17796 640510002600 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640510002601 Coenzyme A binding pocket [chemical binding]; other site 640510002602 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 640510002603 arsenical-resistance protein; Region: acr3; TIGR00832 640510002604 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 640510002605 Low molecular weight phosphatase family; Region: LMWPc; cd00115 640510002606 active site 640510002607 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 640510002608 putative DNA binding site [nucleotide binding]; other site 640510002609 putative Zn2+ binding site [ion binding]; other site 640510002610 Cupin; Region: Cupin_6; pfam12852 640510002611 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 640510002612 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510002613 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 640510002614 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 640510002615 NAD(P) binding site [chemical binding]; other site 640510002616 oxidoreductase; Provisional; Region: PRK06196 640510002617 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 640510002618 putative NAD(P) binding site [chemical binding]; other site 640510002619 active site 640510002620 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 640510002621 NADP binding site [chemical binding]; other site 640510002622 active site 640510002623 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510002624 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 640510002625 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 640510002626 putative effector binding pocket; other site 640510002627 dimerization interface [polypeptide binding]; other site 640510002628 NmrA (a transcriptional regulator), HSCARG (an NADPH sensor), and triphenylmethane reductase (TMR) like proteins, atypical (a) SDRs; Region: NmrA_TMR_like_SDR_a; cd08947 640510002629 NmrA-like family; Region: NmrA; pfam05368 640510002630 NADP binding site [chemical binding]; other site 640510002631 Molybdenum cofactor biosynthesis protein F; Region: MoaF; pfam10703 640510002632 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640510002633 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 640510002634 DNA binding residues [nucleotide binding] 640510002635 dimerization interface [polypeptide binding]; other site 640510002636 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 640510002637 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640510002638 NAD(P) binding site [chemical binding]; other site 640510002639 catalytic residues [active] 640510002640 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510002641 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640510002642 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510002643 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 640510002644 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640510002645 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 640510002646 trimer interface [polypeptide binding]; other site 640510002647 eyelet of channel; other site 640510002648 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 640510002649 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640510002650 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 640510002651 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 640510002652 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510002653 putative substrate translocation pore; other site 640510002654 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR), subgroup 3, classical (c) SDR; Region: BKR_3_SDR_c; cd05345 640510002655 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 640510002656 putative NAD(P) binding site [chemical binding]; other site 640510002657 active site 640510002658 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640510002659 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 640510002660 NAD(P) binding site [chemical binding]; other site 640510002661 catalytic residues [active] 640510002662 catalytic residues [active] 640510002663 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 640510002664 dimer interface [polypeptide binding]; other site 640510002665 substrate binding site [chemical binding]; other site 640510002666 metal binding sites [ion binding]; metal-binding site 640510002667 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 640510002668 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 640510002669 GIY-YIG motif/motif A; other site 640510002670 putative active site [active] 640510002671 putative metal binding site [ion binding]; other site 640510002672 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 640510002673 Protein of unknown function, DUF482; Region: DUF482; pfam04339 640510002674 NAD synthetase; Provisional; Region: PRK13981 640510002675 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 640510002676 multimer interface [polypeptide binding]; other site 640510002677 active site 640510002678 catalytic triad [active] 640510002679 protein interface 1 [polypeptide binding]; other site 640510002680 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 640510002681 homodimer interface [polypeptide binding]; other site 640510002682 NAD binding pocket [chemical binding]; other site 640510002683 ATP binding pocket [chemical binding]; other site 640510002684 Mg binding site [ion binding]; other site 640510002685 active-site loop [active] 640510002686 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 640510002687 Nitrogen regulatory protein P-II; Region: P-II; smart00938 640510002688 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640510002689 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 640510002690 trimer interface [polypeptide binding]; other site 640510002691 eyelet of channel; other site 640510002692 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 640510002693 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 640510002694 Walker A/P-loop; other site 640510002695 ATP binding site [chemical binding]; other site 640510002696 Q-loop/lid; other site 640510002697 ABC transporter signature motif; other site 640510002698 Walker B; other site 640510002699 D-loop; other site 640510002700 H-loop/switch region; other site 640510002701 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640510002702 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510002703 dimer interface [polypeptide binding]; other site 640510002704 conserved gate region; other site 640510002705 putative PBP binding loops; other site 640510002706 ABC-ATPase subunit interface; other site 640510002707 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640510002708 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510002709 dimer interface [polypeptide binding]; other site 640510002710 conserved gate region; other site 640510002711 putative PBP binding loops; other site 640510002712 ABC-ATPase subunit interface; other site 640510002713 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional; Region: PRK15010 640510002714 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 640510002715 substrate binding pocket [chemical binding]; other site 640510002716 membrane-bound complex binding site; other site 640510002717 hinge residues; other site 640510002718 Pirin-related protein [General function prediction only]; Region: COG1741 640510002719 Pirin; Region: Pirin; pfam02678 640510002720 Heavy-metal resistance; Region: Metal_resist; pfam13801 640510002721 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 640510002722 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510002723 active site 640510002724 phosphorylation site [posttranslational modification] 640510002725 intermolecular recognition site; other site 640510002726 dimerization interface [polypeptide binding]; other site 640510002727 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 640510002728 DNA binding site [nucleotide binding] 640510002729 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 640510002730 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 640510002731 dimer interface [polypeptide binding]; other site 640510002732 phosphorylation site [posttranslational modification] 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 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 640510002738 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640510002739 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640510002740 metal binding site [ion binding]; metal-binding site 640510002741 active site 640510002742 I-site; other site 640510002743 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 640510002744 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510002745 dimer interface [polypeptide binding]; other site 640510002746 conserved gate region; other site 640510002747 putative PBP binding loops; other site 640510002748 ABC-ATPase subunit interface; other site 640510002749 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510002750 dimer interface [polypeptide binding]; other site 640510002751 conserved gate region; other site 640510002752 putative PBP binding loops; other site 640510002753 ABC-ATPase subunit interface; other site 640510002754 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 640510002755 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 640510002756 Walker A/P-loop; other site 640510002757 ATP binding site [chemical binding]; other site 640510002758 Q-loop/lid; other site 640510002759 ABC transporter signature motif; other site 640510002760 Walker B; other site 640510002761 D-loop; other site 640510002762 H-loop/switch region; other site 640510002763 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; pfam09821 640510002764 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 640510002765 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 640510002766 Walker A motif; other site 640510002767 ATP binding site [chemical binding]; other site 640510002768 Walker B motif; other site 640510002769 arginine finger; other site 640510002770 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 640510002771 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 640510002772 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 640510002773 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510002774 active site 640510002775 phosphorylation site [posttranslational modification] 640510002776 intermolecular recognition site; other site 640510002777 dimerization interface [polypeptide binding]; other site 640510002778 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 640510002779 Walker A motif; other site 640510002780 ATP binding site [chemical binding]; other site 640510002781 Walker B motif; other site 640510002782 arginine finger; other site 640510002783 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 640510002784 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 640510002785 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 640510002786 active site 640510002787 homotetramer interface [polypeptide binding]; other site 640510002788 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510002789 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640510002790 putative substrate translocation pore; other site 640510002791 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 640510002792 substrate binding site [chemical binding]; other site 640510002793 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 640510002794 additional DNA contacts [nucleotide binding]; other site 640510002795 mismatch recognition site; other site 640510002796 active site 640510002797 zinc binding site [ion binding]; other site 640510002798 DNA intercalation site [nucleotide binding]; other site 640510002799 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510002800 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510002801 The 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 640510002802 dimerization interface [polypeptide binding]; other site 640510002803 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510002804 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510002805 The 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 640510002806 dimerization interface [polypeptide binding]; other site 640510002807 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 640510002808 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 640510002809 Walker A/P-loop; other site 640510002810 ATP binding site [chemical binding]; other site 640510002811 Q-loop/lid; other site 640510002812 ABC transporter signature motif; other site 640510002813 Walker B; other site 640510002814 D-loop; other site 640510002815 H-loop/switch region; other site 640510002816 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510002817 dimer interface [polypeptide binding]; other site 640510002818 conserved gate region; other site 640510002819 putative PBP binding loops; other site 640510002820 ABC-ATPase subunit interface; other site 640510002821 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640510002822 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510002823 dimer interface [polypeptide binding]; other site 640510002824 conserved gate region; other site 640510002825 putative PBP binding loops; other site 640510002826 ABC-ATPase subunit interface; other site 640510002827 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 640510002828 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 640510002829 substrate binding pocket [chemical binding]; other site 640510002830 membrane-bound complex binding site; other site 640510002831 hinge residues; other site 640510002832 CheD chemotactic sensory transduction; Region: CheD; cl00810 640510002833 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 640510002834 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510002835 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 640510002836 putative dimerization interface [polypeptide binding]; other site 640510002837 Serine hydrolase; Region: Ser_hydrolase; cl17834 640510002838 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640510002839 DNA cytosine methylase; Provisional; Region: PRK10458 640510002840 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 640510002841 cofactor binding site; other site 640510002842 DNA binding site [nucleotide binding] 640510002843 substrate interaction site [chemical binding]; other site 640510002844 CsbD-like; Region: CsbD; pfam05532 640510002845 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 640510002846 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 640510002847 C-terminal domain interface [polypeptide binding]; other site 640510002848 GSH binding site (G-site) [chemical binding]; other site 640510002849 dimer interface [polypeptide binding]; other site 640510002850 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 640510002851 dimer interface [polypeptide binding]; other site 640510002852 N-terminal domain interface [polypeptide binding]; other site 640510002853 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 640510002854 Predicted periplasmic lipoprotein (DUF2279); Region: DUF2279; pfam10043 640510002855 Rubredoxin [Energy production and conversion]; Region: COG1773 640510002856 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 640510002857 iron binding site [ion binding]; other site 640510002858 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 640510002859 ABC transporter ATPase component; Reviewed; Region: PRK11147 640510002860 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640510002861 Walker A/P-loop; other site 640510002862 ATP binding site [chemical binding]; other site 640510002863 Q-loop/lid; other site 640510002864 ABC transporter signature motif; other site 640510002865 Walker B; other site 640510002866 D-loop; other site 640510002867 H-loop/switch region; other site 640510002868 ABC transporter; Region: ABC_tran_2; pfam12848 640510002869 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 640510002870 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 640510002871 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510002872 ATP binding site [chemical binding]; other site 640510002873 Mg2+ binding site [ion binding]; other site 640510002874 G-X-G motif; other site 640510002875 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 640510002876 anchoring element; other site 640510002877 dimer interface [polypeptide binding]; other site 640510002878 ATP binding site [chemical binding]; other site 640510002879 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 640510002880 active site 640510002881 metal binding site [ion binding]; metal-binding site 640510002882 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 640510002883 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 640510002884 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 640510002885 CAP-like domain; other site 640510002886 active site 640510002887 primary dimer interface [polypeptide binding]; other site 640510002888 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 640510002889 Predicted integral membrane protein [Function unknown]; Region: COG5615 640510002890 Chromate transporter; Region: Chromate_transp; pfam02417 640510002891 Chromate transporter; Region: Chromate_transp; pfam02417 640510002892 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640510002893 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640510002894 metal binding site [ion binding]; metal-binding site 640510002895 active site 640510002896 I-site; other site 640510002897 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 640510002898 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 640510002899 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 640510002900 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 640510002901 homotrimer interaction site [polypeptide binding]; other site 640510002902 putative active site [active] 640510002903 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 640510002904 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 640510002905 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510002906 homodimer interface [polypeptide binding]; other site 640510002907 catalytic residue [active] 640510002908 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 640510002909 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 640510002910 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510002911 DNA-binding site [nucleotide binding]; DNA binding site 640510002912 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 640510002913 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510002914 homodimer interface [polypeptide binding]; other site 640510002915 catalytic residue [active] 640510002916 heat shock protein 90; Provisional; Region: PRK05218 640510002917 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510002918 ATP binding site [chemical binding]; other site 640510002919 Mg2+ binding site [ion binding]; other site 640510002920 G-X-G motif; other site 640510002921 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 640510002922 binding surface 640510002923 Tetratricopeptide repeat; Region: TPR_16; pfam13432 640510002924 TPR motif; other site 640510002925 TPR repeat; Region: TPR_11; pfam13414 640510002926 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 640510002927 binding surface 640510002928 TPR motif; other site 640510002929 Tetratricopeptide repeat; Region: TPR_12; pfam13424 640510002930 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 640510002931 putative outer membrane lipoprotein; Provisional; Region: PRK09967 640510002932 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640510002933 ligand binding site [chemical binding]; other site 640510002934 Chorismate lyase; Region: Chor_lyase; cl01230 640510002935 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 640510002936 putative active site [active] 640510002937 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 640510002938 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 640510002939 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 640510002940 Na binding site [ion binding]; other site 640510002941 Predicted membrane protein [Function unknown]; Region: COG1289 640510002942 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 640510002943 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 640510002944 dimer interface [polypeptide binding]; other site 640510002945 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640510002946 transaldolase-like protein; Provisional; Region: PTZ00411 640510002947 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 640510002948 active site 640510002949 dimer interface [polypeptide binding]; other site 640510002950 catalytic residue [active] 640510002951 benzoate transporter; Region: benE; TIGR00843 640510002952 Benzoate membrane transport protein; Region: BenE; pfam03594 640510002953 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 640510002954 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 640510002955 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 640510002956 Walker A motif; other site 640510002957 ATP binding site [chemical binding]; other site 640510002958 Walker B motif; other site 640510002959 arginine finger; other site 640510002960 Cytochrome c; Region: Cytochrom_C; cl11414 640510002961 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640510002962 Cytochrome c; Region: Cytochrom_C; cl11414 640510002963 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 640510002964 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 640510002965 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 640510002966 minor groove reading motif; other site 640510002967 helix-hairpin-helix signature motif; other site 640510002968 substrate binding pocket [chemical binding]; other site 640510002969 active site 640510002970 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 640510002971 ferredoxin; Provisional; Region: PRK06991 640510002972 Putative Fe-S cluster; Region: FeS; pfam04060 640510002973 4Fe-4S binding domain; Region: Fer4; pfam00037 640510002974 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 640510002975 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640510002976 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 640510002977 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 640510002978 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 640510002979 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 640510002980 Protein of unknown function (DUF3096); Region: DUF3096; pfam11295 640510002981 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 640510002982 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 640510002983 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 640510002984 META domain; Region: META; pfam03724 640510002985 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 640510002986 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510002987 ATP-grasp domain; Region: ATP-grasp; pfam02222 640510002988 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 640510002989 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 640510002990 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 640510002991 acetolactate synthase; Reviewed; Region: PRK08322 640510002992 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 640510002993 PYR/PP interface [polypeptide binding]; other site 640510002994 dimer interface [polypeptide binding]; other site 640510002995 TPP binding site [chemical binding]; other site 640510002996 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 640510002997 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 640510002998 TPP-binding site [chemical binding]; other site 640510002999 dimer interface [polypeptide binding]; other site 640510003000 Aldehyde dehydrogenase family 21A1-like; Region: ALDH_F21_RNP123; cd07147 640510003001 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640510003002 NAD(P) binding site [chemical binding]; other site 640510003003 catalytic residues [active] 640510003004 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 640510003005 DEAD-like helicases superfamily; Region: DEXDc; smart00487 640510003006 ATP binding site [chemical binding]; other site 640510003007 Mg++ binding site [ion binding]; other site 640510003008 motif III; other site 640510003009 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 640510003010 nucleotide binding region [chemical binding]; other site 640510003011 ATP-binding site [chemical binding]; other site 640510003012 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 640510003013 glutamyl-queuosine tRNA(Asp) synthetase; Region: queuosine_YadB; TIGR03838 640510003014 active site 640510003015 HIGH motif; other site 640510003016 nucleotide binding site [chemical binding]; other site 640510003017 active site 640510003018 KMSKS motif; other site 640510003019 rhodanese superfamily protein; Provisional; Region: PRK05320 640510003020 Acylphosphatase; Region: Acylphosphatase; cl00551 640510003021 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 640510003022 active site residue [active] 640510003023 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 640510003024 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 640510003025 putative active site [active] 640510003026 putative PHP Thumb interface [polypeptide binding]; other site 640510003027 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 640510003028 generic binding surface II; other site 640510003029 generic binding surface I; other site 640510003030 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 640510003031 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 640510003032 putative metal binding site; other site 640510003033 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 640510003034 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 640510003035 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 640510003036 Walker A/P-loop; other site 640510003037 ATP binding site [chemical binding]; other site 640510003038 Q-loop/lid; other site 640510003039 ABC transporter signature motif; other site 640510003040 Walker B; other site 640510003041 D-loop; other site 640510003042 H-loop/switch region; other site 640510003043 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 640510003044 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 640510003045 Probable Catalytic site; other site 640510003046 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 640510003047 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 640510003048 active site 640510003049 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 640510003050 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 640510003051 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 640510003052 O-Antigen ligase; Region: Wzy_C; pfam04932 640510003053 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 640510003054 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 640510003055 active site 640510003056 SnoaL-like polyketide cyclase; Region: SnoaL; pfam07366 640510003057 recombination associated protein; Reviewed; Region: rdgC; PRK00321 640510003058 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 640510003059 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 640510003060 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 640510003061 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 640510003062 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 640510003063 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 640510003064 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 640510003065 putative dimer interface [polypeptide binding]; other site 640510003066 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640510003067 NLPC_P60 stabilising domain, N term; Region: N_NLPC_P60; pfam12912 640510003068 SH3 domain of the SH3b1 type; Region: SH3_6; pfam12913 640510003069 SH3 domain of SH3b2 type; Region: SH3_7; pfam12914 640510003070 NlpC/P60 family; Region: NLPC_P60; cl17555 640510003071 TOBE domain; Region: TOBE; cl01440 640510003072 TOBE domain; Region: TOBE; cl01440 640510003073 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 640510003074 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 640510003075 PAS domain; Region: PAS_9; pfam13426 640510003076 putative active site [active] 640510003077 heme pocket [chemical binding]; other site 640510003078 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640510003079 metal binding site [ion binding]; metal-binding site 640510003080 active site 640510003081 I-site; other site 640510003082 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 640510003083 integrase; Provisional; Region: PRK09692 640510003084 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 640510003085 active site 640510003086 Int/Topo IB signature motif; other site 640510003087 CheB methylesterase; Region: CheB_methylest; pfam01339 640510003088 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 640510003089 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 640510003090 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 640510003091 S-adenosylmethionine binding site [chemical binding]; other site 640510003092 PAS domain; Region: PAS_9; pfam13426 640510003093 PAS domain; Region: PAS_10; pfam13596 640510003094 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 640510003095 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 640510003096 putative active site [active] 640510003097 heme pocket [chemical binding]; other site 640510003098 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 640510003099 dimer interface [polypeptide binding]; other site 640510003100 phosphorylation site [posttranslational modification] 640510003101 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510003102 ATP binding site [chemical binding]; other site 640510003103 Mg2+ binding site [ion binding]; other site 640510003104 G-X-G motif; other site 640510003105 Response regulator receiver domain; Region: Response_reg; pfam00072 640510003106 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510003107 active site 640510003108 phosphorylation site [posttranslational modification] 640510003109 intermolecular recognition site; other site 640510003110 dimerization interface [polypeptide binding]; other site 640510003111 CheB methylesterase; Region: CheB_methylest; pfam01339 640510003112 Helix-turn-helix domain; Region: HTH_28; pfam13518 640510003113 putative transposase OrfB; Reviewed; Region: PHA02517 640510003114 HTH-like domain; Region: HTH_21; pfam13276 640510003115 Integrase core domain; Region: rve; pfam00665 640510003116 Integrase core domain; Region: rve_2; pfam13333 640510003117 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 640510003118 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 640510003119 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 640510003120 Transposase; Region: HTH_Tnp_1; cl17663 640510003121 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 640510003122 IS2 transposase TnpB; Reviewed; Region: PRK09409 640510003123 HTH-like domain; Region: HTH_21; pfam13276 640510003124 Integrase core domain; Region: rve; pfam00665 640510003125 Integrase core domain; Region: rve_3; pfam13683 640510003126 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 640510003127 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 640510003128 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 640510003129 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 640510003130 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 640510003131 putative NAD(P) binding site [chemical binding]; other site 640510003132 catalytic Zn binding site [ion binding]; other site 640510003133 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510003134 D-galactonate transporter; Region: 2A0114; TIGR00893 640510003135 putative substrate translocation pore; other site 640510003136 Cupin domain; Region: Cupin_2; pfam07883 640510003137 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640510003138 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510003139 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640510003140 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 640510003141 trimer interface [polypeptide binding]; other site 640510003142 eyelet of channel; other site 640510003143 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 640510003144 Transposase; Region: HTH_Tnp_1; cl17663 640510003145 HTH-like domain; Region: HTH_21; pfam13276 640510003146 Integrase core domain; Region: rve; pfam00665 640510003147 Integrase core domain; Region: rve_3; pfam13683 640510003148 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 640510003149 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 640510003150 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510003151 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 640510003152 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510003153 D-galactonate transporter; Region: 2A0114; TIGR00893 640510003154 putative substrate translocation pore; other site 640510003155 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 640510003156 short chain dehydrogenase; Provisional; Region: PRK12829 640510003157 classical (c) SDRs; Region: SDR_c; cd05233 640510003158 NAD(P) binding site [chemical binding]; other site 640510003159 active site 640510003160 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 640510003161 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 640510003162 homotetramer interface [polypeptide binding]; other site 640510003163 NAD(P) binding site [chemical binding]; other site 640510003164 homodimer interface [polypeptide binding]; other site 640510003165 active site 640510003166 Cupin domain; Region: Cupin_2; cl17218 640510003167 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 640510003168 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640510003169 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 640510003170 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 640510003171 Walker A/P-loop; other site 640510003172 ATP binding site [chemical binding]; other site 640510003173 Q-loop/lid; other site 640510003174 ABC transporter signature motif; other site 640510003175 Walker B; other site 640510003176 D-loop; other site 640510003177 H-loop/switch region; other site 640510003178 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 640510003179 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 640510003180 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640510003181 TM-ABC transporter signature motif; other site 640510003182 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640510003183 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 640510003184 TM-ABC transporter signature motif; other site 640510003185 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640510003186 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 640510003187 trimer interface [polypeptide binding]; other site 640510003188 eyelet of channel; other site 640510003189 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 640510003190 ParB-like nuclease domain; Region: ParBc; pfam02195 640510003191 Domain of unknown function (DUF932); Region: DUF932; pfam06067 640510003192 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 640510003193 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 640510003194 Protein of unknown function (DUF3732); Region: DUF3732; pfam12532 640510003195 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 640510003196 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 640510003197 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 640510003198 integrase; Provisional; Region: PRK09692 640510003199 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 640510003200 active site 640510003201 Int/Topo IB signature motif; other site 640510003202 ribonuclease G; Provisional; Region: PRK11712 640510003203 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 640510003204 homodimer interface [polypeptide binding]; other site 640510003205 oligonucleotide binding site [chemical binding]; other site 640510003206 Maf-like protein; Region: Maf; pfam02545 640510003207 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 640510003208 active site 640510003209 dimer interface [polypeptide binding]; other site 640510003210 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 640510003211 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 640510003212 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 640510003213 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 640510003214 active site 640510003215 (T/H)XGH motif; other site 640510003216 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 640510003217 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 640510003218 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 640510003219 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 640510003220 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 640510003221 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 640510003222 hypothetical protein; Validated; Region: PRK00110 640510003223 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 640510003224 active site 640510003225 short chain dehydrogenase; Provisional; Region: PRK08339 640510003226 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 640510003227 putative NAD(P) binding site [chemical binding]; other site 640510003228 putative active site [active] 640510003229 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 640510003230 active site 640510003231 dimer interfaces [polypeptide binding]; other site 640510003232 catalytic residues [active] 640510003233 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 640510003234 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 640510003235 NADP binding site [chemical binding]; other site 640510003236 dimer interface [polypeptide binding]; other site 640510003237 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 640510003238 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 640510003239 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 640510003240 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 640510003241 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 640510003242 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 640510003243 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 640510003244 Ligand Binding Site [chemical binding]; other site 640510003245 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 640510003246 GAF domain; Region: GAF_3; pfam13492 640510003247 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 640510003248 dimer interface [polypeptide binding]; other site 640510003249 phosphorylation site [posttranslational modification] 640510003250 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510003251 ATP binding site [chemical binding]; other site 640510003252 Mg2+ binding site [ion binding]; other site 640510003253 G-X-G motif; other site 640510003254 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 640510003255 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510003256 active site 640510003257 phosphorylation site [posttranslational modification] 640510003258 intermolecular recognition site; other site 640510003259 dimerization interface [polypeptide binding]; other site 640510003260 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 640510003261 DNA binding site [nucleotide binding] 640510003262 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 640510003263 Domain of unknown function (DUF4126); Region: DUF4126; pfam13548 640510003264 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 640510003265 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 640510003266 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 640510003267 apolar tunnel; other site 640510003268 heme binding site [chemical binding]; other site 640510003269 dimerization interface [polypeptide binding]; other site 640510003270 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 640510003271 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 640510003272 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 640510003273 glucose-1-dehydrogenase; Provisional; Region: PRK06947 640510003274 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510003275 NAD(P) binding site [chemical binding]; other site 640510003276 active site 640510003277 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 640510003278 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640510003279 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640510003280 Bacterial transcriptional repressor; Region: TetR; pfam13972 640510003281 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 640510003282 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640510003283 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 640510003284 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 640510003285 putative active site [active] 640510003286 putative metal binding site [ion binding]; other site 640510003287 RDD family; Region: RDD; pfam06271 640510003288 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 640510003289 Protein of unknown function (DUF3619); Region: DUF3619; pfam12279 640510003290 RNA polymerase factor sigma-70; Validated; Region: PRK09047 640510003291 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 640510003292 DNA binding residues [nucleotide binding] 640510003293 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 640510003294 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 640510003295 PYR/PP interface [polypeptide binding]; other site 640510003296 dimer interface [polypeptide binding]; other site 640510003297 TPP binding site [chemical binding]; other site 640510003298 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 640510003299 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 640510003300 TPP-binding site [chemical binding]; other site 640510003301 dimer interface [polypeptide binding]; other site 640510003302 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 640510003303 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 640510003304 putative valine binding site [chemical binding]; other site 640510003305 dimer interface [polypeptide binding]; other site 640510003306 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 640510003307 ketol-acid reductoisomerase; Provisional; Region: PRK05479 640510003308 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 640510003309 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 640510003310 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 640510003311 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 640510003312 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 640510003313 putative active site [active] 640510003314 putative NTP binding site [chemical binding]; other site 640510003315 putative nucleic acid binding site [nucleotide binding]; other site 640510003316 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 640510003317 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 640510003318 active site 640510003319 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 640510003320 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 640510003321 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 640510003322 2-isopropylmalate synthase; Validated; Region: PRK00915 640510003323 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 640510003324 active site 640510003325 catalytic residues [active] 640510003326 metal binding site [ion binding]; metal-binding site 640510003327 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 640510003328 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 640510003329 Sulfate transporter family; Region: Sulfate_transp; pfam00916 640510003330 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 640510003331 active site clefts [active] 640510003332 zinc binding site [ion binding]; other site 640510003333 dimer interface [polypeptide binding]; other site 640510003334 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 640510003335 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 640510003336 putative ligand binding site [chemical binding]; other site 640510003337 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 640510003338 16S/18S rRNA binding site [nucleotide binding]; other site 640510003339 S13e-L30e interaction site [polypeptide binding]; other site 640510003340 25S rRNA binding site [nucleotide binding]; other site 640510003341 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 640510003342 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 640510003343 RNase E interface [polypeptide binding]; other site 640510003344 trimer interface [polypeptide binding]; other site 640510003345 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 640510003346 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 640510003347 RNase E interface [polypeptide binding]; other site 640510003348 trimer interface [polypeptide binding]; other site 640510003349 active site 640510003350 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 640510003351 putative nucleic acid binding region [nucleotide binding]; other site 640510003352 G-X-X-G motif; other site 640510003353 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 640510003354 RNA binding site [nucleotide binding]; other site 640510003355 domain interface; other site 640510003356 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 640510003357 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 640510003358 NAD(P) binding site [chemical binding]; other site 640510003359 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 640510003360 triosephosphate isomerase; Provisional; Region: PRK14567 640510003361 substrate binding site [chemical binding]; other site 640510003362 dimer interface [polypeptide binding]; other site 640510003363 catalytic triad [active] 640510003364 Preprotein translocase SecG subunit; Region: SecG; pfam03840 640510003365 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 640510003366 NADH dehydrogenase subunit B; Validated; Region: PRK06411 640510003367 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 640510003368 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 640510003369 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 640510003370 NADH dehydrogenase subunit D; Validated; Region: PRK06075 640510003371 NADH dehydrogenase subunit E; Validated; Region: PRK07539 640510003372 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 640510003373 putative dimer interface [polypeptide binding]; other site 640510003374 [2Fe-2S] cluster binding site [ion binding]; other site 640510003375 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 640510003376 SLBB domain; Region: SLBB; pfam10531 640510003377 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 640510003378 NADH dehydrogenase subunit G; Validated; Region: PRK09129 640510003379 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 640510003380 catalytic loop [active] 640510003381 iron binding site [ion binding]; other site 640510003382 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 640510003383 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 640510003384 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 640510003385 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 640510003386 4Fe-4S binding domain; Region: Fer4; cl02805 640510003387 4Fe-4S binding domain; Region: Fer4; pfam00037 640510003388 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 640510003389 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 640510003390 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 640510003391 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 640510003392 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 640510003393 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 640510003394 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 640510003395 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 640510003396 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 640510003397 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 640510003398 Protein of unknown function (DUF2818); Region: DUF2818; pfam10993 640510003399 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 640510003400 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 640510003401 dimer interface [polypeptide binding]; other site 640510003402 ADP-ribose binding site [chemical binding]; other site 640510003403 active site 640510003404 nudix motif; other site 640510003405 metal binding site [ion binding]; metal-binding site 640510003406 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 640510003407 Protein of unknown function (DUF1178); Region: DUF1178; pfam06676 640510003408 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 640510003409 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 640510003410 FAD binding site [chemical binding]; other site 640510003411 substrate binding site [chemical binding]; other site 640510003412 catalytic base [active] 640510003413 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 640510003414 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 640510003415 active site 640510003416 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 640510003417 putative active site [active] 640510003418 putative catalytic site [active] 640510003419 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 640510003420 putative active site [active] 640510003421 putative catalytic site [active] 640510003422 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 640510003423 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 640510003424 C-terminal domain interface [polypeptide binding]; other site 640510003425 GSH binding site (G-site) [chemical binding]; other site 640510003426 dimer interface [polypeptide binding]; other site 640510003427 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 640510003428 N-terminal domain interface [polypeptide binding]; other site 640510003429 putative dimer interface [polypeptide binding]; other site 640510003430 active site 640510003431 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 640510003432 Acyl-CoA dehydrogenases similar to fadE2; Region: ACAD_FadE2; cd01155 640510003433 FAD binding site [chemical binding]; other site 640510003434 substrate binding site [chemical binding]; other site 640510003435 catalytic base [active] 640510003436 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 640510003437 Phosphotransferase enzyme family; Region: APH; pfam01636 640510003438 putative active site [active] 640510003439 putative substrate binding site [chemical binding]; other site 640510003440 ATP binding site [chemical binding]; other site 640510003441 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 640510003442 catalytic core [active] 640510003443 enoyl-CoA hydratase; Provisional; Region: PRK07511 640510003444 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 640510003445 substrate binding site [chemical binding]; other site 640510003446 oxyanion hole (OAH) forming residues; other site 640510003447 trimer interface [polypeptide binding]; other site 640510003448 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 640510003449 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 640510003450 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 640510003451 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 640510003452 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 640510003453 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 640510003454 C-terminal domain interface [polypeptide binding]; other site 640510003455 GSH binding site (G-site) [chemical binding]; other site 640510003456 dimer interface [polypeptide binding]; other site 640510003457 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 640510003458 N-terminal domain interface [polypeptide binding]; other site 640510003459 dimer interface [polypeptide binding]; other site 640510003460 substrate binding pocket (H-site) [chemical binding]; other site 640510003461 methionine aminotransferase; Validated; Region: PRK09082 640510003462 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 640510003463 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510003464 homodimer interface [polypeptide binding]; other site 640510003465 catalytic residue [active] 640510003466 PIN domain; Region: PIN_3; pfam13470 640510003467 hypothetical protein; Validated; Region: PRK02101 640510003468 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 640510003469 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 640510003470 putative active site [active] 640510003471 Zn binding site [ion binding]; other site 640510003472 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 640510003473 Predicted membrane protein [Function unknown]; Region: COG3235 640510003474 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640510003475 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 640510003476 phosphorylation site [posttranslational modification] 640510003477 intermolecular recognition site; other site 640510003478 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 640510003479 DNA binding residues [nucleotide binding] 640510003480 dimerization interface [polypeptide binding]; other site 640510003481 Protein of unknown function (DUF2863); Region: DUF2863; pfam11062 640510003482 Domain of unknown function DUF20; Region: UPF0118; pfam01594 640510003483 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 640510003484 Uncharacterized conserved protein [Function unknown]; Region: COG4544 640510003485 DNA Polymerase Y-family; Region: PolY_like; cd03468 640510003486 DNA binding site [nucleotide binding] 640510003487 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 640510003488 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 640510003489 putative active site [active] 640510003490 putative PHP Thumb interface [polypeptide binding]; other site 640510003491 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 640510003492 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 640510003493 generic binding surface II; other site 640510003494 generic binding surface I; other site 640510003495 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 640510003496 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 640510003497 NADP binding site [chemical binding]; other site 640510003498 active site 640510003499 putative substrate binding site [chemical binding]; other site 640510003500 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 640510003501 metal-binding site [ion binding] 640510003502 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 640510003503 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 640510003504 DNA binding residues [nucleotide binding] 640510003505 dimer interface [polypeptide binding]; other site 640510003506 copper binding site [ion binding]; other site 640510003507 Protein of unknown function (DUF3563); Region: DUF3563; pfam12086 640510003508 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 640510003509 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 640510003510 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 640510003511 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 640510003512 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 640510003513 active site 640510003514 catalytic tetrad [active] 640510003515 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK13394 640510003516 classical (c) SDRs; Region: SDR_c; cd05233 640510003517 NAD(P) binding site [chemical binding]; other site 640510003518 active site 640510003519 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 640510003520 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 640510003521 nucleophile elbow; other site 640510003522 Patatin phospholipase; Region: DUF3734; pfam12536 640510003523 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 640510003524 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 640510003525 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510003526 homodimer interface [polypeptide binding]; other site 640510003527 catalytic residue [active] 640510003528 excinuclease ABC subunit B; Provisional; Region: PRK05298 640510003529 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 640510003530 ATP binding site [chemical binding]; other site 640510003531 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 640510003532 nucleotide binding region [chemical binding]; other site 640510003533 ATP-binding site [chemical binding]; other site 640510003534 Ultra-violet resistance protein B; Region: UvrB; pfam12344 640510003535 UvrB/uvrC motif; Region: UVR; pfam02151 640510003536 Fe2+ transport protein; Region: Iron_transport; pfam10634 640510003537 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 640510003538 Iron permease FTR1 family; Region: FTR1; cl00475 640510003539 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 640510003540 4Fe-4S binding domain; Region: Fer4_5; pfam12801 640510003541 Hemin uptake protein hemP; Region: hemP; pfam10636 640510003542 DUF1857, an uncharacterized ligand-binding domain of the SRPBCC domain superfamily; Region: SRPBCC_DUF1857; cd08863 640510003543 putative hydrophobic ligand binding site [chemical binding]; other site 640510003544 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 640510003545 Pirin-related protein [General function prediction only]; Region: COG1741 640510003546 Pirin; Region: Pirin; pfam02678 640510003547 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 640510003548 LysR family transcriptional regulator; Provisional; Region: PRK14997 640510003549 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510003550 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 640510003551 putative effector binding pocket; other site 640510003552 putative dimerization interface [polypeptide binding]; other site 640510003553 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 640510003554 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 640510003555 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 640510003556 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 640510003557 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 640510003558 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 640510003559 glutamate racemase; Provisional; Region: PRK00865 640510003560 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 640510003561 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 640510003562 heme binding site [chemical binding]; other site 640510003563 ferroxidase pore; other site 640510003564 ferroxidase diiron center [ion binding]; other site 640510003565 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 640510003566 Fumarase C-terminus; Region: Fumerase_C; pfam05683 640510003567 hypothetical protein; Provisional; Region: PRK05208 640510003568 acetyl-CoA synthetase; Provisional; Region: PRK00174 640510003569 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 640510003570 active site 640510003571 CoA binding site [chemical binding]; other site 640510003572 acyl-activating enzyme (AAE) consensus motif; other site 640510003573 AMP binding site [chemical binding]; other site 640510003574 acetate binding site [chemical binding]; other site 640510003575 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 640510003576 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 640510003577 Ezrin/radixin/moesin family; Region: ERM; pfam00769 640510003578 probable sodium:solute symporter, VC_2705 subfamily; Region: Na_symport_lg; TIGR03648 640510003579 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 640510003580 Int/Topo IB signature motif; other site 640510003581 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 640510003582 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 640510003583 non-specific DNA binding site [nucleotide binding]; other site 640510003584 salt bridge; other site 640510003585 sequence-specific DNA binding site [nucleotide binding]; other site 640510003586 multiple promoter invertase; Provisional; Region: mpi; PRK13413 640510003587 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 640510003588 catalytic residues [active] 640510003589 catalytic nucleophile [active] 640510003590 Presynaptic Site I dimer interface [polypeptide binding]; other site 640510003591 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 640510003592 Synaptic Flat tetramer interface [polypeptide binding]; other site 640510003593 Synaptic Site I dimer interface [polypeptide binding]; other site 640510003594 DNA binding site [nucleotide binding] 640510003595 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 640510003596 DNA-binding interface [nucleotide binding]; DNA binding site 640510003597 HNH endonuclease; Region: HNH_5; pfam14279 640510003598 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 640510003599 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 640510003600 catalytic residues [active] 640510003601 catalytic nucleophile [active] 640510003602 Presynaptic Site I dimer interface [polypeptide binding]; other site 640510003603 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 640510003604 Synaptic Flat tetramer interface [polypeptide binding]; other site 640510003605 Synaptic Site I dimer interface [polypeptide binding]; other site 640510003606 DNA binding site [nucleotide binding] 640510003607 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 640510003608 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 640510003609 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 640510003610 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 640510003611 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 640510003612 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 640510003613 catalytic residue [active] 640510003614 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 640510003615 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 640510003616 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 640510003617 N-terminal domain interface [polypeptide binding]; other site 640510003618 dimer interface [polypeptide binding]; other site 640510003619 substrate binding pocket (H-site) [chemical binding]; other site 640510003620 Transcriptional regulators [Transcription]; Region: MarR; COG1846 640510003621 MarR family; Region: MarR_2; pfam12802 640510003622 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 640510003623 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510003624 NAD(P) binding site [chemical binding]; other site 640510003625 active site 640510003626 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 640510003627 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 640510003628 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 640510003629 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 640510003630 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 640510003631 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510003632 ABC-ATPase subunit interface; other site 640510003633 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 640510003634 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510003635 dimer interface [polypeptide binding]; other site 640510003636 conserved gate region; other site 640510003637 putative PBP binding loops; other site 640510003638 ABC-ATPase subunit interface; other site 640510003639 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 640510003640 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 640510003641 Walker A/P-loop; other site 640510003642 ATP binding site [chemical binding]; other site 640510003643 Q-loop/lid; other site 640510003644 ABC transporter signature motif; other site 640510003645 Walker B; other site 640510003646 D-loop; other site 640510003647 H-loop/switch region; other site 640510003648 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 640510003649 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 640510003650 active site 640510003651 non-prolyl cis peptide bond; other site 640510003652 short chain dehydrogenase; Provisional; Region: PRK07577 640510003653 classical (c) SDRs; Region: SDR_c; cd05233 640510003654 NAD(P) binding site [chemical binding]; other site 640510003655 active site 640510003656 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 640510003657 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 640510003658 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 640510003659 Predicted neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: COG4692 640510003660 BNR repeat-like domain; Region: BNR_2; pfam13088 640510003661 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 640510003662 Na binding site [ion binding]; other site 640510003663 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 640510003664 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 640510003665 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 640510003666 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 640510003667 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 640510003668 putative active site [active] 640510003669 metal binding site [ion binding]; metal-binding site 640510003670 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 640510003671 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 640510003672 inhibitor site; inhibition site 640510003673 active site 640510003674 dimer interface [polypeptide binding]; other site 640510003675 catalytic residue [active] 640510003676 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640510003677 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 640510003678 trimer interface [polypeptide binding]; other site 640510003679 eyelet of channel; other site 640510003680 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510003681 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510003682 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 640510003683 putative effector binding pocket; other site 640510003684 dimerization interface [polypeptide binding]; other site 640510003685 short chain dehydrogenase; Provisional; Region: PRK07478 640510003686 classical (c) SDRs; Region: SDR_c; cd05233 640510003687 NAD(P) binding site [chemical binding]; other site 640510003688 active site 640510003689 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640510003690 classical (c) SDRs; Region: SDR_c; cd05233 640510003691 NAD(P) binding site [chemical binding]; other site 640510003692 active site 640510003693 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 640510003694 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 640510003695 active site 640510003696 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 640510003697 Beta-lactamase; Region: Beta-lactamase; pfam00144 640510003698 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 640510003699 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 640510003700 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640510003701 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640510003702 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 640510003703 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 640510003704 putative FMN binding site [chemical binding]; other site 640510003705 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3251 640510003706 Thioesterase domain; Region: Thioesterase; pfam00975 640510003707 Cupin domain; Region: Cupin_2; cl17218 640510003708 YqcI/YcgG family; Region: YqcI_YcgG; cl01349 640510003709 ABC-type siderophore export system, fused ATPase and permease components [Secondary metabolites biosynthesis, transport, and catabolism / Inorganic ion transport and metabolism]; Region: PvdE; COG4615 640510003710 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 640510003711 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 640510003712 Walker A/P-loop; other site 640510003713 ATP binding site [chemical binding]; other site 640510003714 Q-loop/lid; other site 640510003715 ABC transporter signature motif; other site 640510003716 Walker B; other site 640510003717 D-loop; other site 640510003718 H-loop/switch region; other site 640510003719 iron-hydroxamate transporter ATP-binding subunit; Provisional; Region: PRK10575 640510003720 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 640510003721 Walker A/P-loop; other site 640510003722 ATP binding site [chemical binding]; other site 640510003723 Q-loop/lid; other site 640510003724 ABC transporter signature motif; other site 640510003725 Walker B; other site 640510003726 D-loop; other site 640510003727 H-loop/switch region; other site 640510003728 acyl-CoA synthetase; Validated; Region: PRK05850 640510003729 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 640510003730 acyl-activating enzyme (AAE) consensus motif; other site 640510003731 active site 640510003732 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 640510003733 Condensation domain; Region: Condensation; pfam00668 640510003734 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 640510003735 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 640510003736 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 640510003737 AMP-binding enzyme; Region: AMP-binding; pfam00501 640510003738 acyl-activating enzyme (AAE) consensus motif; other site 640510003739 AMP binding site [chemical binding]; other site 640510003740 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 640510003741 peptide synthase; Provisional; Region: PRK12467 640510003742 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 640510003743 acyl-activating enzyme (AAE) consensus motif; other site 640510003744 AMP binding site [chemical binding]; other site 640510003745 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 640510003746 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 640510003747 acyl-activating enzyme (AAE) consensus motif; other site 640510003748 AMP binding site [chemical binding]; other site 640510003749 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 640510003750 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 640510003751 The adenylation domain of nonribosomal peptide synthetases (NRPS), including salinosporamide A polyketide synthase; Region: A_NRPS_Ta1_like; cd12116 640510003752 acyl-activating enzyme (AAE) consensus motif; other site 640510003753 AMP binding site [chemical binding]; other site 640510003754 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 640510003755 Condensation domain; Region: Condensation; pfam00668 640510003756 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 640510003757 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 640510003758 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 640510003759 acyl-activating enzyme (AAE) consensus motif; other site 640510003760 AMP binding site [chemical binding]; other site 640510003761 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 640510003762 Condensation domain; Region: Condensation; pfam00668 640510003763 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 640510003764 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 640510003765 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 640510003766 N-terminal plug; other site 640510003767 ligand-binding site [chemical binding]; other site 640510003768 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 640510003769 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 640510003770 intersubunit interface [polypeptide binding]; other site 640510003771 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 640510003772 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 640510003773 ABC-ATPase subunit interface; other site 640510003774 dimer interface [polypeptide binding]; other site 640510003775 putative PBP binding regions; other site 640510003776 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 640510003777 ABC-ATPase subunit interface; other site 640510003778 dimer interface [polypeptide binding]; other site 640510003779 putative PBP binding regions; other site 640510003780 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 640510003781 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 640510003782 N-terminal plug; other site 640510003783 ligand-binding site [chemical binding]; other site 640510003784 enterobactin exporter EntS; Provisional; Region: PRK10489 640510003785 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510003786 putative substrate translocation pore; other site 640510003787 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 640510003788 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 640510003789 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 640510003790 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 640510003791 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510003792 active site 640510003793 phosphorylation site [posttranslational modification] 640510003794 intermolecular recognition site; other site 640510003795 dimerization interface [polypeptide binding]; other site 640510003796 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 640510003797 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510003798 short chain dehydrogenase; Provisional; Region: PRK12937 640510003799 NAD(P) binding site [chemical binding]; other site 640510003800 active site 640510003801 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510003802 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510003803 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 640510003804 putative effector binding pocket; other site 640510003805 putative dimerization interface [polypeptide binding]; other site 640510003806 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 640510003807 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 640510003808 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 640510003809 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640510003810 Walker A/P-loop; other site 640510003811 ATP binding site [chemical binding]; other site 640510003812 Q-loop/lid; other site 640510003813 ABC transporter signature motif; other site 640510003814 Walker B; other site 640510003815 D-loop; other site 640510003816 H-loop/switch region; other site 640510003817 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640510003818 Walker A/P-loop; other site 640510003819 ATP binding site [chemical binding]; other site 640510003820 Q-loop/lid; other site 640510003821 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 640510003822 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 640510003823 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640510003824 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 640510003825 conserved cys residue [active] 640510003826 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510003827 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 640510003828 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 640510003829 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510003830 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510003831 The 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 640510003832 dimerization interface [polypeptide binding]; other site 640510003833 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 640510003834 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 640510003835 active site 640510003836 homodimer interface [polypeptide binding]; other site 640510003837 Bacterial cellulose synthase subunit; Region: BcsB; cl15851 640510003838 bacteriophage N4 adsorption protein B; Provisional; Region: nfrB; PRK15489 640510003839 active site 640510003840 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 640510003841 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 640510003842 Bacteriophage N adsorption protein A C-term; Region: NfrA_C; pfam13283 640510003843 Lysine efflux permease [General function prediction only]; Region: COG1279 640510003844 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 640510003845 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510003846 The 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 640510003847 dimerization interface [polypeptide binding]; other site 640510003848 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 640510003849 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510003850 The 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 640510003851 dimerization interface [polypeptide binding]; other site 640510003852 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 640510003853 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 640510003854 metal binding site [ion binding]; metal-binding site 640510003855 putative dimer interface [polypeptide binding]; other site 640510003856 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510003857 metabolite-proton symporter; Region: 2A0106; TIGR00883 640510003858 putative substrate translocation pore; other site 640510003859 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510003860 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640510003861 putative substrate translocation pore; other site 640510003862 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 640510003863 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 640510003864 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510003865 NAD(P) binding site [chemical binding]; other site 640510003866 active site 640510003867 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510003868 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510003869 The 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 640510003870 dimerization interface [polypeptide binding]; other site 640510003871 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 640510003872 active sites [active] 640510003873 tetramer interface [polypeptide binding]; other site 640510003874 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 640510003875 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510003876 DNA-binding site [nucleotide binding]; DNA binding site 640510003877 UTRA domain; Region: UTRA; pfam07702 640510003878 urocanate hydratase; Provisional; Region: PRK05414 640510003879 HutD; Region: HutD; pfam05962 640510003880 imidazolonepropionase; Validated; Region: PRK09356 640510003881 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 640510003882 active site 640510003883 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 640510003884 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 640510003885 active site 640510003886 N-formylglutamate amidohydrolase; Region: FGase; cl01522 640510003887 Mitochondrial fission regulator; Region: Mito_fiss_reg; pfam05308 640510003888 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 640510003889 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 640510003890 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 640510003891 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 640510003892 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 640510003893 dimerization interface [polypeptide binding]; other site 640510003894 ligand binding site [chemical binding]; other site 640510003895 pyridoxamine kinase; Validated; Region: PRK05756 640510003896 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 640510003897 dimer interface [polypeptide binding]; other site 640510003898 pyridoxal binding site [chemical binding]; other site 640510003899 ATP binding site [chemical binding]; other site 640510003900 glycogen synthase; Provisional; Region: glgA; PRK00654 640510003901 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 640510003902 ADP-binding pocket [chemical binding]; other site 640510003903 homodimer interface [polypeptide binding]; other site 640510003904 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 640510003905 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 640510003906 ligand binding site; other site 640510003907 oligomer interface; other site 640510003908 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 640510003909 dimer interface [polypeptide binding]; other site 640510003910 N-terminal domain interface [polypeptide binding]; other site 640510003911 sulfate 1 binding site; other site 640510003912 Alpha/beta hydrolase of unknown function (DUF1057); Region: DUF1057; pfam06342 640510003913 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640510003914 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 640510003915 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 640510003916 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 640510003917 con80 domain of Katanin; Region: Katanin_con80; pfam13925 640510003918 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 640510003919 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 640510003920 active site residue [active] 640510003921 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 640510003922 active site residue [active] 640510003923 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 640510003924 active site residue [active] 640510003925 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 640510003926 active site residue [active] 640510003927 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 640510003928 hypothetical protein; Provisional; Region: PRK10279 640510003929 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 640510003930 active site 640510003931 nucleophile elbow; other site 640510003932 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640510003933 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510003934 dimer interface [polypeptide binding]; other site 640510003935 conserved gate region; other site 640510003936 putative PBP binding loops; other site 640510003937 ABC-ATPase subunit interface; other site 640510003938 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640510003939 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510003940 dimer interface [polypeptide binding]; other site 640510003941 conserved gate region; other site 640510003942 putative PBP binding loops; other site 640510003943 ABC-ATPase subunit interface; other site 640510003944 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 640510003945 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 640510003946 Walker A/P-loop; other site 640510003947 ATP binding site [chemical binding]; other site 640510003948 Q-loop/lid; other site 640510003949 ABC transporter signature motif; other site 640510003950 Walker B; other site 640510003951 D-loop; other site 640510003952 H-loop/switch region; other site 640510003953 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640510003954 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 640510003955 conserved cys residue [active] 640510003956 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510003957 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510003958 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 640510003959 Peptidase M35-like domain of uncharacterized proteins; Region: M35_like_1; cd11007 640510003960 putative active site [active] 640510003961 putative Zn binding site [ion binding]; other site 640510003962 PAAR motif; Region: PAAR_motif; pfam05488 640510003963 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 640510003964 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 640510003965 inhibitor-cofactor binding pocket; inhibition site 640510003966 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510003967 catalytic residue [active] 640510003968 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 640510003969 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 640510003970 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 640510003971 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 640510003972 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 640510003973 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 640510003974 NAD(P) binding site [chemical binding]; other site 640510003975 catalytic residues [active] 640510003976 succinylarginine dihydrolase; Provisional; Region: PRK13281 640510003977 succinylglutamate desuccinylase; Provisional; Region: PRK05324 640510003978 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 640510003979 active site 640510003980 Zn binding site [ion binding]; other site 640510003981 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 640510003982 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 640510003983 substrate binding pocket [chemical binding]; other site 640510003984 membrane-bound complex binding site; other site 640510003985 hinge residues; other site 640510003986 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 640510003987 EAL domain; Region: EAL; pfam00563 640510003988 HDOD domain; Region: HDOD; pfam08668 640510003989 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640510003990 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640510003991 metal binding site [ion binding]; metal-binding site 640510003992 active site 640510003993 I-site; other site 640510003994 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 640510003995 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 640510003996 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 640510003997 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 640510003998 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 640510003999 catalytic triad [active] 640510004000 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 640510004001 Protein export membrane protein; Region: SecD_SecF; cl14618 640510004002 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 640510004003 Protein export membrane protein; Region: SecD_SecF; cl14618 640510004004 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 640510004005 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640510004006 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 640510004007 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640510004008 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 640510004009 SdiA-regulated; Region: SdiA-regulated; cd09971 640510004010 putative active site [active] 640510004011 Domain of Unknown Function (DUF1259); Region: DUF1529; pfam07485 640510004012 Domain of Unknown Function (DUF1259); Region: DUF1529; pfam07485 640510004013 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 640510004014 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 640510004015 Chromate transporter; Region: Chromate_transp; pfam02417 640510004016 Chromate resistance exported protein; Region: Chrome_Resist; pfam09828 640510004017 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510004018 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 640510004019 NAD(P) binding site [chemical binding]; other site 640510004020 active site 640510004021 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510004022 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510004023 The 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 640510004024 dimerization interface [polypeptide binding]; other site 640510004025 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 640510004026 Uncharacterized conserved protein [Function unknown]; Region: COG5361 640510004027 Protein of unknown function (DUF1214); Region: DUF1214; pfam06742 640510004028 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 640510004029 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 640510004030 acyl-activating enzyme (AAE) consensus motif; other site 640510004031 AMP binding site [chemical binding]; other site 640510004032 active site 640510004033 CoA binding site [chemical binding]; other site 640510004034 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 640510004035 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 640510004036 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640510004037 active site 640510004038 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 640510004039 Uncharacterized conserved protein [Function unknown]; Region: COG5361 640510004040 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 640510004041 Protein of unknown function (DUF1214); Region: DUF1214; pfam06742 640510004042 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 640510004043 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640510004044 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 640510004045 DNA binding residues [nucleotide binding] 640510004046 dimerization interface [polypeptide binding]; other site 640510004047 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 640510004048 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 640510004049 substrate binding site [chemical binding]; other site 640510004050 oxyanion hole (OAH) forming residues; other site 640510004051 trimer interface [polypeptide binding]; other site 640510004052 lipid-transfer protein; Provisional; Region: PRK08256 640510004053 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 640510004054 active site 640510004055 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 640510004056 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640510004057 active site 640510004058 lipid-transfer protein; Provisional; Region: PRK08256 640510004059 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 640510004060 active site 640510004061 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 640510004062 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 640510004063 FAD binding site [chemical binding]; other site 640510004064 substrate binding site [chemical binding]; other site 640510004065 catalytic base [active] 640510004066 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 640510004067 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 640510004068 active site 640510004069 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 640510004070 putative active site [active] 640510004071 putative catalytic site [active] 640510004072 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 640510004073 (3R)-hydroxyacyl-CoA dehydrogenase-like, classical(c)-like SDRs; Region: hydroxyacyl-CoA-like_DH_SDR_c-like; cd05353 640510004074 NAD binding site [chemical binding]; other site 640510004075 homodimer interface [polypeptide binding]; other site 640510004076 active site 640510004077 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 640510004078 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640510004079 active site 640510004080 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 640510004081 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640510004082 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640510004083 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 640510004084 eyelet of channel; other site 640510004085 trimer interface [polypeptide binding]; other site 640510004086 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 640510004087 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510004088 NAD(P) binding site [chemical binding]; other site 640510004089 active site 640510004090 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510004091 D-galactonate transporter; Region: 2A0114; TIGR00893 640510004092 putative substrate translocation pore; other site 640510004093 muconolactone delta-isomerase; Region: muco_delta; TIGR03221 640510004094 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 640510004095 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 640510004096 octamer interface [polypeptide binding]; other site 640510004097 active site 640510004098 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 640510004099 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510004100 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 640510004101 dimerizarion interface [polypeptide binding]; other site 640510004102 CrgA pocket; other site 640510004103 substrate binding pocket [chemical binding]; other site 640510004104 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 640510004105 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 640510004106 dimer interface [polypeptide binding]; other site 640510004107 active site 640510004108 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 640510004109 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 640510004110 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 640510004111 putative alpha subunit interface [polypeptide binding]; other site 640510004112 putative active site [active] 640510004113 putative substrate binding site [chemical binding]; other site 640510004114 Fe binding site [ion binding]; other site 640510004115 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 640510004116 inter-subunit interface; other site 640510004117 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 640510004118 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 640510004119 catalytic loop [active] 640510004120 iron binding site [ion binding]; other site 640510004121 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 640510004122 FAD binding pocket [chemical binding]; other site 640510004123 FAD binding motif [chemical binding]; other site 640510004124 phosphate binding motif [ion binding]; other site 640510004125 beta-alpha-beta structure motif; other site 640510004126 NAD binding pocket [chemical binding]; other site 640510004127 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase; Provisional; Region: benD; PRK12823 640510004128 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510004129 NAD(P) binding site [chemical binding]; other site 640510004130 active site 640510004131 Domain of unknown function (DUF3597); Region: DUF3597; pfam12200 640510004132 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 640510004133 PRC-barrel domain; Region: PRC; pfam05239 640510004134 chromosome condensation membrane protein; Provisional; Region: PRK14196 640510004135 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 640510004136 CHASE3 domain; Region: CHASE3; pfam05227 640510004137 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640510004138 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 640510004139 dimer interface [polypeptide binding]; other site 640510004140 phosphorylation site [posttranslational modification] 640510004141 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510004142 ATP binding site [chemical binding]; other site 640510004143 Mg2+ binding site [ion binding]; other site 640510004144 G-X-G motif; other site 640510004145 intracellular protease, PfpI family; Region: PfpI; TIGR01382 640510004146 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 640510004147 conserved cys residue [active] 640510004148 Rrf2 family protein; Region: rrf2_super; TIGR00738 640510004149 Transcriptional regulator; Region: Rrf2; pfam02082 640510004150 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 640510004151 NADH(P)-binding; Region: NAD_binding_10; pfam13460 640510004152 NAD binding site [chemical binding]; other site 640510004153 substrate binding site [chemical binding]; other site 640510004154 putative active site [active] 640510004155 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 640510004156 Mechanosensitive ion channel; Region: MS_channel; pfam00924 640510004157 Cysteine dioxygenase type I; Region: CDO_I; pfam05995 640510004158 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 640510004159 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 640510004160 putative DNA binding site [nucleotide binding]; other site 640510004161 putative Zn2+ binding site [ion binding]; other site 640510004162 AsnC family; Region: AsnC_trans_reg; pfam01037 640510004163 Protein of unknown function (DUF1326); Region: DUF1326; cl02375 640510004164 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 640510004165 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 640510004166 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 640510004167 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 640510004168 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 640510004169 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 640510004170 Family description; Region: UvrD_C_2; pfam13538 640510004171 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 640510004172 AAA domain; Region: AAA_30; pfam13604 640510004173 Family description; Region: UvrD_C_2; pfam13538 640510004174 hypothetical protein; Provisional; Region: PRK09256 640510004175 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 640510004176 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 640510004177 Uncharacterized conserved protein [Function unknown]; Region: COG1359 640510004178 Uncharacterized conserved protein [Function unknown]; Region: COG1434 640510004179 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 640510004180 putative active site [active] 640510004181 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 640510004182 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510004183 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510004184 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 640510004185 putative dimerization interface [polypeptide binding]; other site 640510004186 aspartate aminotransferase; Provisional; Region: PRK06108 640510004187 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 640510004188 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510004189 homodimer interface [polypeptide binding]; other site 640510004190 catalytic residue [active] 640510004191 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 640510004192 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 640510004193 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 640510004194 RNA binding surface [nucleotide binding]; other site 640510004195 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 640510004196 probable active site [active] 640510004197 ribosome maturation protein RimP; Reviewed; Region: PRK00092 640510004198 Sm and related proteins; Region: Sm_like; cl00259 640510004199 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 640510004200 putative oligomer interface [polypeptide binding]; other site 640510004201 putative RNA binding site [nucleotide binding]; other site 640510004202 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 640510004203 NusA N-terminal domain; Region: NusA_N; pfam08529 640510004204 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 640510004205 RNA binding site [nucleotide binding]; other site 640510004206 homodimer interface [polypeptide binding]; other site 640510004207 NusA-like KH domain; Region: KH_5; pfam13184 640510004208 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 640510004209 G-X-X-G motif; other site 640510004210 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 640510004211 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 640510004212 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 640510004213 translation initiation factor IF-2; Region: IF-2; TIGR00487 640510004214 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 640510004215 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 640510004216 G1 box; other site 640510004217 putative GEF interaction site [polypeptide binding]; other site 640510004218 GTP/Mg2+ binding site [chemical binding]; other site 640510004219 Switch I region; other site 640510004220 G2 box; other site 640510004221 G3 box; other site 640510004222 Switch II region; other site 640510004223 G4 box; other site 640510004224 G5 box; other site 640510004225 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 640510004226 Translation-initiation factor 2; Region: IF-2; pfam11987 640510004227 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 640510004228 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 640510004229 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 640510004230 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 640510004231 RNA binding site [nucleotide binding]; other site 640510004232 active site 640510004233 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 640510004234 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 640510004235 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510004236 putative substrate translocation pore; other site 640510004237 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510004238 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 640510004239 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640510004240 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 640510004241 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640510004242 Transcriptional regulators [Transcription]; Region: MarR; COG1846 640510004243 MarR family; Region: MarR_2; pfam12802 640510004244 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 640510004245 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 640510004246 G1 box; other site 640510004247 putative GEF interaction site [polypeptide binding]; other site 640510004248 GTP/Mg2+ binding site [chemical binding]; other site 640510004249 Switch I region; other site 640510004250 G2 box; other site 640510004251 G3 box; other site 640510004252 Switch II region; other site 640510004253 G4 box; other site 640510004254 G5 box; other site 640510004255 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 640510004256 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 640510004257 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 640510004258 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 640510004259 TPP-binding site [chemical binding]; other site 640510004260 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 640510004261 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 640510004262 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 640510004263 E3 interaction surface; other site 640510004264 lipoyl attachment site [posttranslational modification]; other site 640510004265 e3 binding domain; Region: E3_binding; pfam02817 640510004266 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 640510004267 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 640510004268 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640510004269 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 640510004270 Predicted ATPase [General function prediction only]; Region: COG1485 640510004271 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640510004272 Walker B; other site 640510004273 D-loop; other site 640510004274 H-loop/switch region; other site 640510004275 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 640510004276 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 640510004277 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 640510004278 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 640510004279 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 640510004280 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 640510004281 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 640510004282 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 640510004283 TadE-like protein; Region: TadE; pfam07811 640510004284 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 640510004285 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 640510004286 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 640510004287 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 640510004288 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 640510004289 AAA domain; Region: AAA_31; pfam13614 640510004290 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 640510004291 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 640510004292 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 640510004293 ATP binding site [chemical binding]; other site 640510004294 Walker A motif; other site 640510004295 hexamer interface [polypeptide binding]; other site 640510004296 Walker B motif; other site 640510004297 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 640510004298 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 640510004299 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 640510004300 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 640510004301 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 640510004302 binding surface 640510004303 TPR motif; other site 640510004304 Protein of unknown function (DUF3613); Region: DUF3613; pfam12266 640510004305 Predicted membrane protein [Function unknown]; Region: COG4655 640510004306 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 640510004307 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 640510004308 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 640510004309 Walker A motif; other site 640510004310 ATP binding site [chemical binding]; other site 640510004311 Walker B motif; other site 640510004312 arginine finger; other site 640510004313 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 640510004314 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 640510004315 bacterial Hfq-like; Region: Hfq; cd01716 640510004316 hexamer interface [polypeptide binding]; other site 640510004317 Sm1 motif; other site 640510004318 RNA binding site [nucleotide binding]; other site 640510004319 Sm2 motif; other site 640510004320 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 640510004321 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640510004322 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 640510004323 DNA binding residues [nucleotide binding] 640510004324 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 640510004325 Pleckstrin homology-like domain; Region: PH-like; cl17171 640510004326 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 640510004327 FAD binding domain; Region: FAD_binding_4; pfam01565 640510004328 Protein of unknown function (DUF1571); Region: DUF1571; pfam07608 640510004329 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 640510004330 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 640510004331 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 640510004332 acyl-activating enzyme (AAE) consensus motif; other site 640510004333 putative AMP binding site [chemical binding]; other site 640510004334 putative active site [active] 640510004335 putative CoA binding site [chemical binding]; other site 640510004336 acetyl-CoA acetyltransferase; Provisional; Region: PRK09268 640510004337 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 640510004338 dimer interface [polypeptide binding]; other site 640510004339 active site 640510004340 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 640510004341 active site 2 [active] 640510004342 active site 1 [active] 640510004343 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08261 640510004344 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510004345 NAD(P) binding site [chemical binding]; other site 640510004346 active site 640510004347 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 640510004348 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640510004349 active site 640510004350 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 640510004351 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640510004352 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640510004353 putative sialic acid transporter; Region: 2A0112; TIGR00891 640510004354 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510004355 putative substrate translocation pore; other site 640510004356 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510004357 active site 640510004358 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640510004359 phosphorylation site [posttranslational modification] 640510004360 intermolecular recognition site; other site 640510004361 dimerization interface [polypeptide binding]; other site 640510004362 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 640510004363 dimer interface [polypeptide binding]; other site 640510004364 phosphorylation site [posttranslational modification] 640510004365 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510004366 ATP binding site [chemical binding]; other site 640510004367 Mg2+ binding site [ion binding]; other site 640510004368 G-X-G motif; other site 640510004369 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640510004370 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510004371 ATP binding site [chemical binding]; other site 640510004372 Mg2+ binding site [ion binding]; other site 640510004373 G-X-G motif; other site 640510004374 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 640510004375 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510004376 active site 640510004377 phosphorylation site [posttranslational modification] 640510004378 intermolecular recognition site; other site 640510004379 dimerization interface [polypeptide binding]; other site 640510004380 Response regulator receiver domain; Region: Response_reg; pfam00072 640510004381 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510004382 active site 640510004383 phosphorylation site [posttranslational modification] 640510004384 intermolecular recognition site; other site 640510004385 dimerization interface [polypeptide binding]; other site 640510004386 Predicted dehydrogenase [General function prediction only]; Region: COG5322 640510004387 Shikimate / quinate 5-dehydrogenase; Region: Shikimate_DH; pfam01488 640510004388 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 640510004389 dimerization interface [polypeptide binding]; other site 640510004390 Outer membrane efflux protein; Region: OEP; pfam02321 640510004391 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 640510004392 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 640510004393 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 640510004394 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 640510004395 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 640510004396 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 640510004397 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 640510004398 Moco binding site; other site 640510004399 metal coordination site [ion binding]; other site 640510004400 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 640510004401 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 640510004402 HAMP domain; Region: HAMP; pfam00672 640510004403 dimerization interface [polypeptide binding]; other site 640510004404 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640510004405 dimer interface [polypeptide binding]; other site 640510004406 putative CheW interface [polypeptide binding]; other site 640510004407 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 640510004408 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 640510004409 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 640510004410 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 640510004411 Chromate transporter; Region: Chromate_transp; pfam02417 640510004412 Domain of unknown function (DUF4130; Region: DUF4130; pfam13566 640510004413 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 640510004414 Fe-S cluster binding site [ion binding]; other site 640510004415 active site 640510004416 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 640510004417 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 640510004418 FeS/SAM binding site; other site 640510004419 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 640510004420 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 640510004421 Domain of unknown function (DUF1992); Region: DUF1992; pfam09350 640510004422 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 640510004423 nucleoside/Zn binding site; other site 640510004424 dimer interface [polypeptide binding]; other site 640510004425 catalytic motif [active] 640510004426 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 640510004427 dimer interface [polypeptide binding]; other site 640510004428 catalytic triad [active] 640510004429 Transcriptional regulators [Transcription]; Region: GntR; COG1802 640510004430 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510004431 DNA-binding site [nucleotide binding]; DNA binding site 640510004432 FCD domain; Region: FCD; pfam07729 640510004433 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 640510004434 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 640510004435 Na binding site [ion binding]; other site 640510004436 putative substrate binding site [chemical binding]; other site 640510004437 Hydantoin racemase [Amino acid transport and metabolism]; Region: COG4126 640510004438 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 640510004439 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 640510004440 active site 640510004441 catalytic site [active] 640510004442 tetramer interface [polypeptide binding]; other site 640510004443 OHCU decarboxylase; Region: UHCUDC; TIGR03164 640510004444 allantoicase; Provisional; Region: PRK13257 640510004445 Allantoicase repeat; Region: Allantoicase; pfam03561 640510004446 Allantoicase repeat; Region: Allantoicase; pfam03561 640510004447 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 640510004448 ureidoglycolate hydrolase; Provisional; Region: PRK03606 640510004449 Predicted membrane protein [Function unknown]; Region: COG3748 640510004450 Protein of unknown function (DUF989); Region: DUF989; pfam06181 640510004451 Cytochrome c; Region: Cytochrom_C; pfam00034 640510004452 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 640510004453 active site 640510004454 homotetramer interface [polypeptide binding]; other site 640510004455 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 640510004456 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 640510004457 active site 640510004458 putative substrate binding pocket [chemical binding]; other site 640510004459 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510004460 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510004461 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 640510004462 putative substrate binding pocket [chemical binding]; other site 640510004463 putative dimerization interface [polypeptide binding]; other site 640510004464 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 640510004465 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 640510004466 Walker A/P-loop; other site 640510004467 ATP binding site [chemical binding]; other site 640510004468 Q-loop/lid; other site 640510004469 ABC transporter signature motif; other site 640510004470 Walker B; other site 640510004471 D-loop; other site 640510004472 H-loop/switch region; other site 640510004473 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 640510004474 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640510004475 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 640510004476 TM-ABC transporter signature motif; other site 640510004477 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 640510004478 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640510004479 TM-ABC transporter signature motif; other site 640510004480 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 640510004481 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 640510004482 putative ligand binding site [chemical binding]; other site 640510004483 Dodecin; Region: Dodecin; pfam07311 640510004484 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 640510004485 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 640510004486 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 640510004487 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 640510004488 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 640510004489 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 640510004490 ABC transporter; Region: ABC_tran_2; pfam12848 640510004491 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 640510004492 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 640510004493 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640510004494 NAD binding site [chemical binding]; other site 640510004495 catalytic residues [active] 640510004496 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 640510004497 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 640510004498 FMN binding site [chemical binding]; other site 640510004499 substrate binding site [chemical binding]; other site 640510004500 putative catalytic residue [active] 640510004501 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 640510004502 Predicted Fe-S protein [General function prediction only]; Region: COG3313 640510004503 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 640510004504 dimerization interface [polypeptide binding]; other site 640510004505 substrate binding site [chemical binding]; other site 640510004506 active site 640510004507 calcium binding site [ion binding]; other site 640510004508 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; cl15845 640510004509 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 640510004510 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 640510004511 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 640510004512 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 640510004513 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640510004514 Walker A/P-loop; other site 640510004515 ATP binding site [chemical binding]; other site 640510004516 Q-loop/lid; other site 640510004517 ABC transporter signature motif; other site 640510004518 Walker B; other site 640510004519 D-loop; other site 640510004520 H-loop/switch region; other site 640510004521 TOBE domain; Region: TOBE_2; pfam08402 640510004522 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510004523 dimer interface [polypeptide binding]; other site 640510004524 conserved gate region; other site 640510004525 putative PBP binding loops; other site 640510004526 ABC-ATPase subunit interface; other site 640510004527 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 640510004528 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510004529 dimer interface [polypeptide binding]; other site 640510004530 conserved gate region; other site 640510004531 putative PBP binding loops; other site 640510004532 ABC-ATPase subunit interface; other site 640510004533 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 640510004534 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640510004535 dimer interface [polypeptide binding]; other site 640510004536 putative CheW interface [polypeptide binding]; other site 640510004537 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640510004538 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 640510004539 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 640510004540 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 640510004541 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640510004542 Tetratricopeptide repeat; Region: TPR_16; pfam13432 640510004543 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 640510004544 TPR motif; other site 640510004545 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 640510004546 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 640510004547 Transglycosylase; Region: Transgly; pfam00912 640510004548 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 640510004549 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640510004550 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 640510004551 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 640510004552 HlyD family secretion protein; Region: HlyD_3; pfam13437 640510004553 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640510004554 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640510004555 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 640510004556 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510004557 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510004558 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 640510004559 putative effector binding pocket; other site 640510004560 dimerization interface [polypeptide binding]; other site 640510004561 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 640510004562 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 640510004563 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640510004564 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 640510004565 Phospholipase B; Region: Phospholip_B; pfam04916 640510004566 putative voltage-gated ClC-type chloride channel ClcB; Provisional; Region: PRK01862 640510004567 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 640510004568 Cl- selectivity filter; other site 640510004569 Cl- binding residues [ion binding]; other site 640510004570 pore gating glutamate residue; other site 640510004571 dimer interface [polypeptide binding]; other site 640510004572 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 640510004573 glutathione s-transferase; Provisional; Region: PTZ00057 640510004574 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 640510004575 GSH binding site (G-site) [chemical binding]; other site 640510004576 C-terminal domain interface [polypeptide binding]; other site 640510004577 dimer interface [polypeptide binding]; other site 640510004578 C-terminal, alpha helical domain of Class Sigma-like Glutathione S-transferases; Region: GST_C_Sigma_like; cd03192 640510004579 dimer interface [polypeptide binding]; other site 640510004580 N-terminal domain interface [polypeptide binding]; other site 640510004581 substrate binding pocket (H-site) [chemical binding]; other site 640510004582 Predicted membrane protein [Function unknown]; Region: COG2855 640510004583 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510004584 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510004585 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 640510004586 putative dimerization interface [polypeptide binding]; other site 640510004587 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 640510004588 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 640510004589 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 640510004590 substrate binding site [chemical binding]; other site 640510004591 ATP binding site [chemical binding]; other site 640510004592 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510004593 D-galactonate transporter; Region: 2A0114; TIGR00893 640510004594 putative substrate translocation pore; other site 640510004595 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 640510004596 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 640510004597 dimerization interface [polypeptide binding]; other site 640510004598 ligand binding site [chemical binding]; other site 640510004599 NADP binding site [chemical binding]; other site 640510004600 catalytic site [active] 640510004601 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640510004602 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640510004603 DNA binding site [nucleotide binding] 640510004604 domain linker motif; other site 640510004605 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 640510004606 putative dimerization interface [polypeptide binding]; other site 640510004607 putative ligand binding site [chemical binding]; other site 640510004608 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640510004609 Putative membrane peptidase family (DUF2324); Region: DUF2324; pfam10086 640510004610 Protein of unknown function (DUF3022); Region: DUF3022; pfam11226 640510004611 PGDYG protein; Region: PGDYG; pfam14083 640510004612 LTXXQ motif family protein; Region: LTXXQ; pfam07813 640510004613 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510004614 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510004615 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 640510004616 putative effector binding pocket; other site 640510004617 putative dimerization interface [polypeptide binding]; other site 640510004618 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 640510004619 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 640510004620 AsnC family; Region: AsnC_trans_reg; pfam01037 640510004621 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 640510004622 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 640510004623 AAA domain; Region: AAA_33; pfam13671 640510004624 AAA domain; Region: AAA_17; pfam13207 640510004625 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 640510004626 Mycobacterium tuberculosis CorA-like subfamily; Region: MtCorA-like; cd12830 640510004627 oligomer interface [polypeptide binding]; other site 640510004628 metal binding site [ion binding]; metal-binding site 640510004629 metal binding site [ion binding]; metal-binding site 640510004630 putative Cl binding site [ion binding]; other site 640510004631 basic sphincter; other site 640510004632 hydrophobic gate; other site 640510004633 periplasmic entrance; other site 640510004634 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 640510004635 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640510004636 ligand binding site [chemical binding]; other site 640510004637 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 640510004638 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 640510004639 Walker A/P-loop; other site 640510004640 ATP binding site [chemical binding]; other site 640510004641 Q-loop/lid; other site 640510004642 ABC transporter signature motif; other site 640510004643 Walker B; other site 640510004644 D-loop; other site 640510004645 H-loop/switch region; other site 640510004646 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 640510004647 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 640510004648 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640510004649 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 640510004650 TM-ABC transporter signature motif; other site 640510004651 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640510004652 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640510004653 DNA binding site [nucleotide binding] 640510004654 domain linker motif; other site 640510004655 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 640510004656 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 640510004657 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 640510004658 substrate binding site [chemical binding]; other site 640510004659 dimer interface [polypeptide binding]; other site 640510004660 ATP binding site [chemical binding]; other site 640510004661 Tar ligand binding domain homologue; Region: TarH; pfam02203 640510004662 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 640510004663 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 640510004664 dimerization interface [polypeptide binding]; other site 640510004665 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640510004666 dimer interface [polypeptide binding]; other site 640510004667 putative CheW interface [polypeptide binding]; other site 640510004668 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 640510004669 PrkA family serine protein kinase; Provisional; Region: PRK15455 640510004670 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 640510004671 Walker A motif; other site 640510004672 ATP binding site [chemical binding]; other site 640510004673 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 640510004674 hypothetical protein; Provisional; Region: PRK05325 640510004675 SpoVR family protein; Provisional; Region: PRK11767 640510004676 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 640510004677 Protein of unknown function (DUF3620); Region: DUF3620; cl02233 640510004678 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 640510004679 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510004680 putative substrate translocation pore; other site 640510004681 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 640510004682 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 640510004683 active site 640510004684 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510004685 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510004686 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 640510004687 putative effector binding pocket; other site 640510004688 dimerization interface [polypeptide binding]; other site 640510004689 putative transporter; Provisional; Region: PRK10504 640510004690 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510004691 putative substrate translocation pore; other site 640510004692 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 640510004693 Uncharacterized conserved protein [Function unknown]; Region: COG2128 640510004694 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 640510004695 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 640510004696 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640510004697 Cytochrome c; Region: Cytochrom_C; pfam00034 640510004698 Predicted membrane protein [Function unknown]; Region: COG2323 640510004699 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510004700 putative transporter; Provisional; Region: PRK10504 640510004701 putative substrate translocation pore; other site 640510004702 Predicted integral membrane protein [Function unknown]; Region: COG0392 640510004703 Uncharacterized conserved protein [Function unknown]; Region: COG2898 640510004704 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 640510004705 Type IV secretory pathway, VirJ component [Intracellular trafficking and secretion]; Region: VirJ; COG3946 640510004706 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 640510004707 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 640510004708 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 640510004709 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 640510004710 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 640510004711 acyl-activating enzyme (AAE) consensus motif; other site 640510004712 AMP binding site [chemical binding]; other site 640510004713 acyl carrier protein; Provisional; Region: PRK07081 640510004714 exosortase A system-associated hydrolase 2; Region: hydr2_PEP; TIGR03101 640510004715 exosortase A system-associated hydrolase 1; Region: hydr1_PEP; TIGR03100 640510004716 threonine dehydratase; Reviewed; Region: PRK09224 640510004717 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 640510004718 tetramer interface [polypeptide binding]; other site 640510004719 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510004720 catalytic residue [active] 640510004721 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 640510004722 putative Ile/Val binding site [chemical binding]; other site 640510004723 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 640510004724 putative Ile/Val binding site [chemical binding]; other site 640510004725 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 640510004726 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 640510004727 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 640510004728 DNA-binding transcriptional regulator KdgR; Provisional; Region: PRK15090 640510004729 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 640510004730 dimerization interface [polypeptide binding]; other site 640510004731 putative Zn2+ binding site [ion binding]; other site 640510004732 putative DNA binding site [nucleotide binding]; other site 640510004733 Bacterial transcriptional regulator; Region: IclR; pfam01614 640510004734 2-deoxy-D-gluconate 3-dehydrogenase; Region: kduD; TIGR01832 640510004735 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 640510004736 NADP binding site [chemical binding]; other site 640510004737 homodimer interface [polypeptide binding]; other site 640510004738 active site 640510004739 5-keto-4-deoxyuronate isomerase; Provisional; Region: PRK00924 640510004740 2-keto-3-deoxygluconate permease; Region: KdgT; cl14653 640510004741 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640510004742 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 640510004743 tetramerization interface [polypeptide binding]; other site 640510004744 NAD(P) binding site [chemical binding]; other site 640510004745 catalytic residues [active] 640510004746 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 640510004747 DNA-binding site [nucleotide binding]; DNA binding site 640510004748 RNA-binding motif; other site 640510004749 hopanoid biosynthesis associated radical SAM protein HpnJ; Region: HpnJ; TIGR03471 640510004750 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 640510004751 B12 binding site [chemical binding]; other site 640510004752 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 640510004753 FeS/SAM binding site; other site 640510004754 hopanoid biosynthesis associated glycosyl transferase protein HpnI; Region: HpnI; TIGR03472 640510004755 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 640510004756 ligand binding site; other site 640510004757 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 640510004758 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 640510004759 dimer interface [polypeptide binding]; other site 640510004760 phosphorylation site [posttranslational modification] 640510004761 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510004762 ATP binding site [chemical binding]; other site 640510004763 Mg2+ binding site [ion binding]; other site 640510004764 G-X-G motif; other site 640510004765 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 640510004766 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510004767 active site 640510004768 phosphorylation site [posttranslational modification] 640510004769 intermolecular recognition site; other site 640510004770 dimerization interface [polypeptide binding]; other site 640510004771 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 640510004772 DNA binding site [nucleotide binding] 640510004773 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 640510004774 ligand binding site; other site 640510004775 Glycosyl transferase family 21; Region: Glyco_transf_21; pfam13506 640510004776 Catalytic domain of glycoside hydrolase (GH) families 38 and 57, lactam utilization protein LamB/YcsF family proteins, YdjC-family proteins, and similar proteins; Region: GH38-57_N_LamB_YdjC_SF; cl17191 640510004777 Activator of osmoprotectant transporter ProP [Signal transduction mechanisms]; Region: ProQ; COG3109 640510004778 ProQ/FINO family; Region: ProQ; pfam04352 640510004779 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 640510004780 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 640510004781 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510004782 NAD(P) binding site [chemical binding]; other site 640510004783 active site 640510004784 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 640510004785 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510004786 The 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 640510004787 dimerization interface [polypeptide binding]; other site 640510004788 2-aminoethylphosphonate--pyruvate transaminase; Provisional; Region: PRK13479 640510004789 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640510004790 catalytic residue [active] 640510004791 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 640510004792 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 640510004793 active site 640510004794 motif I; other site 640510004795 motif II; other site 640510004796 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 640510004797 nucleotide binding site [chemical binding]; other site 640510004798 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 640510004799 nucleotide binding site [chemical binding]; other site 640510004800 putative NEF/HSP70 interaction site [polypeptide binding]; other site 640510004801 SBD interface [polypeptide binding]; other site 640510004802 DNA-K related protein; Region: DUF3731; pfam12531 640510004803 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 640510004804 nucleotide binding site [chemical binding]; other site 640510004805 putative NEF/HSP70 interaction site [polypeptide binding]; other site 640510004806 SBD interface [polypeptide binding]; other site 640510004807 Domain of unknown function (DUF2760); Region: DUF2760; pfam10816 640510004808 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 640510004809 intersubunit interface [polypeptide binding]; other site 640510004810 active site 640510004811 catalytic residue [active] 640510004812 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 640510004813 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 640510004814 substrate binding site [chemical binding]; other site 640510004815 dimer interface [polypeptide binding]; other site 640510004816 ATP binding site [chemical binding]; other site 640510004817 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640510004818 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 640510004819 TM-ABC transporter signature motif; other site 640510004820 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 640510004821 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640510004822 ligand binding site [chemical binding]; other site 640510004823 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 640510004824 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640510004825 Walker A/P-loop; other site 640510004826 ATP binding site [chemical binding]; other site 640510004827 Q-loop/lid; other site 640510004828 ABC transporter signature motif; other site 640510004829 Walker B; other site 640510004830 D-loop; other site 640510004831 H-loop/switch region; other site 640510004832 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 640510004833 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640510004834 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 640510004835 TM-ABC transporter signature motif; other site 640510004836 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 640510004837 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 640510004838 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 640510004839 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 640510004840 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 640510004841 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640510004842 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 640510004843 putative ADP-binding pocket [chemical binding]; other site 640510004844 phosphoglycolate phosphatase, TA0175-type; Region: Pglycolate_arch; TIGR01487 640510004845 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 640510004846 active site 640510004847 motif I; other site 640510004848 motif II; other site 640510004849 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 640510004850 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 640510004851 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 640510004852 ATP binding site [chemical binding]; other site 640510004853 putative Mg++ binding site [ion binding]; other site 640510004854 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 640510004855 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 640510004856 DNA binding site [nucleotide binding] 640510004857 Predicted ATPase [General function prediction only]; Region: COG3903 640510004858 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510004859 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640510004860 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510004861 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 640510004862 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 640510004863 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 640510004864 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 640510004865 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 640510004866 active site 640510004867 Mechanosensitive ion channel; Region: MS_channel; pfam00924 640510004868 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 640510004869 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 640510004870 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 640510004871 ligand binding site [chemical binding]; other site 640510004872 flexible hinge region; other site 640510004873 Protein of unknown function (DUF1427); Region: DUF1427; pfam07235 640510004874 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 640510004875 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 640510004876 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 640510004877 ligand binding site [chemical binding]; other site 640510004878 flexible hinge region; other site 640510004879 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 640510004880 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 640510004881 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 640510004882 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 640510004883 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 640510004884 DNA binding site [nucleotide binding] 640510004885 Predicted ATPase [General function prediction only]; Region: COG3903 640510004886 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 640510004887 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510004888 The 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 640510004889 dimerization interface [polypeptide binding]; other site 640510004890 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 640510004891 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 640510004892 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510004893 The 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 640510004894 dimerization interface [polypeptide binding]; other site 640510004895 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 640510004896 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 640510004897 putative ligand binding site [chemical binding]; other site 640510004898 NAD binding site [chemical binding]; other site 640510004899 catalytic site [active] 640510004900 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510004901 D-galactonate transporter; Region: 2A0114; TIGR00893 640510004902 putative substrate translocation pore; other site 640510004903 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510004904 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 640510004905 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 640510004906 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510004907 The 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 640510004908 dimerization interface [polypeptide binding]; other site 640510004909 putative aminotransferase; Validated; Region: PRK07480 640510004910 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 640510004911 inhibitor-cofactor binding pocket; inhibition site 640510004912 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510004913 catalytic residue [active] 640510004914 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 640510004915 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 640510004916 Peptidase C26; Region: Peptidase_C26; pfam07722 640510004917 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 640510004918 catalytic triad [active] 640510004919 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 640510004920 trimer interface [polypeptide binding]; other site 640510004921 active site 640510004922 substrate binding site [chemical binding]; other site 640510004923 CoA binding site [chemical binding]; other site 640510004924 Domain of unknown function (DUF1924); Region: DUF1924; pfam09086 640510004925 Dihaem cytochrome c; Region: DHC; pfam09626 640510004926 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 640510004927 DNA-binding transcriptional regulator QseB; Provisional; Region: PRK10336 640510004928 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510004929 active site 640510004930 phosphorylation site [posttranslational modification] 640510004931 intermolecular recognition site; other site 640510004932 dimerization interface [polypeptide binding]; other site 640510004933 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 640510004934 DNA binding site [nucleotide binding] 640510004935 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 640510004936 dimer interface [polypeptide binding]; other site 640510004937 phosphorylation site [posttranslational modification] 640510004938 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510004939 ATP binding site [chemical binding]; other site 640510004940 Mg2+ binding site [ion binding]; other site 640510004941 G-X-G motif; other site 640510004942 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 640510004943 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 640510004944 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 640510004945 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 640510004946 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510004947 putative substrate translocation pore; other site 640510004948 Transglycosylase; Region: Transgly; pfam00912 640510004949 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 640510004950 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 640510004951 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 640510004952 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 640510004953 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 640510004954 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 640510004955 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 640510004956 putative C-terminal domain interface [polypeptide binding]; other site 640510004957 putative GSH binding site (G-site) [chemical binding]; other site 640510004958 putative dimer interface [polypeptide binding]; other site 640510004959 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 640510004960 putative N-terminal domain interface [polypeptide binding]; other site 640510004961 putative dimer interface [polypeptide binding]; other site 640510004962 putative substrate binding pocket (H-site) [chemical binding]; other site 640510004963 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640510004964 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510004965 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 640510004966 dimerization interface [polypeptide binding]; other site 640510004967 substrate binding pocket [chemical binding]; other site 640510004968 choline dehydrogenase; Validated; Region: PRK02106 640510004969 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 640510004970 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 640510004971 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 640510004972 active site pocket [active] 640510004973 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510004974 Escherichia coli lactaldehyde dehydrogenase AldA-like; Region: ALDH_LactADH-AldA; cd07088 640510004975 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640510004976 NAD binding site [chemical binding]; other site 640510004977 catalytic residues [active] 640510004978 substrate binding site [chemical binding]; other site 640510004979 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 640510004980 nitrite extrusion protein (nitrite facilitator); Region: 2A0108; TIGR00886 640510004981 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510004982 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 640510004983 active site 640510004984 SAM binding site [chemical binding]; other site 640510004985 homodimer interface [polypeptide binding]; other site 640510004986 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 640510004987 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 640510004988 MOSC domain; Region: MOSC; pfam03473 640510004989 Domain of unknown function (DUF336); Region: DUF336; cl01249 640510004990 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 640510004991 active site 640510004992 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 640510004993 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 640510004994 active site 640510004995 tetramer interface; other site 640510004996 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 640510004997 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640510004998 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 640510004999 putative ADP-binding pocket [chemical binding]; other site 640510005000 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640510005001 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 640510005002 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 640510005003 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 640510005004 Acyltransferase family; Region: Acyl_transf_3; pfam01757 640510005005 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 640510005006 active site 640510005007 catalytic triad [active] 640510005008 oxyanion hole [active] 640510005009 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 640510005010 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 640510005011 NADP-binding site; other site 640510005012 homotetramer interface [polypeptide binding]; other site 640510005013 substrate binding site [chemical binding]; other site 640510005014 homodimer interface [polypeptide binding]; other site 640510005015 active site 640510005016 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640510005017 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 640510005018 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 640510005019 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 640510005020 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 640510005021 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640510005022 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 640510005023 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 640510005024 DXD motif; other site 640510005025 tyrosine kinase; Provisional; Region: PRK11519 640510005026 Chain length determinant protein; Region: Wzz; cl15801 640510005027 Chain length determinant protein; Region: Wzz; cl15801 640510005028 Angiomotin C terminal; Region: Angiomotin_C; pfam12240 640510005029 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 640510005030 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 640510005031 P-loop; other site 640510005032 Magnesium ion binding site [ion binding]; other site 640510005033 polysaccharide export protein Wza; Provisional; Region: PRK15078 640510005034 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 640510005035 SLBB domain; Region: SLBB; pfam10531 640510005036 SLBB domain; Region: SLBB; pfam10531 640510005037 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 640510005038 Low molecular weight phosphatase family; Region: LMWPc; cd00115 640510005039 active site 640510005040 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 640510005041 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 640510005042 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 640510005043 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 640510005044 CoA-binding domain; Region: CoA_binding_3; pfam13727 640510005045 Bacterial sugar transferase; Region: Bac_transf; pfam02397 640510005046 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 640510005047 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 640510005048 Substrate binding site; other site 640510005049 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 640510005050 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 640510005051 YciI-like protein; Reviewed; Region: PRK12866 640510005052 psiF repeat; Region: PsiF_repeat; pfam07769 640510005053 psiF repeat; Region: PsiF_repeat; pfam07769 640510005054 Domain of unknown function DUF221; Region: DUF221; pfam02714 640510005055 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 640510005056 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 640510005057 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640510005058 putative ADP-binding pocket [chemical binding]; other site 640510005059 Predicted ATPase [General function prediction only]; Region: COG4637 640510005060 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640510005061 Walker A/P-loop; other site 640510005062 ATP binding site [chemical binding]; other site 640510005063 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 640510005064 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 640510005065 active site 640510005066 homotetramer interface [polypeptide binding]; other site 640510005067 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 640510005068 Mechanosensitive ion channel; Region: MS_channel; pfam00924 640510005069 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 640510005070 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 640510005071 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 640510005072 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 640510005073 active site 640510005074 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 640510005075 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 640510005076 Coenzyme A binding pocket [chemical binding]; other site 640510005077 DNA polymerase III subunit delta'; Validated; Region: PRK06964 640510005078 DNA polymerase III subunit delta'; Validated; Region: PRK08485 640510005079 thymidylate kinase; Validated; Region: tmk; PRK00698 640510005080 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 640510005081 TMP-binding site; other site 640510005082 ATP-binding site [chemical binding]; other site 640510005083 YceG-like family; Region: YceG; pfam02618 640510005084 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 640510005085 dimerization interface [polypeptide binding]; other site 640510005086 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 640510005087 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 640510005088 NRDE protein; Region: NRDE; cl01315 640510005089 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 640510005090 hypothetical protein; Provisional; Region: PRK06194 640510005091 classical (c) SDRs; Region: SDR_c; cd05233 640510005092 NAD(P) binding site [chemical binding]; other site 640510005093 active site 640510005094 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 640510005095 Prostaglandin dehydrogenases; Region: PGDH; cd05288 640510005096 NAD(P) binding site [chemical binding]; other site 640510005097 substrate binding site [chemical binding]; other site 640510005098 dimer interface [polypeptide binding]; other site 640510005099 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 640510005100 CoenzymeA binding site [chemical binding]; other site 640510005101 subunit interaction site [polypeptide binding]; other site 640510005102 PHB binding site; other site 640510005103 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 640510005104 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510005105 DNA-binding site [nucleotide binding]; DNA binding site 640510005106 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 640510005107 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510005108 homodimer interface [polypeptide binding]; other site 640510005109 catalytic residue [active] 640510005110 Water Stress and Hypersensitive response; Region: WHy; smart00769 640510005111 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 640510005112 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 640510005113 dimer interface [polypeptide binding]; other site 640510005114 active site 640510005115 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 640510005116 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 640510005117 substrate binding site [chemical binding]; other site 640510005118 oxyanion hole (OAH) forming residues; other site 640510005119 trimer interface [polypeptide binding]; other site 640510005120 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 640510005121 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 640510005122 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 640510005123 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 640510005124 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 640510005125 dimer interface [polypeptide binding]; other site 640510005126 acyl-activating enzyme (AAE) consensus motif; other site 640510005127 putative active site [active] 640510005128 AMP binding site [chemical binding]; other site 640510005129 putative CoA binding site [chemical binding]; other site 640510005130 Uncharacterized conserved protein [Function unknown]; Region: COG0397 640510005131 hypothetical protein; Validated; Region: PRK00029 640510005132 methionine sulfoxide reductase B; Provisional; Region: PRK00222 640510005133 SelR domain; Region: SelR; pfam01641 640510005134 intracellular septation protein A; Reviewed; Region: PRK00259 640510005135 BolA-like protein; Region: BolA; pfam01722 640510005136 SurA N-terminal domain; Region: SurA_N_3; cl07813 640510005137 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 640510005138 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 640510005139 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 640510005140 dimerization interface [polypeptide binding]; other site 640510005141 ATP binding site [chemical binding]; other site 640510005142 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 640510005143 dimerization interface [polypeptide binding]; other site 640510005144 ATP binding site [chemical binding]; other site 640510005145 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 640510005146 putative active site [active] 640510005147 catalytic triad [active] 640510005148 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 640510005149 putative carbohydrate kinase; Provisional; Region: PRK10565 640510005150 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 640510005151 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 640510005152 putative substrate binding site [chemical binding]; other site 640510005153 putative ATP binding site [chemical binding]; other site 640510005154 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 640510005155 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 640510005156 active site 640510005157 dimer interface [polypeptide binding]; other site 640510005158 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 640510005159 dimer interface [polypeptide binding]; other site 640510005160 active site 640510005161 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 640510005162 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 640510005163 Walker A/P-loop; other site 640510005164 ATP binding site [chemical binding]; other site 640510005165 Q-loop/lid; other site 640510005166 ABC transporter signature motif; other site 640510005167 Walker B; other site 640510005168 D-loop; other site 640510005169 H-loop/switch region; other site 640510005170 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 640510005171 active site 640510005172 catalytic triad [active] 640510005173 oxyanion hole [active] 640510005174 switch loop; other site 640510005175 SurA N-terminal domain; Region: SurA_N_3; cl07813 640510005176 periplasmic folding chaperone; Provisional; Region: PRK10788 640510005177 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 640510005178 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 640510005179 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 640510005180 IHF dimer interface [polypeptide binding]; other site 640510005181 IHF - DNA interface [nucleotide binding]; other site 640510005182 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 640510005183 Found in ATP-dependent protease La (LON); Region: LON; smart00464 640510005184 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 640510005185 Walker A motif; other site 640510005186 ATP binding site [chemical binding]; other site 640510005187 Walker B motif; other site 640510005188 arginine finger; other site 640510005189 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 640510005190 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 640510005191 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 640510005192 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 640510005193 Walker A motif; other site 640510005194 ATP binding site [chemical binding]; other site 640510005195 Walker B motif; other site 640510005196 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 640510005197 Clp protease; Region: CLP_protease; pfam00574 640510005198 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 640510005199 oligomer interface [polypeptide binding]; other site 640510005200 active site residues [active] 640510005201 trigger factor; Provisional; Region: tig; PRK01490 640510005202 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 640510005203 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 640510005204 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 640510005205 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640510005206 MarR family; Region: MarR_2; pfam12802 640510005207 MarR family; Region: MarR_2; cl17246 640510005208 Protein of unknown function (DUF3999); Region: DUF3999; pfam13163 640510005209 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 640510005210 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 640510005211 active site lid residues [active] 640510005212 substrate binding pocket [chemical binding]; other site 640510005213 catalytic residues [active] 640510005214 substrate-Mg2+ binding site; other site 640510005215 aspartate-rich region 1; other site 640510005216 aspartate-rich region 2; other site 640510005217 osmolarity response regulator; Provisional; Region: ompR; PRK09468 640510005218 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510005219 active site 640510005220 phosphorylation site [posttranslational modification] 640510005221 intermolecular recognition site; other site 640510005222 dimerization interface [polypeptide binding]; other site 640510005223 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 640510005224 DNA binding site [nucleotide binding] 640510005225 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 640510005226 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 640510005227 dimer interface [polypeptide binding]; other site 640510005228 phosphorylation site [posttranslational modification] 640510005229 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510005230 ATP binding site [chemical binding]; other site 640510005231 Mg2+ binding site [ion binding]; other site 640510005232 G-X-G motif; other site 640510005233 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 640510005234 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 640510005235 dimer interface [polypeptide binding]; other site 640510005236 decamer (pentamer of dimers) interface [polypeptide binding]; other site 640510005237 catalytic triad [active] 640510005238 peroxidatic and resolving cysteines [active] 640510005239 alkylhydroperoxidase, AhpD family; Region: ahpD; TIGR00777 640510005240 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 640510005241 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 640510005242 homotrimer interaction site [polypeptide binding]; other site 640510005243 zinc binding site [ion binding]; other site 640510005244 CDP-binding sites; other site 640510005245 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 640510005246 substrate binding site; other site 640510005247 dimer interface; other site 640510005248 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 640510005249 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 640510005250 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 640510005251 ATP binding site [chemical binding]; other site 640510005252 putative Mg++ binding site [ion binding]; other site 640510005253 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 640510005254 nucleotide binding region [chemical binding]; other site 640510005255 ATP-binding site [chemical binding]; other site 640510005256 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 640510005257 acetylornithine deacetylase; Provisional; Region: PRK07522 640510005258 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 640510005259 metal binding site [ion binding]; metal-binding site 640510005260 putative dimer interface [polypeptide binding]; other site 640510005261 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 640510005262 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 640510005263 tetramer interface [polypeptide binding]; other site 640510005264 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510005265 catalytic residue [active] 640510005266 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 640510005267 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 640510005268 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 640510005269 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510005270 active site 640510005271 phosphorylation site [posttranslational modification] 640510005272 intermolecular recognition site; other site 640510005273 dimerization interface [polypeptide binding]; other site 640510005274 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 640510005275 PAS fold; Region: PAS_3; pfam08447 640510005276 putative active site [active] 640510005277 heme pocket [chemical binding]; other site 640510005278 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640510005279 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 640510005280 dimer interface [polypeptide binding]; other site 640510005281 phosphorylation site [posttranslational modification] 640510005282 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510005283 ATP binding site [chemical binding]; other site 640510005284 Mg2+ binding site [ion binding]; other site 640510005285 G-X-G motif; other site 640510005286 Response regulator receiver domain; Region: Response_reg; pfam00072 640510005287 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510005288 active site 640510005289 phosphorylation site [posttranslational modification] 640510005290 intermolecular recognition site; other site 640510005291 dimerization interface [polypeptide binding]; other site 640510005292 Response regulator receiver domain; Region: Response_reg; pfam00072 640510005293 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510005294 active site 640510005295 phosphorylation site [posttranslational modification] 640510005296 intermolecular recognition site; other site 640510005297 dimerization interface [polypeptide binding]; other site 640510005298 CHASE3 domain; Region: CHASE3; pfam05227 640510005299 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640510005300 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 640510005301 dimer interface [polypeptide binding]; other site 640510005302 phosphorylation site [posttranslational modification] 640510005303 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510005304 ATP binding site [chemical binding]; other site 640510005305 Mg2+ binding site [ion binding]; other site 640510005306 G-X-G motif; other site 640510005307 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 640510005308 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 640510005309 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4619 640510005310 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640510005311 Walker A/P-loop; other site 640510005312 ATP binding site [chemical binding]; other site 640510005313 Q-loop/lid; other site 640510005314 ABC transporter signature motif; other site 640510005315 Walker B; other site 640510005316 D-loop; other site 640510005317 H-loop/switch region; other site 640510005318 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 640510005319 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 640510005320 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 640510005321 putative NAD(P) binding site [chemical binding]; other site 640510005322 dimer interface [polypeptide binding]; other site 640510005323 transcriptional activator TtdR; Provisional; Region: PRK09801 640510005324 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510005325 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 640510005326 putative effector binding pocket; other site 640510005327 dimerization interface [polypeptide binding]; other site 640510005328 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 640510005329 DNA polymerase LigD, ligase domain; Region: NHEJ_ligase_lig; TIGR02779 640510005330 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 640510005331 active site 640510005332 DNA binding site [nucleotide binding] 640510005333 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 640510005334 DNA binding site [nucleotide binding] 640510005335 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 640510005336 nucleotide binding site [chemical binding]; other site 640510005337 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 640510005338 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 640510005339 putative DNA binding site [nucleotide binding]; other site 640510005340 putative homodimer interface [polypeptide binding]; other site 640510005341 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 640510005342 Cytochrome P450; Region: p450; cl12078 640510005343 Domain of unknown function (DUF4072); Region: DUF4072; pfam13284 640510005344 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 640510005345 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 640510005346 motif II; other site 640510005347 cystathionine beta-lyase; Provisional; Region: PRK07050 640510005348 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 640510005349 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640510005350 catalytic residue [active] 640510005351 beta-ketothiolase; Provisional; Region: PRK09051 640510005352 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 640510005353 dimer interface [polypeptide binding]; other site 640510005354 active site 640510005355 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 640510005356 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 640510005357 substrate binding site [chemical binding]; other site 640510005358 ATP binding site [chemical binding]; other site 640510005359 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 640510005360 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 640510005361 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 640510005362 FeS/SAM binding site; other site 640510005363 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 640510005364 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 640510005365 catalytic residues [active] 640510005366 catalytic nucleophile [active] 640510005367 Recombinase; Region: Recombinase; pfam07508 640510005368 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 640510005369 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 640510005370 non-specific DNA binding site [nucleotide binding]; other site 640510005371 salt bridge; other site 640510005372 sequence-specific DNA binding site [nucleotide binding]; other site 640510005373 Predicted transcriptional regulator [Transcription]; Region: COG4190 640510005374 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 640510005375 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 640510005376 PAAR motif; Region: PAAR_motif; pfam05488 640510005377 Protein of unknown function DUF72; Region: DUF72; pfam01904 640510005378 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 640510005379 active site 640510005380 DNA binding site [nucleotide binding] 640510005381 DNA ligase D; Region: NHEJ_ligase_prk; TIGR02776 640510005382 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 640510005383 DNA binding site [nucleotide binding] 640510005384 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 640510005385 nucleotide binding site [chemical binding]; other site 640510005386 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 640510005387 HNH endonuclease; Region: HNH_2; pfam13391 640510005388 HNH endonuclease; Region: HNH_2; pfam13391 640510005389 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640510005390 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 640510005391 Walker A/P-loop; other site 640510005392 ATP binding site [chemical binding]; other site 640510005393 AAA domain; Region: AAA_21; pfam13304 640510005394 EcoKI restriction-modification system protein HsdS; Provisional; Region: PRK09737 640510005395 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 640510005396 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 640510005397 HsdM N-terminal domain; Region: HsdM_N; pfam12161 640510005398 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 640510005399 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 640510005400 S-adenosylmethionine binding site [chemical binding]; other site 640510005401 type I restriction enzyme EcoKI subunit R; Provisional; Region: hsdR; PRK11448 640510005402 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 640510005403 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 640510005404 ATP binding site [chemical binding]; other site 640510005405 putative Mg++ binding site [ion binding]; other site 640510005406 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 640510005407 nucleotide binding region [chemical binding]; other site 640510005408 ATP-binding site [chemical binding]; other site 640510005409 Helix-turn-helix domain; Region: HTH_17; pfam12728 640510005410 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 640510005411 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 640510005412 active site 640510005413 metal binding site [ion binding]; metal-binding site 640510005414 interdomain interaction site; other site 640510005415 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 640510005416 Walker A motif; other site 640510005417 ATP binding site [chemical binding]; other site 640510005418 Walker B motif; other site 640510005419 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 640510005420 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 640510005421 Domain of unknown function (DUF4325); Region: DUF4325; pfam14213 640510005422 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 640510005423 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 640510005424 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 640510005425 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 640510005426 acetyacetyl-CoA reductase; Provisional; Region: PRK12938 640510005427 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 640510005428 NAD(P) binding site [chemical binding]; other site 640510005429 homotetramer interface [polypeptide binding]; other site 640510005430 homodimer interface [polypeptide binding]; other site 640510005431 active site 640510005432 putative acyltransferase; Provisional; Region: PRK05790 640510005433 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 640510005434 dimer interface [polypeptide binding]; other site 640510005435 active site 640510005436 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 640510005437 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 640510005438 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 640510005439 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 640510005440 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 640510005441 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 640510005442 RNA binding surface [nucleotide binding]; other site 640510005443 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 640510005444 active site 640510005445 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 640510005446 TRAM domain; Region: TRAM; cl01282 640510005447 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 640510005448 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 640510005449 S-adenosylmethionine binding site [chemical binding]; other site 640510005450 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 640510005451 active site 640510005452 catalytic site [active] 640510005453 substrate binding site [chemical binding]; other site 640510005454 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 640510005455 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 640510005456 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 640510005457 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640510005458 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 640510005459 DNA binding residues [nucleotide binding] 640510005460 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 640510005461 Peptidase family M23; Region: Peptidase_M23; pfam01551 640510005462 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 640510005463 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 640510005464 S-adenosylmethionine binding site [chemical binding]; other site 640510005465 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 640510005466 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 640510005467 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 640510005468 NAD(P) binding site [chemical binding]; other site 640510005469 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 640510005470 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510005471 dimer interface [polypeptide binding]; other site 640510005472 conserved gate region; other site 640510005473 putative PBP binding loops; other site 640510005474 ABC-ATPase subunit interface; other site 640510005475 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 640510005476 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 640510005477 Walker A/P-loop; other site 640510005478 ATP binding site [chemical binding]; other site 640510005479 Q-loop/lid; other site 640510005480 ABC transporter signature motif; other site 640510005481 Walker B; other site 640510005482 D-loop; other site 640510005483 H-loop/switch region; other site 640510005484 NMT1-like family; Region: NMT1_2; pfam13379 640510005485 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 640510005486 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 640510005487 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640510005488 recombination protein RecR; Reviewed; Region: recR; PRK00076 640510005489 RecR protein; Region: RecR; pfam02132 640510005490 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 640510005491 putative active site [active] 640510005492 putative metal-binding site [ion binding]; other site 640510005493 tetramer interface [polypeptide binding]; other site 640510005494 hypothetical protein; Validated; Region: PRK00153 640510005495 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 640510005496 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 640510005497 Walker A motif; other site 640510005498 ATP binding site [chemical binding]; other site 640510005499 Walker B motif; other site 640510005500 arginine finger; other site 640510005501 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 640510005502 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 640510005503 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 640510005504 catalytic residues [active] 640510005505 transcription termination factor Rho; Provisional; Region: rho; PRK09376 640510005506 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 640510005507 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 640510005508 RNA binding site [nucleotide binding]; other site 640510005509 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 640510005510 multimer interface [polypeptide binding]; other site 640510005511 Walker A motif; other site 640510005512 ATP binding site [chemical binding]; other site 640510005513 Walker B motif; other site 640510005514 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 640510005515 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 640510005516 DNA binding residues [nucleotide binding] 640510005517 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510005518 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 640510005519 putative substrate translocation pore; other site 640510005520 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 640510005521 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 640510005522 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 640510005523 multidrug efflux protein; Reviewed; Region: PRK01766 640510005524 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 640510005525 cation binding site [ion binding]; other site 640510005526 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 640510005527 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 640510005528 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 640510005529 DNA binding residues [nucleotide binding] 640510005530 putative dimer interface [polypeptide binding]; other site 640510005531 DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]; Region: ComEA; COG1555 640510005532 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 640510005533 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 640510005534 Clp amino terminal domain; Region: Clp_N; pfam02861 640510005535 Clp amino terminal domain; Region: Clp_N; pfam02861 640510005536 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 640510005537 Walker A motif; other site 640510005538 ATP binding site [chemical binding]; other site 640510005539 Walker B motif; other site 640510005540 arginine finger; other site 640510005541 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 640510005542 Walker A motif; other site 640510005543 ATP binding site [chemical binding]; other site 640510005544 Walker B motif; other site 640510005545 arginine finger; other site 640510005546 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 640510005547 Transcriptional regulator; Region: Rrf2; cl17282 640510005548 Rrf2 family protein; Region: rrf2_super; TIGR00738 640510005549 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 640510005550 apolar tunnel; other site 640510005551 heme binding site [chemical binding]; other site 640510005552 dimerization interface [polypeptide binding]; other site 640510005553 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 640510005554 MoaE homodimer interface [polypeptide binding]; other site 640510005555 MoaD interaction [polypeptide binding]; other site 640510005556 active site residues [active] 640510005557 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 640510005558 MoaE interaction surface [polypeptide binding]; other site 640510005559 MoeB interaction surface [polypeptide binding]; other site 640510005560 thiocarboxylated glycine; other site 640510005561 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 640510005562 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 640510005563 dimer interface [polypeptide binding]; other site 640510005564 putative functional site; other site 640510005565 putative MPT binding site; other site 640510005566 Transposase; Region: DEDD_Tnp_IS110; pfam01548 640510005567 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 640510005568 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 640510005569 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 640510005570 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 640510005571 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510005572 catalytic residue [active] 640510005573 homoserine dehydrogenase; Provisional; Region: PRK06349 640510005574 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 640510005575 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 640510005576 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 640510005577 aminotransferase AlaT; Validated; Region: PRK09265 640510005578 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 640510005579 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510005580 homodimer interface [polypeptide binding]; other site 640510005581 catalytic residue [active] 640510005582 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 640510005583 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 640510005584 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 640510005585 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnE; Provisional; Region: PRK15051 640510005586 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 640510005587 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 640510005588 inhibitor-cofactor binding pocket; inhibition site 640510005589 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510005590 catalytic residue [active] 640510005591 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 640510005592 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 640510005593 Ligand binding site; other site 640510005594 Putative Catalytic site; other site 640510005595 DXD motif; other site 640510005596 putative formyltransferase; Provisional; Region: PRK06988 640510005597 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 640510005598 active site 640510005599 substrate binding site [chemical binding]; other site 640510005600 cosubstrate binding site; other site 640510005601 catalytic site [active] 640510005602 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 640510005603 active site 640510005604 hexamer interface [polypeptide binding]; other site 640510005605 NAD-dependent epimerase/dehydratase family protein; Provisional; Region: PRK11908 640510005606 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 640510005607 NAD binding site [chemical binding]; other site 640510005608 substrate binding site [chemical binding]; other site 640510005609 active site 640510005610 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 640510005611 Catalytic domain of Escherichia coli 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD and other bacterial homologs; Region: CE4_ArnD; cd10939 640510005612 putative active site [active] 640510005613 putative catalytic site [active] 640510005614 putative Zn binding site [ion binding]; other site 640510005615 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 640510005616 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 640510005617 catalytic triad [active] 640510005618 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 640510005619 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 640510005620 putative active site [active] 640510005621 PhoH-like protein; Region: PhoH; pfam02562 640510005622 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 640510005623 NlpC/P60 family; Region: NLPC_P60; pfam00877 640510005624 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 640510005625 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 640510005626 putative ribose interaction site [chemical binding]; other site 640510005627 putative ADP binding site [chemical binding]; other site 640510005628 short chain dehydrogenase; Provisional; Region: PRK06125 640510005629 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510005630 NAD(P) binding site [chemical binding]; other site 640510005631 active site 640510005632 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 640510005633 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 640510005634 replicative DNA helicase; Provisional; Region: PRK07004 640510005635 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 640510005636 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 640510005637 Walker A motif; other site 640510005638 ATP binding site [chemical binding]; other site 640510005639 Walker B motif; other site 640510005640 DNA binding loops [nucleotide binding] 640510005641 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 640510005642 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 640510005643 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 640510005644 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 640510005645 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 640510005646 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 640510005647 Putative zinc-finger; Region: zf-HC2; pfam13490 640510005648 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 640510005649 RNA polymerase sigma factor; Provisional; Region: PRK11924 640510005650 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640510005651 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 640510005652 DNA binding residues [nucleotide binding] 640510005653 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510005654 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510005655 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 640510005656 putative effector binding pocket; other site 640510005657 dimerization interface [polypeptide binding]; other site 640510005658 glyoxylate carboligase; Provisional; Region: PRK11269 640510005659 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 640510005660 PYR/PP interface [polypeptide binding]; other site 640510005661 dimer interface [polypeptide binding]; other site 640510005662 TPP binding site [chemical binding]; other site 640510005663 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 640510005664 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 640510005665 TPP-binding site [chemical binding]; other site 640510005666 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 640510005667 tartronate semialdehyde reductase; Provisional; Region: PRK15059 640510005668 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 640510005669 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 640510005670 BON domain; Region: BON; pfam04972 640510005671 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 640510005672 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 640510005673 active site 640510005674 homodimer interface [polypeptide binding]; other site 640510005675 homotetramer interface [polypeptide binding]; other site 640510005676 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12683 640510005677 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510005678 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 640510005679 substrate binding site [chemical binding]; other site 640510005680 dimerization interface [polypeptide binding]; other site 640510005681 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 640510005682 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 640510005683 Walker A/P-loop; other site 640510005684 ATP binding site [chemical binding]; other site 640510005685 Q-loop/lid; other site 640510005686 ABC transporter signature motif; other site 640510005687 Walker B; other site 640510005688 D-loop; other site 640510005689 H-loop/switch region; other site 640510005690 TOBE-like domain; Region: TOBE_3; pfam12857 640510005691 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510005692 dimer interface [polypeptide binding]; other site 640510005693 conserved gate region; other site 640510005694 putative PBP binding loops; other site 640510005695 ABC-ATPase subunit interface; other site 640510005696 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 640510005697 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510005698 dimer interface [polypeptide binding]; other site 640510005699 conserved gate region; other site 640510005700 putative PBP binding loops; other site 640510005701 ABC-ATPase subunit interface; other site 640510005702 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 640510005703 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 640510005704 substrate binding pocket [chemical binding]; other site 640510005705 membrane-bound complex binding site; other site 640510005706 LexA repressor; Validated; Region: PRK00215 640510005707 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 640510005708 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 640510005709 Catalytic site [active] 640510005710 Protein of unknown function (DUF2939); Region: DUF2939; pfam11159 640510005711 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 640510005712 Ligand Binding Site [chemical binding]; other site 640510005713 nodulation ABC transporter NodI; Provisional; Region: PRK13537 640510005714 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 640510005715 Walker A/P-loop; other site 640510005716 ATP binding site [chemical binding]; other site 640510005717 Q-loop/lid; other site 640510005718 ABC transporter signature motif; other site 640510005719 Walker B; other site 640510005720 D-loop; other site 640510005721 H-loop/switch region; other site 640510005722 ABC-2 type transporter; Region: ABC2_membrane; cl17235 640510005723 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 640510005724 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 640510005725 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 640510005726 active site 640510005727 catalytic tetrad [active] 640510005728 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 640510005729 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 640510005730 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 640510005731 FMN binding site [chemical binding]; other site 640510005732 active site 640510005733 catalytic residues [active] 640510005734 substrate binding site [chemical binding]; other site 640510005735 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 640510005736 dimer interface [polypeptide binding]; other site 640510005737 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640510005738 ligand binding site [chemical binding]; other site 640510005739 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 640510005740 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 640510005741 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 640510005742 Walker A/P-loop; other site 640510005743 ATP binding site [chemical binding]; other site 640510005744 Q-loop/lid; other site 640510005745 ABC transporter signature motif; other site 640510005746 Walker B; other site 640510005747 D-loop; other site 640510005748 H-loop/switch region; other site 640510005749 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 640510005750 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510005751 dimer interface [polypeptide binding]; other site 640510005752 conserved gate region; other site 640510005753 putative PBP binding loops; other site 640510005754 ABC-ATPase subunit interface; other site 640510005755 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 640510005756 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 640510005757 active site 640510005758 dimer interface [polypeptide binding]; other site 640510005759 non-prolyl cis peptide bond; other site 640510005760 insertion regions; other site 640510005761 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 640510005762 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 640510005763 substrate binding site [chemical binding]; other site 640510005764 oxyanion hole (OAH) forming residues; other site 640510005765 trimer interface [polypeptide binding]; other site 640510005766 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 640510005767 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 640510005768 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 640510005769 hypothetical protein; Provisional; Region: PRK02487 640510005770 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 640510005771 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 640510005772 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 640510005773 haemagglutination activity domain; Region: Haemagg_act; pfam05860 640510005774 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 640510005775 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 640510005776 Ribosomal protein S27a; Region: Ribosomal_S27; cl00876 640510005777 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 640510005778 nudix motif; other site 640510005779 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 640510005780 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 640510005781 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 640510005782 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 640510005783 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 640510005784 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 640510005785 quinone interaction residues [chemical binding]; other site 640510005786 active site 640510005787 catalytic residues [active] 640510005788 FMN binding site [chemical binding]; other site 640510005789 substrate binding site [chemical binding]; other site 640510005790 cystine transporter subunit; Provisional; Region: PRK11260 640510005791 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 640510005792 substrate binding pocket [chemical binding]; other site 640510005793 membrane-bound complex binding site; other site 640510005794 hinge residues; other site 640510005795 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510005796 dimer interface [polypeptide binding]; other site 640510005797 conserved gate region; other site 640510005798 putative PBP binding loops; other site 640510005799 ABC-ATPase subunit interface; other site 640510005800 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 640510005801 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 640510005802 Transcriptional regulators [Transcription]; Region: FadR; COG2186 640510005803 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510005804 DNA-binding site [nucleotide binding]; DNA binding site 640510005805 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 640510005806 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 640510005807 Methyltransferase domain; Region: Methyltransf_31; pfam13847 640510005808 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 640510005809 S-adenosylmethionine binding site [chemical binding]; other site 640510005810 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 640510005811 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 640510005812 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 640510005813 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 640510005814 active site 640510005815 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 640510005816 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 640510005817 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640510005818 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 640510005819 putative ADP-binding pocket [chemical binding]; other site 640510005820 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 640510005821 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640510005822 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 640510005823 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640510005824 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 640510005825 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 640510005826 acyl carrier protein; Provisional; Region: PRK07081 640510005827 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640510005828 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 640510005829 active site 640510005830 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 640510005831 motif 1; other site 640510005832 dimer interface [polypeptide binding]; other site 640510005833 active site 640510005834 motif 2; other site 640510005835 motif 3; other site 640510005836 Domain of unknown function (DUF1839); Region: DUF1839; pfam08893 640510005837 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 640510005838 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 640510005839 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 640510005840 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cl00047 640510005841 ligand binding site [chemical binding]; other site 640510005842 flexible hinge region; other site 640510005843 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 640510005844 non-specific DNA interactions [nucleotide binding]; other site 640510005845 DNA binding site [nucleotide binding] 640510005846 sequence specific DNA binding site [nucleotide binding]; other site 640510005847 putative cAMP binding site [chemical binding]; other site 640510005848 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 640510005849 Bacterial sugar transferase; Region: Bac_transf; pfam02397 640510005850 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 640510005851 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 640510005852 active site 640510005853 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 640510005854 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 640510005855 tyrosine kinase; Provisional; Region: PRK11519 640510005856 Chain length determinant protein; Region: Wzz; pfam02706 640510005857 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 640510005858 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 640510005859 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 640510005860 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 640510005861 non-specific DNA binding site [nucleotide binding]; other site 640510005862 salt bridge; other site 640510005863 sequence-specific DNA binding site [nucleotide binding]; other site 640510005864 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640510005865 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 640510005866 putative ADP-binding pocket [chemical binding]; other site 640510005867 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 640510005868 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640510005869 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 640510005870 tetramer (dimer of dimers) interface [polypeptide binding]; other site 640510005871 active site 640510005872 dimer interface [polypeptide binding]; other site 640510005873 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 640510005874 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 640510005875 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 640510005876 ribonuclease R; Region: RNase_R; TIGR02063 640510005877 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 640510005878 RNB domain; Region: RNB; pfam00773 640510005879 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 640510005880 RNA binding site [nucleotide binding]; other site 640510005881 integrase; Provisional; Region: PRK09692 640510005882 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 640510005883 active site 640510005884 Int/Topo IB signature motif; other site 640510005885 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 640510005886 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 640510005887 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 640510005888 putative active site [active] 640510005889 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 640510005890 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 640510005891 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 640510005892 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 640510005893 active site 640510005894 NTP binding site [chemical binding]; other site 640510005895 metal binding triad [ion binding]; metal-binding site 640510005896 WYL domain; Region: WYL; pfam13280 640510005897 Divergent AAA domain; Region: AAA_4; pfam04326 640510005898 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; pfam05930 640510005899 Domain of unknown function (DUF4400); Region: DUF4400; pfam14348 640510005900 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 640510005901 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 640510005902 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 640510005903 Putative helicase; Region: TraI_2; pfam07514 640510005904 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 640510005905 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 640510005906 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 640510005907 N-acetyl-D-glucosamine binding site [chemical binding]; other site 640510005908 catalytic residue [active] 640510005909 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 640510005910 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 640510005911 Walker A motif; other site 640510005912 hexamer interface [polypeptide binding]; other site 640510005913 ATP binding site [chemical binding]; other site 640510005914 Walker B motif; other site 640510005915 Type IV secretory pathway, VirB4 components [Intracellular trafficking and secretion]; Region: VirB4; COG3451 640510005916 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 640510005917 VirB8 protein; Region: VirB8; pfam04335 640510005918 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 640510005919 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 640510005920 VirB7 interaction site; other site 640510005921 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 640510005922 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 640510005923 VirB7 interaction site; other site 640510005924 Abortive infection C-terminus; Region: Abi_C; pfam14355 640510005925 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4185 640510005926 ACT domain; Region: ACT_3; pfam10000 640510005927 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3602 640510005928 Family description; Region: ACT_7; pfam13840 640510005929 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 640510005930 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 640510005931 non-specific DNA binding site [nucleotide binding]; other site 640510005932 salt bridge; other site 640510005933 sequence-specific DNA binding site [nucleotide binding]; other site 640510005934 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 640510005935 Antirestriction protein; Region: Antirestrict; pfam03230 640510005936 Protein of unknown function (DUF3275); Region: DUF3275; pfam11679 640510005937 Methyltransferase domain; Region: Methyltransf_26; pfam13659 640510005938 DEAD-like helicases superfamily; Region: DEXDc; smart00487 640510005939 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 640510005940 ATP binding site [chemical binding]; other site 640510005941 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; cl17351 640510005942 Protein of unknown function (DUF3085); Region: DUF3085; pfam11284 640510005943 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 640510005944 active site 640510005945 catalytic triad [active] 640510005946 dimer interface [polypeptide binding]; other site 640510005947 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 640510005948 IHF dimer interface [polypeptide binding]; other site 640510005949 IHF - DNA interface [nucleotide binding]; other site 640510005950 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 640510005951 generic binding surface I; other site 640510005952 generic binding surface II; other site 640510005953 Domain of unknown function (DUF1845); Region: DUF1845; cl07481 640510005954 integrating conjugative element, PFGI_1 class, ParB family protein; Region: ICE_PFGI_1_parB; TIGR03764 640510005955 ParB-like nuclease domain; Region: ParB; smart00470 640510005956 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 640510005957 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 640510005958 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 640510005959 Magnesium ion binding site [ion binding]; other site 640510005960 Helix-turn-helix domain; Region: HTH_17; pfam12728 640510005961 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 640510005962 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 640510005963 non-specific DNA binding site [nucleotide binding]; other site 640510005964 salt bridge; other site 640510005965 sequence-specific DNA binding site [nucleotide binding]; other site 640510005966 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 640510005967 Fatty acid desaturase; Region: FA_desaturase; pfam00487 640510005968 putative di-iron ligands [ion binding]; other site 640510005969 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 640510005970 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 640510005971 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 640510005972 chromosome replication initiation inhibitor protein; Provisional; Region: PRK13348 640510005973 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510005974 The 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 640510005975 dimerization interface [polypeptide binding]; other site 640510005976 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 640510005977 FAD binding domain; Region: FAD_binding_4; pfam01565 640510005978 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 640510005979 Cysteine-rich domain; Region: CCG; pfam02754 640510005980 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 640510005981 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640510005982 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 640510005983 tetramerization interface [polypeptide binding]; other site 640510005984 NAD(P) binding site [chemical binding]; other site 640510005985 catalytic residues [active] 640510005986 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 640510005987 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 640510005988 putative FMN binding site [chemical binding]; other site 640510005989 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 640510005990 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510005991 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 640510005992 putative dimerization interface [polypeptide binding]; other site 640510005993 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 640510005994 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 640510005995 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 640510005996 active site 640510005997 non-prolyl cis peptide bond; other site 640510005998 metabolite-proton symporter; Region: 2A0106; TIGR00883 640510005999 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510006000 putative substrate translocation pore; other site 640510006001 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640510006002 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 640510006003 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 640510006004 Peptidase C26; Region: Peptidase_C26; pfam07722 640510006005 catalytic triad [active] 640510006006 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640510006007 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 640510006008 trimer interface [polypeptide binding]; other site 640510006009 eyelet of channel; other site 640510006010 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 640510006011 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 640510006012 putative metal binding site [ion binding]; other site 640510006013 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510006014 metabolite-proton symporter; Region: 2A0106; TIGR00883 640510006015 putative substrate translocation pore; other site 640510006016 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 640510006017 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 640510006018 Amidase; Region: Amidase; cl11426 640510006019 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 640510006020 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510006021 dimer interface [polypeptide binding]; other site 640510006022 conserved gate region; other site 640510006023 putative PBP binding loops; other site 640510006024 ABC-ATPase subunit interface; other site 640510006025 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 640510006026 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510006027 dimer interface [polypeptide binding]; other site 640510006028 conserved gate region; other site 640510006029 putative PBP binding loops; other site 640510006030 ABC-ATPase subunit interface; other site 640510006031 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 640510006032 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640510006033 Walker A/P-loop; other site 640510006034 ATP binding site [chemical binding]; other site 640510006035 Q-loop/lid; other site 640510006036 ABC transporter signature motif; other site 640510006037 Walker B; other site 640510006038 D-loop; other site 640510006039 H-loop/switch region; other site 640510006040 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640510006041 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640510006042 Walker A/P-loop; other site 640510006043 ATP binding site [chemical binding]; other site 640510006044 Q-loop/lid; other site 640510006045 ABC transporter signature motif; other site 640510006046 Walker B; other site 640510006047 D-loop; other site 640510006048 H-loop/switch region; other site 640510006049 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640510006050 Transposase domain (DUF772); Region: DUF772; pfam05598 640510006051 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 640510006052 DDE superfamily endonuclease; Region: DDE_4; cl17710 640510006053 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 640510006054 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 640510006055 The 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 640510006056 chromosome replication initiation inhibitor protein; Provisional; Region: PRK13348 640510006057 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510006058 The 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 640510006059 dimerization interface [polypeptide binding]; other site 640510006060 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 640510006061 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 640510006062 metal binding site [ion binding]; metal-binding site 640510006063 substrate binding pocket [chemical binding]; other site 640510006064 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 640510006065 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 640510006066 substrate binding pocket [chemical binding]; other site 640510006067 membrane-bound complex binding site; other site 640510006068 hinge residues; other site 640510006069 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 640510006070 homotrimer interaction site [polypeptide binding]; other site 640510006071 putative active site [active] 640510006072 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 640510006073 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 640510006074 catalytic loop [active] 640510006075 iron binding site [ion binding]; other site 640510006076 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640510006077 hydroxyglutarate oxidase; Provisional; Region: PRK11728 640510006078 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 640510006079 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510006080 The 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 640510006081 dimerization interface [polypeptide binding]; other site 640510006082 histidine ABC transporter substrate-binding protein HisJ; Provisional; Region: PRK15437 640510006083 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 640510006084 substrate binding pocket [chemical binding]; other site 640510006085 membrane-bound complex binding site; other site 640510006086 hinge residues; other site 640510006087 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640510006088 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510006089 dimer interface [polypeptide binding]; other site 640510006090 conserved gate region; other site 640510006091 putative PBP binding loops; other site 640510006092 ABC-ATPase subunit interface; other site 640510006093 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640510006094 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510006095 dimer interface [polypeptide binding]; other site 640510006096 conserved gate region; other site 640510006097 putative PBP binding loops; other site 640510006098 ABC-ATPase subunit interface; other site 640510006099 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 640510006100 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 640510006101 Walker A/P-loop; other site 640510006102 ATP binding site [chemical binding]; other site 640510006103 Q-loop/lid; other site 640510006104 ABC transporter signature motif; other site 640510006105 Walker B; other site 640510006106 D-loop; other site 640510006107 H-loop/switch region; other site 640510006108 diaminopropionate ammonia-lyase; Provisional; Region: PRK08206 640510006109 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640510006110 catalytic residue [active] 640510006111 allantoate amidohydrolase; Reviewed; Region: PRK12890 640510006112 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 640510006113 active site 640510006114 metal binding site [ion binding]; metal-binding site 640510006115 dimer interface [polypeptide binding]; other site 640510006116 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 640510006117 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 640510006118 metal binding site [ion binding]; metal-binding site 640510006119 putative dimer interface [polypeptide binding]; other site 640510006120 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 640510006121 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 640510006122 putative Zn2+ binding site [ion binding]; other site 640510006123 putative DNA binding site [nucleotide binding]; other site 640510006124 AsnC family; Region: AsnC_trans_reg; pfam01037 640510006125 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 640510006126 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 640510006127 dimerization interface [polypeptide binding]; other site 640510006128 ligand binding site [chemical binding]; other site 640510006129 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 640510006130 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510006131 The 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 640510006132 dimerization interface [polypeptide binding]; other site 640510006133 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510006134 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640510006135 putative substrate translocation pore; other site 640510006136 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 640510006137 Cupin domain; Region: Cupin_2; pfam07883 640510006138 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 640510006139 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510006140 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 640510006141 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 640510006142 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 640510006143 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510006144 homodimer interface [polypeptide binding]; other site 640510006145 catalytic residue [active] 640510006146 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 640510006147 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510006148 active site 640510006149 phosphorylation site [posttranslational modification] 640510006150 intermolecular recognition site; other site 640510006151 dimerization interface [polypeptide binding]; other site 640510006152 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 640510006153 DNA binding site [nucleotide binding] 640510006154 Cupin domain; Region: Cupin_2; cl17218 640510006155 Cupin domain; Region: Cupin_2; cl17218 640510006156 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 640510006157 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 640510006158 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640510006159 catalytic residue [active] 640510006160 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510006161 metabolite-proton symporter; Region: 2A0106; TIGR00883 640510006162 putative substrate translocation pore; other site 640510006163 hypothetical protein; Provisional; Region: PRK07079 640510006164 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_2; cd05679 640510006165 metal binding site [ion binding]; metal-binding site 640510006166 putative dimer interface [polypeptide binding]; other site 640510006167 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510006168 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510006169 The 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 640510006170 dimerization interface [polypeptide binding]; other site 640510006171 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640510006172 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 640510006173 trimer interface [polypeptide binding]; other site 640510006174 eyelet of channel; other site 640510006175 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 640510006176 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 640510006177 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 640510006178 dimerization interface [polypeptide binding]; other site 640510006179 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640510006180 dimer interface [polypeptide binding]; other site 640510006181 putative CheW interface [polypeptide binding]; other site 640510006182 Kynureninase [Amino acid transport and metabolism]; Region: COG3844 640510006183 kynureninase; Region: kynureninase; TIGR01814 640510006184 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640510006185 catalytic residue [active] 640510006186 aspartate carbamoyltransferase; Provisional; Region: PRK11891 640510006187 Helix-turn-helix domain; Region: HTH_18; pfam12833 640510006188 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 640510006189 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 640510006190 catalytic loop [active] 640510006191 iron binding site [ion binding]; other site 640510006192 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 640510006193 FAD binding pocket [chemical binding]; other site 640510006194 FAD binding motif [chemical binding]; other site 640510006195 phosphate binding motif [ion binding]; other site 640510006196 beta-alpha-beta structure motif; other site 640510006197 NAD binding pocket [chemical binding]; other site 640510006198 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 640510006199 inter-subunit interface; other site 640510006200 anthranilate 1,2-dioxygenase, large subunit; Region: anthran_1_2_A; TIGR03228 640510006201 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 640510006202 iron-sulfur cluster [ion binding]; other site 640510006203 [2Fe-2S] cluster binding site [ion binding]; other site 640510006204 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 640510006205 putative alpha subunit interface [polypeptide binding]; other site 640510006206 putative active site [active] 640510006207 putative substrate binding site [chemical binding]; other site 640510006208 Fe binding site [ion binding]; other site 640510006209 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 640510006210 glutamine ABC transporter periplasmic protein; Reviewed; Region: glnH; PRK09495 640510006211 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 640510006212 substrate binding pocket [chemical binding]; other site 640510006213 membrane-bound complex binding site; other site 640510006214 hinge residues; other site 640510006215 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640510006216 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510006217 dimer interface [polypeptide binding]; other site 640510006218 conserved gate region; other site 640510006219 putative PBP binding loops; other site 640510006220 ABC-ATPase subunit interface; other site 640510006221 glutamine ABC transporter ATP-binding protein; Reviewed; Region: glnQ; PRK09493 640510006222 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 640510006223 Walker A/P-loop; other site 640510006224 ATP binding site [chemical binding]; other site 640510006225 Q-loop/lid; other site 640510006226 ABC transporter signature motif; other site 640510006227 Walker B; other site 640510006228 D-loop; other site 640510006229 H-loop/switch region; other site 640510006230 Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase; Region: AAT; pfam03417 640510006231 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 640510006232 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 640510006233 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 640510006234 putative active site [active] 640510006235 RibD C-terminal domain; Region: RibD_C; cl17279 640510006236 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 640510006237 Transcriptional regulators [Transcription]; Region: FadR; COG2186 640510006238 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510006239 DNA-binding site [nucleotide binding]; DNA binding site 640510006240 FCD domain; Region: FCD; pfam07729 640510006241 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 640510006242 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 640510006243 Walker A/P-loop; other site 640510006244 ATP binding site [chemical binding]; other site 640510006245 Q-loop/lid; other site 640510006246 ABC transporter signature motif; other site 640510006247 Walker B; other site 640510006248 D-loop; other site 640510006249 H-loop/switch region; other site 640510006250 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 640510006251 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640510006252 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 640510006253 TM-ABC transporter signature motif; other site 640510006254 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 640510006255 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640510006256 putative ligand binding site [chemical binding]; other site 640510006257 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 640510006258 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 640510006259 putative NAD(P) binding site [chemical binding]; other site 640510006260 catalytic Zn binding site [ion binding]; other site 640510006261 structural Zn binding site [ion binding]; other site 640510006262 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 640510006263 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 640510006264 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 640510006265 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510006266 D-galactonate transporter; Region: 2A0114; TIGR00893 640510006267 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510006268 ectoine utilization protein EutE; Region: ectoine_eutE; TIGR02994 640510006269 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_2; cd06252 640510006270 putative active site [active] 640510006271 Zn binding site [ion binding]; other site 640510006272 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 640510006273 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510006274 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 640510006275 dimerization interface [polypeptide binding]; other site 640510006276 substrate binding pocket [chemical binding]; other site 640510006277 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 640510006278 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 640510006279 catalytic site [active] 640510006280 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 640510006281 PAS domain; Region: PAS_9; pfam13426 640510006282 putative active site [active] 640510006283 heme pocket [chemical binding]; other site 640510006284 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640510006285 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 640510006286 dimer interface [polypeptide binding]; other site 640510006287 phosphorylation site [posttranslational modification] 640510006288 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510006289 ATP binding site [chemical binding]; other site 640510006290 Mg2+ binding site [ion binding]; other site 640510006291 G-X-G motif; other site 640510006292 Response regulator receiver domain; Region: Response_reg; pfam00072 640510006293 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510006294 active site 640510006295 phosphorylation site [posttranslational modification] 640510006296 intermolecular recognition site; other site 640510006297 dimerization interface [polypeptide binding]; other site 640510006298 Malonate transporter MadL subunit; Region: MadL; cl04273 640510006299 malonate transporter, MadM subunit; Region: malonate_madM; TIGR00808 640510006300 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510006301 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510006302 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 640510006303 putative dimerization interface [polypeptide binding]; other site 640510006304 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 640510006305 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 640510006306 [4Fe-4S] binding site [ion binding]; other site 640510006307 molybdopterin cofactor binding site; other site 640510006308 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 640510006309 molybdopterin cofactor binding site; other site 640510006310 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 640510006311 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 640510006312 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 640510006313 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640510006314 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 640510006315 nitrite reductase subunit NirD; Provisional; Region: PRK14989 640510006316 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640510006317 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 640510006318 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 640510006319 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 640510006320 nitrite extrusion protein (nitrite facilitator); Region: 2A0108; TIGR00886 640510006321 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 640510006322 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 640510006323 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510006324 active site 640510006325 phosphorylation site [posttranslational modification] 640510006326 intermolecular recognition site; other site 640510006327 dimerization interface [polypeptide binding]; other site 640510006328 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 640510006329 Walker A motif; other site 640510006330 ATP binding site [chemical binding]; other site 640510006331 Walker B motif; other site 640510006332 arginine finger; other site 640510006333 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 640510006334 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 640510006335 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 640510006336 dimer interface [polypeptide binding]; other site 640510006337 phosphorylation site [posttranslational modification] 640510006338 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510006339 ATP binding site [chemical binding]; other site 640510006340 Mg2+ binding site [ion binding]; other site 640510006341 G-X-G motif; other site 640510006342 2-hydroxycarboxylate transporter family; Region: 2HCT; pfam03390 640510006343 short chain dehydrogenase; Provisional; Region: PRK06180 640510006344 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 640510006345 NADP binding site [chemical binding]; other site 640510006346 active site 640510006347 steroid binding site; other site 640510006348 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 640510006349 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640510006350 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 640510006351 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 640510006352 substrate binding pocket [chemical binding]; other site 640510006353 membrane-bound complex binding site; other site 640510006354 hinge residues; other site 640510006355 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 640510006356 dimer interface [polypeptide binding]; other site 640510006357 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 640510006358 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 640510006359 Na binding site [ion binding]; other site 640510006360 Protein of unknown function, DUF485; Region: DUF485; pfam04341 640510006361 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 640510006362 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640510006363 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640510006364 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 640510006365 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640510006366 Bacterial transcriptional regulator; Region: IclR; pfam01614 640510006367 crotonobetaine/carnitine-CoA ligase; Provisional; Region: PRK06155 640510006368 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_DitJ_like; cd05934 640510006369 acyl-activating enzyme (AAE) consensus motif; other site 640510006370 putative AMP binding site [chemical binding]; other site 640510006371 putative active site [active] 640510006372 putative CoA binding site [chemical binding]; other site 640510006373 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 640510006374 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510006375 dimer interface [polypeptide binding]; other site 640510006376 conserved gate region; other site 640510006377 putative PBP binding loops; other site 640510006378 ABC-ATPase subunit interface; other site 640510006379 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 640510006380 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510006381 dimer interface [polypeptide binding]; other site 640510006382 conserved gate region; other site 640510006383 putative PBP binding loops; other site 640510006384 ABC-ATPase subunit interface; other site 640510006385 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 640510006386 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640510006387 Walker A/P-loop; other site 640510006388 ATP binding site [chemical binding]; other site 640510006389 Q-loop/lid; other site 640510006390 ABC transporter signature motif; other site 640510006391 Walker B; other site 640510006392 D-loop; other site 640510006393 H-loop/switch region; other site 640510006394 TOBE domain; Region: TOBE_2; pfam08402 640510006395 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 640510006396 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 640510006397 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 640510006398 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 640510006399 substrate binding site [chemical binding]; other site 640510006400 oxyanion hole (OAH) forming residues; other site 640510006401 trimer interface [polypeptide binding]; other site 640510006402 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 640510006403 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 640510006404 putative metal binding site; other site 640510006405 benzoate transport; Region: 2A0115; TIGR00895 640510006406 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510006407 putative substrate translocation pore; other site 640510006408 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510006409 Protein of unknown function (DUF3303); Region: DUF3303; pfam11746 640510006410 GMP synthase; Reviewed; Region: guaA; PRK00074 640510006411 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 640510006412 AMP/PPi binding site [chemical binding]; other site 640510006413 candidate oxyanion hole; other site 640510006414 catalytic triad [active] 640510006415 potential glutamine specificity residues [chemical binding]; other site 640510006416 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 640510006417 ATP Binding subdomain [chemical binding]; other site 640510006418 Ligand Binding sites [chemical binding]; other site 640510006419 Dimerization subdomain; other site 640510006420 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 640510006421 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 640510006422 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 640510006423 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 640510006424 active site 640510006425 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2914 640510006426 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 640510006427 putative coenzyme Q binding site [chemical binding]; other site 640510006428 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 640510006429 SmpB-tmRNA interface; other site 640510006430 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 640510006431 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 640510006432 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 640510006433 phosphoenolpyruvate synthase; Validated; Region: PRK06464 640510006434 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 640510006435 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 640510006436 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 640510006437 PEP synthetase regulatory protein; Provisional; Region: PRK05339 640510006438 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 640510006439 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 640510006440 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 640510006441 RNA/DNA hybrid binding site [nucleotide binding]; other site 640510006442 active site 640510006443 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 640510006444 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 640510006445 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 640510006446 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 640510006447 active site 640510006448 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 640510006449 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 640510006450 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 640510006451 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 640510006452 trimer interface [polypeptide binding]; other site 640510006453 active site 640510006454 UDP-GlcNAc binding site [chemical binding]; other site 640510006455 lipid binding site [chemical binding]; lipid-binding site 640510006456 periplasmic chaperone; Provisional; Region: PRK10780 640510006457 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 640510006458 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 640510006459 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 640510006460 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 640510006461 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 640510006462 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 640510006463 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 640510006464 Surface antigen; Region: Bac_surface_Ag; pfam01103 640510006465 zinc metallopeptidase RseP; Provisional; Region: PRK10779 640510006466 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 640510006467 active site 640510006468 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 640510006469 protein binding site [polypeptide binding]; other site 640510006470 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 640510006471 putative substrate binding region [chemical binding]; other site 640510006472 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 640510006473 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 640510006474 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 640510006475 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 640510006476 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 640510006477 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 640510006478 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 640510006479 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 640510006480 catalytic residue [active] 640510006481 putative FPP diphosphate binding site; other site 640510006482 putative FPP binding hydrophobic cleft; other site 640510006483 dimer interface [polypeptide binding]; other site 640510006484 putative IPP diphosphate binding site; other site 640510006485 ribosome recycling factor; Reviewed; Region: frr; PRK00083 640510006486 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 640510006487 hinge region; other site 640510006488 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 640510006489 putative nucleotide binding site [chemical binding]; other site 640510006490 uridine monophosphate binding site [chemical binding]; other site 640510006491 homohexameric interface [polypeptide binding]; other site 640510006492 elongation factor Ts; Provisional; Region: tsf; PRK09377 640510006493 UBA/TS-N domain; Region: UBA; pfam00627 640510006494 Elongation factor TS; Region: EF_TS; pfam00889 640510006495 Elongation factor TS; Region: EF_TS; pfam00889 640510006496 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 640510006497 rRNA interaction site [nucleotide binding]; other site 640510006498 S8 interaction site; other site 640510006499 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 640510006500 active site 640510006501 PII uridylyl-transferase; Provisional; Region: PRK03059 640510006502 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 640510006503 metal binding triad; other site 640510006504 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 640510006505 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 640510006506 Zn2+ binding site [ion binding]; other site 640510006507 Mg2+ binding site [ion binding]; other site 640510006508 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 640510006509 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 640510006510 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 640510006511 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 640510006512 RNA binding surface [nucleotide binding]; other site 640510006513 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 640510006514 active site 640510006515 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 640510006516 active site 640510006517 catalytic residues [active] 640510006518 metal binding site [ion binding]; metal-binding site 640510006519 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 640510006520 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 640510006521 nucleotide binding pocket [chemical binding]; other site 640510006522 K-X-D-G motif; other site 640510006523 catalytic site [active] 640510006524 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 640510006525 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 640510006526 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 640510006527 Dimer interface [polypeptide binding]; other site 640510006528 BRCT sequence motif; other site 640510006529 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 640510006530 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 640510006531 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 640510006532 Walker A/P-loop; other site 640510006533 ATP binding site [chemical binding]; other site 640510006534 Q-loop/lid; other site 640510006535 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 640510006536 Q-loop/lid; other site 640510006537 ABC transporter signature motif; other site 640510006538 Walker B; other site 640510006539 D-loop; other site 640510006540 H-loop/switch region; other site 640510006541 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 640510006542 EamA-like transporter family; Region: EamA; pfam00892 640510006543 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 640510006544 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 640510006545 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510006546 homodimer interface [polypeptide binding]; other site 640510006547 catalytic residue [active] 640510006548 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 640510006549 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 640510006550 trimer interface [polypeptide binding]; other site 640510006551 active site 640510006552 substrate binding site [chemical binding]; other site 640510006553 CoA binding site [chemical binding]; other site 640510006554 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 640510006555 ArsC family; Region: ArsC; pfam03960 640510006556 putative catalytic residues [active] 640510006557 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 640510006558 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 640510006559 metal binding site [ion binding]; metal-binding site 640510006560 dimer interface [polypeptide binding]; other site 640510006561 HemK family putative methylases; Region: hemK_fam; TIGR00536 640510006562 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 640510006563 S-adenosylmethionine binding site [chemical binding]; other site 640510006564 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 640510006565 Putative catalytic domain, repeat 1, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_1; cd09155 640510006566 putative active site [active] 640510006567 catalytic site [active] 640510006568 Putative catalytic domain, repeat 2, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_2; cd09161 640510006569 putative active site [active] 640510006570 catalytic site [active] 640510006571 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 640510006572 catalytic residues [active] 640510006573 dimer interface [polypeptide binding]; other site 640510006574 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 640510006575 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 640510006576 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 640510006577 ABC transporter; Region: ABC_tran_2; pfam12848 640510006578 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 640510006579 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 640510006580 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640510006581 Protein of unknown function (DUF2866); Region: DUF2866; pfam11065 640510006582 DNA repair protein RadA; Provisional; Region: PRK11823 640510006583 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 640510006584 Walker A motif/ATP binding site; other site 640510006585 ATP binding site [chemical binding]; other site 640510006586 Walker B motif; other site 640510006587 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 640510006588 alanine racemase; Reviewed; Region: alr; PRK00053 640510006589 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 640510006590 active site 640510006591 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 640510006592 substrate binding site [chemical binding]; other site 640510006593 catalytic residues [active] 640510006594 dimer interface [polypeptide binding]; other site 640510006595 lysophospholipid transporter LplT; Provisional; Region: PRK11195 640510006596 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 640510006597 dimer interface [polypeptide binding]; other site 640510006598 substrate binding site [chemical binding]; other site 640510006599 ATP binding site [chemical binding]; other site 640510006600 Domain of unknown function (DUF1853); Region: DUF1853; pfam08907 640510006601 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 640510006602 Fe-S cluster binding site [ion binding]; other site 640510006603 active site 640510006604 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 640510006605 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 640510006606 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 640510006607 Glycoprotease family; Region: Peptidase_M22; pfam00814 640510006608 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 640510006609 acyl-CoA binding pocket [chemical binding]; other site 640510006610 CoA binding site [chemical binding]; other site 640510006611 helicase 45; Provisional; Region: PTZ00424 640510006612 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 640510006613 ATP binding site [chemical binding]; other site 640510006614 Mg++ binding site [ion binding]; other site 640510006615 motif III; other site 640510006616 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 640510006617 nucleotide binding region [chemical binding]; other site 640510006618 ATP-binding site [chemical binding]; other site 640510006619 isocitrate lyase; Provisional; Region: PRK15063 640510006620 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 640510006621 tetramer interface [polypeptide binding]; other site 640510006622 active site 640510006623 Mg2+/Mn2+ binding site [ion binding]; other site 640510006624 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 640510006625 Ligand Binding Site [chemical binding]; other site 640510006626 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510006627 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510006628 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 640510006629 putative effector binding pocket; other site 640510006630 dimerization interface [polypeptide binding]; other site 640510006631 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 640510006632 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 640510006633 motif II; other site 640510006634 malate synthase A; Region: malate_syn_A; TIGR01344 640510006635 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 640510006636 active site 640510006637 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 640510006638 putative active site pocket [active] 640510006639 dimerization interface [polypeptide binding]; other site 640510006640 putative catalytic residue [active] 640510006641 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 640510006642 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 640510006643 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510006644 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510006645 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640510006646 Coenzyme A binding pocket [chemical binding]; other site 640510006647 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 640510006648 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 640510006649 active site 640510006650 HIGH motif; other site 640510006651 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 640510006652 active site 640510006653 KMSKS motif; other site 640510006654 hypothetical protein; Provisional; Region: PRK10279 640510006655 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 640510006656 nucleophile elbow; other site 640510006657 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 640510006658 NlpC/P60 family; Region: NLPC_P60; pfam00877 640510006659 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 640510006660 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640510006661 Walker A/P-loop; other site 640510006662 ATP binding site [chemical binding]; other site 640510006663 Q-loop/lid; other site 640510006664 ABC transporter signature motif; other site 640510006665 Walker B; other site 640510006666 D-loop; other site 640510006667 H-loop/switch region; other site 640510006668 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 640510006669 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640510006670 Walker A/P-loop; other site 640510006671 ATP binding site [chemical binding]; other site 640510006672 Q-loop/lid; other site 640510006673 ABC transporter signature motif; other site 640510006674 Walker B; other site 640510006675 D-loop; other site 640510006676 H-loop/switch region; other site 640510006677 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640510006678 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 640510006679 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510006680 dimer interface [polypeptide binding]; other site 640510006681 conserved gate region; other site 640510006682 putative PBP binding loops; other site 640510006683 ABC-ATPase subunit interface; other site 640510006684 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 640510006685 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510006686 dimer interface [polypeptide binding]; other site 640510006687 conserved gate region; other site 640510006688 putative PBP binding loops; other site 640510006689 ABC-ATPase subunit interface; other site 640510006690 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 640510006691 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 640510006692 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510006693 D-galactonate transporter; Region: 2A0114; TIGR00893 640510006694 putative substrate translocation pore; other site 640510006695 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 640510006696 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 640510006697 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 640510006698 putative active site [active] 640510006699 putative catalytic site [active] 640510006700 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640510006701 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 640510006702 trimer interface [polypeptide binding]; other site 640510006703 eyelet of channel; other site 640510006704 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 640510006705 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510006706 DNA-binding site [nucleotide binding]; DNA binding site 640510006707 UTRA domain; Region: UTRA; pfam07702 640510006708 putative oxidoreductase; Provisional; Region: PRK08275 640510006709 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 640510006710 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 640510006711 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 640510006712 HEAT repeats; Region: HEAT_2; pfam13646 640510006713 HEAT repeats; Region: HEAT_2; pfam13646 640510006714 HEAT repeats; Region: HEAT_2; pfam13646 640510006715 Protein of unknown function (DUF971); Region: DUF971; pfam06155 640510006716 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 640510006717 Methyltransferase domain; Region: Methyltransf_23; pfam13489 640510006718 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 640510006719 S-adenosylmethionine binding site [chemical binding]; other site 640510006720 aspartate kinase; Reviewed; Region: PRK06635 640510006721 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 640510006722 putative nucleotide binding site [chemical binding]; other site 640510006723 putative catalytic residues [active] 640510006724 putative Mg ion binding site [ion binding]; other site 640510006725 putative aspartate binding site [chemical binding]; other site 640510006726 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 640510006727 putative allosteric regulatory site; other site 640510006728 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 640510006729 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 640510006730 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 640510006731 Ligand Binding Site [chemical binding]; other site 640510006732 TilS substrate binding domain; Region: TilS; pfam09179 640510006733 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 640510006734 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 640510006735 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 640510006736 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 640510006737 endonuclease III; Region: ENDO3c; smart00478 640510006738 minor groove reading motif; other site 640510006739 helix-hairpin-helix signature motif; other site 640510006740 substrate binding pocket [chemical binding]; other site 640510006741 active site 640510006742 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 640510006743 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 640510006744 active site 640510006745 HIGH motif; other site 640510006746 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 640510006747 KMSKS motif; other site 640510006748 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 640510006749 tRNA binding surface [nucleotide binding]; other site 640510006750 anticodon binding site; other site 640510006751 TPR repeat; Region: TPR_11; pfam13414 640510006752 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 640510006753 binding surface 640510006754 TPR motif; other site 640510006755 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 640510006756 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 640510006757 substrate binding site [chemical binding]; other site 640510006758 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 640510006759 substrate binding site [chemical binding]; other site 640510006760 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 640510006761 putative active site [active] 640510006762 putative metal binding site [ion binding]; other site 640510006763 serine O-acetyltransferase; Region: cysE; TIGR01172 640510006764 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 640510006765 trimer interface [polypeptide binding]; other site 640510006766 active site 640510006767 substrate binding site [chemical binding]; other site 640510006768 CoA binding site [chemical binding]; other site 640510006769 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 640510006770 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 640510006771 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 640510006772 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 640510006773 active site 640510006774 dimerization interface [polypeptide binding]; other site 640510006775 lysophospholipid transporter LplT; Provisional; Region: PRK11195 640510006776 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 640510006777 MutS domain I; Region: MutS_I; pfam01624 640510006778 MutS domain II; Region: MutS_II; pfam05188 640510006779 MutS domain III; Region: MutS_III; pfam05192 640510006780 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 640510006781 Walker A/P-loop; other site 640510006782 ATP binding site [chemical binding]; other site 640510006783 Q-loop/lid; other site 640510006784 ABC transporter signature motif; other site 640510006785 Walker B; other site 640510006786 D-loop; other site 640510006787 H-loop/switch region; other site 640510006788 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 640510006789 Uncharacterized conserved protein [Function unknown]; Region: COG2850 640510006790 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 640510006791 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 640510006792 DEAD_2; Region: DEAD_2; pfam06733 640510006793 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 640510006794 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 640510006795 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 640510006796 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 640510006797 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 640510006798 RNA binding site [nucleotide binding]; other site 640510006799 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 640510006800 potassium uptake protein; Region: kup; TIGR00794 640510006801 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 640510006802 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 640510006803 active site 640510006804 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 640510006805 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 640510006806 GDP-binding site [chemical binding]; other site 640510006807 ACT binding site; other site 640510006808 IMP binding site; other site 640510006809 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 640510006810 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 640510006811 dimer interface [polypeptide binding]; other site 640510006812 motif 1; other site 640510006813 active site 640510006814 motif 2; other site 640510006815 motif 3; other site 640510006816 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; pfam09838 640510006817 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 640510006818 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 640510006819 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 640510006820 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 640510006821 HflK protein; Region: hflK; TIGR01933 640510006822 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 640510006823 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 640510006824 HflX GTPase family; Region: HflX; cd01878 640510006825 G1 box; other site 640510006826 GTP/Mg2+ binding site [chemical binding]; other site 640510006827 Switch I region; other site 640510006828 G2 box; other site 640510006829 G3 box; other site 640510006830 Switch II region; other site 640510006831 G4 box; other site 640510006832 G5 box; other site 640510006833 bacterial Hfq-like; Region: Hfq; cd01716 640510006834 hexamer interface [polypeptide binding]; other site 640510006835 Sm1 motif; other site 640510006836 RNA binding site [nucleotide binding]; other site 640510006837 Sm2 motif; other site 640510006838 GTP-binding protein Der; Reviewed; Region: PRK00093 640510006839 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 640510006840 G1 box; other site 640510006841 GTP/Mg2+ binding site [chemical binding]; other site 640510006842 Switch I region; other site 640510006843 G2 box; other site 640510006844 Switch II region; other site 640510006845 G3 box; other site 640510006846 G4 box; other site 640510006847 G5 box; other site 640510006848 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 640510006849 G1 box; other site 640510006850 GTP/Mg2+ binding site [chemical binding]; other site 640510006851 Switch I region; other site 640510006852 G2 box; other site 640510006853 G3 box; other site 640510006854 Switch II region; other site 640510006855 G4 box; other site 640510006856 G5 box; other site 640510006857 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 640510006858 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 640510006859 Trp docking motif [polypeptide binding]; other site 640510006860 active site 640510006861 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 640510006862 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 640510006863 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 640510006864 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 640510006865 dimer interface [polypeptide binding]; other site 640510006866 motif 1; other site 640510006867 active site 640510006868 motif 2; other site 640510006869 motif 3; other site 640510006870 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 640510006871 anticodon binding site; other site 640510006872 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 640510006873 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 640510006874 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 640510006875 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 640510006876 non-specific DNA binding site [nucleotide binding]; other site 640510006877 salt bridge; other site 640510006878 sequence-specific DNA binding site [nucleotide binding]; other site 640510006879 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 640510006880 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 640510006881 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 640510006882 FeS/SAM binding site; other site 640510006883 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 640510006884 active site 640510006885 multimer interface [polypeptide binding]; other site 640510006886 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 640510006887 YccA-like proteins; Region: YccA_like; cd10433 640510006888 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 640510006889 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 640510006890 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 640510006891 dihydrodipicolinate synthase; Region: dapA; TIGR00674 640510006892 dimer interface [polypeptide binding]; other site 640510006893 active site 640510006894 catalytic residue [active] 640510006895 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 640510006896 S-adenosylmethionine binding site [chemical binding]; other site 640510006897 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 640510006898 active site 640510006899 HIGH motif; other site 640510006900 dimer interface [polypeptide binding]; other site 640510006901 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 640510006902 active site 640510006903 KMSKS motif; other site 640510006904 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 640510006905 Peptidase family M50; Region: Peptidase_M50; pfam02163 640510006906 active site 640510006907 putative substrate binding region [chemical binding]; other site 640510006908 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 640510006909 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 640510006910 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 640510006911 active site 640510006912 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 640510006913 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 640510006914 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 640510006915 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 640510006916 dinuclear metal binding motif [ion binding]; other site 640510006917 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 640510006918 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 640510006919 trimer interface [polypeptide binding]; other site 640510006920 putative metal binding site [ion binding]; other site 640510006921 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 640510006922 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 640510006923 dimerization interface [polypeptide binding]; other site 640510006924 domain crossover interface; other site 640510006925 redox-dependent activation switch; other site 640510006926 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 640510006927 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 640510006928 enolase; Provisional; Region: eno; PRK00077 640510006929 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 640510006930 dimer interface [polypeptide binding]; other site 640510006931 metal binding site [ion binding]; metal-binding site 640510006932 substrate binding pocket [chemical binding]; other site 640510006933 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 640510006934 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 640510006935 CTP synthetase; Validated; Region: pyrG; PRK05380 640510006936 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 640510006937 Catalytic site [active] 640510006938 active site 640510006939 UTP binding site [chemical binding]; other site 640510006940 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 640510006941 active site 640510006942 putative oxyanion hole; other site 640510006943 catalytic triad [active] 640510006944 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 640510006945 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 640510006946 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 640510006947 Competence protein; Region: Competence; pfam03772 640510006948 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 640510006949 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 640510006950 active site 640510006951 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 640510006952 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 640510006953 Walker A/P-loop; other site 640510006954 ATP binding site [chemical binding]; other site 640510006955 Q-loop/lid; other site 640510006956 ABC transporter signature motif; other site 640510006957 Walker B; other site 640510006958 D-loop; other site 640510006959 H-loop/switch region; other site 640510006960 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 640510006961 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 640510006962 FtsX-like permease family; Region: FtsX; pfam02687 640510006963 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4255 640510006964 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 640510006965 DHH family; Region: DHH; pfam01368 640510006966 DHHA1 domain; Region: DHHA1; pfam02272 640510006967 peptide chain release factor 2; Validated; Region: prfB; PRK00578 640510006968 This domain is found in peptide chain release factors; Region: PCRF; smart00937 640510006969 RF-1 domain; Region: RF-1; pfam00472 640510006970 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 640510006971 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 640510006972 dimer interface [polypeptide binding]; other site 640510006973 putative anticodon binding site; other site 640510006974 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 640510006975 motif 1; other site 640510006976 active site 640510006977 motif 2; other site 640510006978 motif 3; other site 640510006979 Iron-sulphur cluster assembly; Region: Fe-S_assembly; pfam04384 640510006980 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 640510006981 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 640510006982 catalytic loop [active] 640510006983 iron binding site [ion binding]; other site 640510006984 chaperone protein HscA; Provisional; Region: hscA; PRK05183 640510006985 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 640510006986 nucleotide binding site [chemical binding]; other site 640510006987 putative NEF/HSP70 interaction site [polypeptide binding]; other site 640510006988 SBD interface [polypeptide binding]; other site 640510006989 co-chaperone HscB; Provisional; Region: hscB; PRK03578 640510006990 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 640510006991 HSP70 interaction site [polypeptide binding]; other site 640510006992 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 640510006993 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 640510006994 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 640510006995 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 640510006996 trimerization site [polypeptide binding]; other site 640510006997 active site 640510006998 cysteine desulfurase; Provisional; Region: PRK14012 640510006999 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 640510007000 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640510007001 catalytic residue [active] 640510007002 Predicted transcriptional regulator [Transcription]; Region: COG1959 640510007003 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 640510007004 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 640510007005 Low molecular weight phosphatase family; Region: LMWPc; cd00115 640510007006 active site 640510007007 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 640510007008 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 640510007009 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 640510007010 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 640510007011 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 640510007012 Cysteine-rich domain; Region: CCG; pfam02754 640510007013 Cysteine-rich domain; Region: CCG; pfam02754 640510007014 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 640510007015 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640510007016 Bacterial transcriptional regulator; Region: IclR; pfam01614 640510007017 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 640510007018 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 640510007019 Phasin protein; Region: Phasin_2; pfam09361 640510007020 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 640510007021 E3 interaction surface; other site 640510007022 lipoyl attachment site [posttranslational modification]; other site 640510007023 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 640510007024 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640510007025 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 640510007026 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 640510007027 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 640510007028 E3 interaction surface; other site 640510007029 lipoyl attachment site [posttranslational modification]; other site 640510007030 e3 binding domain; Region: E3_binding; pfam02817 640510007031 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 640510007032 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 640510007033 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 640510007034 dimer interface [polypeptide binding]; other site 640510007035 TPP-binding site [chemical binding]; other site 640510007036 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 640510007037 PAS domain S-box; Region: sensory_box; TIGR00229 640510007038 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 640510007039 putative active site [active] 640510007040 heme pocket [chemical binding]; other site 640510007041 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 640510007042 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 640510007043 dimer interface [polypeptide binding]; other site 640510007044 phosphorylation site [posttranslational modification] 640510007045 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510007046 ATP binding site [chemical binding]; other site 640510007047 Mg2+ binding site [ion binding]; other site 640510007048 G-X-G motif; other site 640510007049 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 640510007050 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510007051 active site 640510007052 phosphorylation site [posttranslational modification] 640510007053 intermolecular recognition site; other site 640510007054 dimerization interface [polypeptide binding]; other site 640510007055 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 640510007056 DNA binding residues [nucleotide binding] 640510007057 dimerization interface [polypeptide binding]; other site 640510007058 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14189 640510007059 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 640510007060 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 640510007061 homodimer interface [polypeptide binding]; other site 640510007062 NADP binding site [chemical binding]; other site 640510007063 substrate binding site [chemical binding]; other site 640510007064 Transposase; Region: DEDD_Tnp_IS110; pfam01548 640510007065 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 640510007066 Acyltransferase family; Region: Acyl_transf_3; pfam01757 640510007067 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 640510007068 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 640510007069 active site 640510007070 Zn binding site [ion binding]; other site 640510007071 cytosine deaminase; Validated; Region: PRK07572 640510007072 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 640510007073 active site 640510007074 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 640510007075 aspartate racemase; Region: asp_race; TIGR00035 640510007076 Domain of unknown function (DUF4285); Region: DUF4285; pfam14113 640510007077 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 640510007078 putative catalytic site [active] 640510007079 putative phosphate binding site [ion binding]; other site 640510007080 active site 640510007081 metal binding site A [ion binding]; metal-binding site 640510007082 DNA binding site [nucleotide binding] 640510007083 putative AP binding site [nucleotide binding]; other site 640510007084 putative metal binding site B [ion binding]; other site 640510007085 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 640510007086 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 640510007087 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 640510007088 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510007089 active site 640510007090 phosphorylation site [posttranslational modification] 640510007091 intermolecular recognition site; other site 640510007092 dimerization interface [polypeptide binding]; other site 640510007093 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 640510007094 Walker A motif; other site 640510007095 ATP binding site [chemical binding]; other site 640510007096 Walker B motif; other site 640510007097 arginine finger; other site 640510007098 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 640510007099 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 640510007100 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 640510007101 dimer interface [polypeptide binding]; other site 640510007102 phosphorylation site [posttranslational modification] 640510007103 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510007104 ATP binding site [chemical binding]; other site 640510007105 Mg2+ binding site [ion binding]; other site 640510007106 G-X-G motif; other site 640510007107 glutamine synthetase; Provisional; Region: glnA; PRK09469 640510007108 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 640510007109 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 640510007110 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 640510007111 active site residue [active] 640510007112 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 640510007113 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 640510007114 putative MPT binding site; other site 640510007115 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 640510007116 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 640510007117 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 640510007118 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 640510007119 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 640510007120 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 640510007121 trimer interface [polypeptide binding]; other site 640510007122 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 640510007123 trimer interface [polypeptide binding]; other site 640510007124 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 640510007125 trimer interface [polypeptide binding]; other site 640510007126 Haemagglutinin; Region: HIM; pfam05662 640510007127 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 640510007128 trimer interface [polypeptide binding]; other site 640510007129 Haemagglutinin; Region: HIM; pfam05662 640510007130 YadA-like C-terminal region; Region: YadA; pfam03895 640510007131 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 640510007132 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 640510007133 ATP binding site [chemical binding]; other site 640510007134 putative Mg++ binding site [ion binding]; other site 640510007135 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 640510007136 nucleotide binding region [chemical binding]; other site 640510007137 ATP-binding site [chemical binding]; other site 640510007138 Helicase associated domain (HA2); Region: HA2; pfam04408 640510007139 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 640510007140 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 640510007141 N-acetylglutamate synthase; Validated; Region: PRK05279 640510007142 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 640510007143 putative feedback inhibition sensing region; other site 640510007144 putative nucleotide binding site [chemical binding]; other site 640510007145 putative substrate binding site [chemical binding]; other site 640510007146 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640510007147 Coenzyme A binding pocket [chemical binding]; other site 640510007148 oxidative damage protection protein; Provisional; Region: PRK05408 640510007149 proline/glycine betaine transporter; Provisional; Region: PRK10642 640510007150 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510007151 putative substrate translocation pore; other site 640510007152 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 640510007153 active site 640510007154 metal binding site [ion binding]; metal-binding site 640510007155 homotetramer interface [polypeptide binding]; other site 640510007156 Predicted integral membrane protein [Function unknown]; Region: COG3548 640510007157 mercuric reductase; Validated; Region: PRK06370 640510007158 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 640510007159 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640510007160 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 640510007161 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 640510007162 GAF domain; Region: GAF; pfam01590 640510007163 PAS domain S-box; Region: sensory_box; TIGR00229 640510007164 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 640510007165 putative active site [active] 640510007166 heme pocket [chemical binding]; other site 640510007167 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640510007168 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640510007169 metal binding site [ion binding]; metal-binding site 640510007170 active site 640510007171 I-site; other site 640510007172 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 640510007173 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 640510007174 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 640510007175 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 640510007176 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510007177 DNA-binding site [nucleotide binding]; DNA binding site 640510007178 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 640510007179 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510007180 homodimer interface [polypeptide binding]; other site 640510007181 catalytic residue [active] 640510007182 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 640510007183 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 640510007184 putative molybdopterin cofactor binding site [chemical binding]; other site 640510007185 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 640510007186 putative molybdopterin cofactor binding site; other site 640510007187 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 640510007188 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 640510007189 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 640510007190 putative active site pocket [active] 640510007191 metal binding site [ion binding]; metal-binding site 640510007192 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 640510007193 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640510007194 putative ligand binding site [chemical binding]; other site 640510007195 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640510007196 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 640510007197 TM-ABC transporter signature motif; other site 640510007198 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 640510007199 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 640510007200 Walker A/P-loop; other site 640510007201 ATP binding site [chemical binding]; other site 640510007202 Q-loop/lid; other site 640510007203 ABC transporter signature motif; other site 640510007204 Walker B; other site 640510007205 D-loop; other site 640510007206 H-loop/switch region; other site 640510007207 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 640510007208 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640510007209 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640510007210 DNA binding site [nucleotide binding] 640510007211 domain linker motif; other site 640510007212 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 640510007213 putative dimerization interface [polypeptide binding]; other site 640510007214 putative ligand binding site [chemical binding]; other site 640510007215 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 640510007216 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 640510007217 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 640510007218 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 640510007219 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 640510007220 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510007221 dimer interface [polypeptide binding]; other site 640510007222 conserved gate region; other site 640510007223 putative PBP binding loops; other site 640510007224 ABC-ATPase subunit interface; other site 640510007225 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 640510007226 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640510007227 Walker A/P-loop; other site 640510007228 ATP binding site [chemical binding]; other site 640510007229 Q-loop/lid; other site 640510007230 ABC transporter signature motif; other site 640510007231 Walker B; other site 640510007232 D-loop; other site 640510007233 H-loop/switch region; other site 640510007234 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 640510007235 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 640510007236 active site 640510007237 metal binding site [ion binding]; metal-binding site 640510007238 hexamer interface [polypeptide binding]; other site 640510007239 Protein of unknown function (DUF2569); Region: DUF2569; pfam10754 640510007240 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 640510007241 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510007242 Response regulator receiver domain; Region: Response_reg; pfam00072 640510007243 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510007244 active site 640510007245 phosphorylation site [posttranslational modification] 640510007246 intermolecular recognition site; other site 640510007247 dimerization interface [polypeptide binding]; other site 640510007248 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640510007249 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510007250 active site 640510007251 phosphorylation site [posttranslational modification] 640510007252 intermolecular recognition site; other site 640510007253 dimerization interface [polypeptide binding]; other site 640510007254 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 640510007255 DNA binding residues [nucleotide binding] 640510007256 dimerization interface [polypeptide binding]; other site 640510007257 Ferritin-like domain; Region: Ferritin; pfam00210 640510007258 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 640510007259 dinuclear metal binding motif [ion binding]; other site 640510007260 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 640510007261 Histidine kinase; Region: HisKA_3; pfam07730 640510007262 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510007263 ATP binding site [chemical binding]; other site 640510007264 Mg2+ binding site [ion binding]; other site 640510007265 G-X-G motif; other site 640510007266 Entericidin EcnA/B family; Region: Entericidin; cl02322 640510007267 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 640510007268 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 640510007269 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 640510007270 active site 640510007271 FMN binding site [chemical binding]; other site 640510007272 2,4-decadienoyl-CoA binding site; other site 640510007273 catalytic residue [active] 640510007274 4Fe-4S cluster binding site [ion binding]; other site 640510007275 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 640510007276 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 640510007277 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 640510007278 EamA-like transporter family; Region: EamA; pfam00892 640510007279 EamA-like transporter family; Region: EamA; pfam00892 640510007280 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 640510007281 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 640510007282 Moco binding site; other site 640510007283 metal coordination site [ion binding]; other site 640510007284 Thiosulfate reductase cytochrome B subunit (membrane anchoring protein) [Energy production and conversion]; Region: COG4117 640510007285 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 640510007286 Protein of unknown function (DUF1223); Region: DUF1223; pfam06764 640510007287 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 640510007288 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 640510007289 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 640510007290 ThiC-associated domain; Region: ThiC-associated; pfam13667 640510007291 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 640510007292 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 640510007293 L-lactate permease; Region: Lactate_perm; cl00701 640510007294 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 640510007295 EamA-like transporter family; Region: EamA; pfam00892 640510007296 EamA-like transporter family; Region: EamA; pfam00892 640510007297 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 640510007298 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 640510007299 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 640510007300 Protein of unknown function (DUF2844); Region: DUF2844; pfam11005 640510007301 Protein of unknown function (DUF3443); Region: DUF3443; pfam11925 640510007302 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 640510007303 2-isopropylmalate synthase; Validated; Region: PRK03739 640510007304 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 640510007305 active site 640510007306 catalytic residues [active] 640510007307 metal binding site [ion binding]; metal-binding site 640510007308 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 640510007309 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 640510007310 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 640510007311 Walker A/P-loop; other site 640510007312 ATP binding site [chemical binding]; other site 640510007313 Q-loop/lid; other site 640510007314 ABC transporter signature motif; other site 640510007315 Walker B; other site 640510007316 D-loop; other site 640510007317 H-loop/switch region; other site 640510007318 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640510007319 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510007320 dimer interface [polypeptide binding]; other site 640510007321 conserved gate region; other site 640510007322 putative PBP binding loops; other site 640510007323 ABC-ATPase subunit interface; other site 640510007324 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 640510007325 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 640510007326 substrate binding pocket [chemical binding]; other site 640510007327 membrane-bound complex binding site; other site 640510007328 hinge residues; other site 640510007329 phenylhydantoinase; Validated; Region: PRK08323 640510007330 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 640510007331 tetramer interface [polypeptide binding]; other site 640510007332 active site 640510007333 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily, YbbW-like; solute-binding domain; Region: SLC-NCS1sbd_YbbW-like; cd11485 640510007334 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 640510007335 Na binding site [ion binding]; other site 640510007336 putative substrate binding site [chemical binding]; other site 640510007337 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 640510007338 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 640510007339 homodimer interface [polypeptide binding]; other site 640510007340 active site 640510007341 FMN binding site [chemical binding]; other site 640510007342 substrate binding site [chemical binding]; other site 640510007343 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 640510007344 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 640510007345 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 640510007346 allantoate amidohydrolase; Reviewed; Region: PRK12893 640510007347 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 640510007348 active site 640510007349 metal binding site [ion binding]; metal-binding site 640510007350 dimer interface [polypeptide binding]; other site 640510007351 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 640510007352 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640510007353 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 640510007354 benzoyl-CoA oxygenase/reductase, BoxA protein; Region: benzo_boxA; TIGR03224 640510007355 4Fe-4S binding domain; Region: Fer4; pfam00037 640510007356 4Fe-4S binding domain; Region: Fer4; pfam00037 640510007357 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 640510007358 dimerization interface [polypeptide binding]; other site 640510007359 FAD binding pocket [chemical binding]; other site 640510007360 FAD binding motif [chemical binding]; other site 640510007361 catalytic residues [active] 640510007362 NAD binding pocket [chemical binding]; other site 640510007363 phosphate binding motif [ion binding]; other site 640510007364 beta-alpha-beta structure motif; other site 640510007365 benzoyl-CoA oxygenase, B subunit; Region: benzo_boxB; TIGR03225 640510007366 benzoyl-CoA-dihydrodiol lyase; Provisional; Region: PRK08184 640510007367 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 640510007368 substrate binding site [chemical binding]; other site 640510007369 oxyanion hole (OAH) forming residues; other site 640510007370 trimer interface [polypeptide binding]; other site 640510007371 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 640510007372 substrate binding site [chemical binding]; other site 640510007373 oxyanion hole (OAH) forming residues; other site 640510007374 trimer interface [polypeptide binding]; other site 640510007375 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 640510007376 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 640510007377 non-specific DNA binding site [nucleotide binding]; other site 640510007378 salt bridge; other site 640510007379 sequence-specific DNA binding site [nucleotide binding]; other site 640510007380 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 640510007381 Shikimate kinase; Region: SKI; pfam01202 640510007382 ADP binding site [chemical binding]; other site 640510007383 magnesium binding site [ion binding]; other site 640510007384 putative shikimate binding site; other site 640510007385 aldehyde dehydrogenase; Provisional; Region: PRK11903 640510007386 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 640510007387 NAD(P) binding site [chemical binding]; other site 640510007388 catalytic residues [active] 640510007389 benzoate-CoA ligase family; Region: benz_CoA_lig; TIGR02262 640510007390 Benzoate CoA ligase (BCL) and 4-Hydroxybenzoate-Coenzyme A Ligase (4-HBA-CoA ligase); Region: BCL_4HBCL; cd05959 640510007391 dimer interface [polypeptide binding]; other site 640510007392 acyl-activating enzyme (AAE) consensus motif; other site 640510007393 putative active site [active] 640510007394 putative AMP binding site [chemical binding]; other site 640510007395 putative CoA binding site [chemical binding]; other site 640510007396 chemical substrate binding site [chemical binding]; other site 640510007397 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640510007398 CRISPR/Cas system-associated RAMP superfamily protein Csy2; Region: Csy2_I-F; cl12127 640510007399 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 640510007400 Phosphoesterase family; Region: Phosphoesterase; pfam04185 640510007401 Domain of unknown function (DUF756); Region: DUF756; pfam05506 640510007402 Domain of unknown function (DUF756); Region: DUF756; pfam05506 640510007403 Cache domain; Region: Cache_1; pfam02743 640510007404 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 640510007405 dimerization interface [polypeptide binding]; other site 640510007406 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640510007407 dimer interface [polypeptide binding]; other site 640510007408 putative CheW interface [polypeptide binding]; other site 640510007409 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510007410 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510007411 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 640510007412 putative effector binding pocket; other site 640510007413 dimerization interface [polypeptide binding]; other site 640510007414 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 640510007415 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 640510007416 substrate binding site [chemical binding]; other site 640510007417 oxyanion hole (OAH) forming residues; other site 640510007418 trimer interface [polypeptide binding]; other site 640510007419 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 640510007420 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 640510007421 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 640510007422 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640510007423 active site 640510007424 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 640510007425 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 640510007426 active site 640510007427 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 640510007428 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 640510007429 DNA binding residues [nucleotide binding] 640510007430 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 640510007431 IHF dimer interface [polypeptide binding]; other site 640510007432 IHF - DNA interface [nucleotide binding]; other site 640510007433 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 640510007434 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 640510007435 putative tRNA-binding site [nucleotide binding]; other site 640510007436 B3/4 domain; Region: B3_4; pfam03483 640510007437 tRNA synthetase B5 domain; Region: B5; smart00874 640510007438 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 640510007439 dimer interface [polypeptide binding]; other site 640510007440 motif 1; other site 640510007441 motif 3; other site 640510007442 motif 2; other site 640510007443 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 640510007444 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 640510007445 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 640510007446 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 640510007447 dimer interface [polypeptide binding]; other site 640510007448 motif 1; other site 640510007449 active site 640510007450 motif 2; other site 640510007451 motif 3; other site 640510007452 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 640510007453 23S rRNA binding site [nucleotide binding]; other site 640510007454 L21 binding site [polypeptide binding]; other site 640510007455 L13 binding site [polypeptide binding]; other site 640510007456 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 640510007457 translation initiation factor IF-3; Region: infC; TIGR00168 640510007458 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 640510007459 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 640510007460 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 640510007461 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 640510007462 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 640510007463 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 640510007464 active site 640510007465 dimer interface [polypeptide binding]; other site 640510007466 motif 1; other site 640510007467 motif 2; other site 640510007468 motif 3; other site 640510007469 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 640510007470 anticodon binding site; other site 640510007471 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 640510007472 HD domain; Region: HD_4; pfam13328 640510007473 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 640510007474 synthetase active site [active] 640510007475 NTP binding site [chemical binding]; other site 640510007476 metal binding site [ion binding]; metal-binding site 640510007477 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 640510007478 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 640510007479 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 640510007480 homotrimer interaction site [polypeptide binding]; other site 640510007481 putative active site [active] 640510007482 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 640510007483 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 640510007484 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 640510007485 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 640510007486 PAS domain; Region: PAS_9; pfam13426 640510007487 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 640510007488 putative active site [active] 640510007489 heme pocket [chemical binding]; other site 640510007490 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 640510007491 DNA binding residues [nucleotide binding] 640510007492 dimerization interface [polypeptide binding]; other site 640510007493 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 640510007494 active site 640510007495 short chain dehydrogenase; Provisional; Region: PRK06949 640510007496 classical (c) SDRs; Region: SDR_c; cd05233 640510007497 NAD(P) binding site [chemical binding]; other site 640510007498 active site 640510007499 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 640510007500 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 640510007501 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 640510007502 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 640510007503 TPR repeat; Region: TPR_11; pfam13414 640510007504 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 640510007505 TPR motif; other site 640510007506 binding surface 640510007507 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 640510007508 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 640510007509 Tetramer interface [polypeptide binding]; other site 640510007510 active site 640510007511 FMN-binding site [chemical binding]; other site 640510007512 lysophospholipid transporter LplT; Provisional; Region: PRK11195 640510007513 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510007514 putative substrate translocation pore; other site 640510007515 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 640510007516 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 640510007517 putative acyl-acceptor binding pocket; other site 640510007518 FOG: CBS domain [General function prediction only]; Region: COG0517 640510007519 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 640510007520 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK08134 640510007521 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 640510007522 homodimer interface [polypeptide binding]; other site 640510007523 substrate-cofactor binding pocket; other site 640510007524 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510007525 catalytic residue [active] 640510007526 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 640510007527 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 640510007528 Protein of unknown function (DUF962); Region: DUF962; cl01879 640510007529 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 640510007530 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 640510007531 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 640510007532 Predicted membrane protein (DUF2069); Region: DUF2069; pfam09842 640510007533 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 640510007534 FAD binding domain; Region: FAD_binding_4; pfam01565 640510007535 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 640510007536 Microscilla MS158 and related proteins, metallophosphatase domain; Region: MPP_MS158; cd07404 640510007537 putative active site [active] 640510007538 putative metal binding site [ion binding]; other site 640510007539 transcriptional regulator; Provisional; Region: PRK10632 640510007540 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510007541 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 640510007542 putative effector binding pocket; other site 640510007543 dimerization interface [polypeptide binding]; other site 640510007544 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 640510007545 Fusaric acid resistance protein family; Region: FUSC; pfam04632 640510007546 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 640510007547 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 640510007548 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640510007549 HlyD family secretion protein; Region: HlyD_3; pfam13437 640510007550 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 640510007551 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 640510007552 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640510007553 dimer interface [polypeptide binding]; other site 640510007554 putative CheW interface [polypeptide binding]; other site 640510007555 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510007556 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640510007557 putative substrate translocation pore; other site 640510007558 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 640510007559 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 640510007560 acyl-activating enzyme (AAE) consensus motif; other site 640510007561 AMP binding site [chemical binding]; other site 640510007562 active site 640510007563 CoA binding site [chemical binding]; other site 640510007564 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 640510007565 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 640510007566 Part of AAA domain; Region: AAA_19; pfam13245 640510007567 Family description; Region: UvrD_C_2; pfam13538 640510007568 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 640510007569 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 640510007570 HIGH motif; other site 640510007571 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 640510007572 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 640510007573 active site 640510007574 KMSKS motif; other site 640510007575 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 640510007576 tRNA binding surface [nucleotide binding]; other site 640510007577 anticodon binding site; other site 640510007578 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 640510007579 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 640510007580 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 640510007581 active site 640510007582 tetramer interface; other site 640510007583 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 640510007584 CPxP motif; other site 640510007585 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 640510007586 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 640510007587 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 640510007588 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 640510007589 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 640510007590 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 640510007591 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 640510007592 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 640510007593 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 640510007594 putative active site [active] 640510007595 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_4; cd06312 640510007596 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640510007597 putative ligand binding site [chemical binding]; other site 640510007598 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640510007599 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 640510007600 TM-ABC transporter signature motif; other site 640510007601 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 640510007602 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 640510007603 Walker A/P-loop; other site 640510007604 ATP binding site [chemical binding]; other site 640510007605 Q-loop/lid; other site 640510007606 ABC transporter signature motif; other site 640510007607 Walker B; other site 640510007608 D-loop; other site 640510007609 H-loop/switch region; other site 640510007610 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 640510007611 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 640510007612 substrate binding site [chemical binding]; other site 640510007613 ATP binding site [chemical binding]; other site 640510007614 Uncharacterized protein conserved in bacteria (DUF2090); Region: DUF2090; pfam09863 640510007615 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3892 640510007616 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 640510007617 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 640510007618 PYR/PP interface [polypeptide binding]; other site 640510007619 dimer interface [polypeptide binding]; other site 640510007620 TPP binding site [chemical binding]; other site 640510007621 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 640510007622 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 640510007623 TPP-binding site [chemical binding]; other site 640510007624 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 640510007625 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 640510007626 KduI/IolB family; Region: KduI; pfam04962 640510007627 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 640510007628 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 640510007629 Walker A/P-loop; other site 640510007630 ATP binding site [chemical binding]; other site 640510007631 Q-loop/lid; other site 640510007632 ABC transporter signature motif; other site 640510007633 Walker B; other site 640510007634 D-loop; other site 640510007635 H-loop/switch region; other site 640510007636 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 640510007637 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 640510007638 Walker A/P-loop; other site 640510007639 ATP binding site [chemical binding]; other site 640510007640 Q-loop/lid; other site 640510007641 ABC transporter signature motif; other site 640510007642 Walker B; other site 640510007643 D-loop; other site 640510007644 H-loop/switch region; other site 640510007645 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 640510007646 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 640510007647 TM-ABC transporter signature motif; other site 640510007648 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 640510007649 TM-ABC transporter signature motif; other site 640510007650 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 640510007651 active site 640510007652 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 640510007653 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 640510007654 nudix motif; other site 640510007655 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 640510007656 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 640510007657 tetramer interface [polypeptide binding]; other site 640510007658 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510007659 catalytic residue [active] 640510007660 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510007661 putative substrate translocation pore; other site 640510007662 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510007663 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510007664 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 640510007665 putative dimerization interface [polypeptide binding]; other site 640510007666 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 640510007667 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 640510007668 motif 1; other site 640510007669 active site 640510007670 motif 2; other site 640510007671 motif 3; other site 640510007672 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 640510007673 Bacillus haemolytic enterotoxin (HBL); Region: Bacillus_HBL; pfam05791 640510007674 DHHA1 domain; Region: DHHA1; pfam02272 640510007675 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 640510007676 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640510007677 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 640510007678 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 640510007679 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 640510007680 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 640510007681 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 640510007682 active site 640510007683 HIGH motif; other site 640510007684 nucleotide binding site [chemical binding]; other site 640510007685 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 640510007686 KMSKS motif; other site 640510007687 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 640510007688 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 640510007689 nudix motif; other site 640510007690 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 640510007691 Phospholipase C [Cell envelope biogenesis, outer membrane]; Region: PlcC; COG3511 640510007692 acid phosphatase, Burkholderia-type; Region: acid_phos_Burk; TIGR03397 640510007693 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK12554 640510007694 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 640510007695 active site 640510007696 catalytic residues [active] 640510007697 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 640510007698 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 640510007699 Peptidase family M23; Region: Peptidase_M23; pfam01551 640510007700 Protein of unknown function (DUF2288); Region: DUF2288; pfam10052 640510007701 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 640510007702 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 640510007703 Protein of unknown function (DUF3309); Region: DUF3309; pfam11752 640510007704 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 640510007705 catalytic core [active] 640510007706 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 640510007707 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 640510007708 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 640510007709 polyphosphate kinase; Provisional; Region: PRK05443 640510007710 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 640510007711 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 640510007712 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 640510007713 putative active site [active] 640510007714 catalytic site [active] 640510007715 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 640510007716 putative domain interface [polypeptide binding]; other site 640510007717 putative active site [active] 640510007718 catalytic site [active] 640510007719 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 640510007720 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 640510007721 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 640510007722 dimer interface [polypeptide binding]; other site 640510007723 phosphorylation site [posttranslational modification] 640510007724 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510007725 ATP binding site [chemical binding]; other site 640510007726 Mg2+ binding site [ion binding]; other site 640510007727 G-X-G motif; other site 640510007728 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 640510007729 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510007730 active site 640510007731 phosphorylation site [posttranslational modification] 640510007732 intermolecular recognition site; other site 640510007733 dimerization interface [polypeptide binding]; other site 640510007734 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 640510007735 DNA binding site [nucleotide binding] 640510007736 transcriptional regulator PhoU; Provisional; Region: PRK11115 640510007737 PhoU domain; Region: PhoU; pfam01895 640510007738 PhoU domain; Region: PhoU; pfam01895 640510007739 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 640510007740 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 640510007741 Walker A/P-loop; other site 640510007742 ATP binding site [chemical binding]; other site 640510007743 Q-loop/lid; other site 640510007744 ABC transporter signature motif; other site 640510007745 Walker B; other site 640510007746 D-loop; other site 640510007747 H-loop/switch region; other site 640510007748 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 640510007749 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510007750 dimer interface [polypeptide binding]; other site 640510007751 conserved gate region; other site 640510007752 putative PBP binding loops; other site 640510007753 ABC-ATPase subunit interface; other site 640510007754 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 640510007755 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510007756 dimer interface [polypeptide binding]; other site 640510007757 conserved gate region; other site 640510007758 putative PBP binding loops; other site 640510007759 ABC-ATPase subunit interface; other site 640510007760 PBP superfamily domain; Region: PBP_like_2; cl17296 640510007761 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 640510007762 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 640510007763 active site 640510007764 substrate binding site [chemical binding]; other site 640510007765 metal binding site [ion binding]; metal-binding site 640510007766 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 640510007767 dihydropteroate synthase; Region: DHPS; TIGR01496 640510007768 substrate binding pocket [chemical binding]; other site 640510007769 dimer interface [polypeptide binding]; other site 640510007770 inhibitor binding site; inhibition site 640510007771 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 640510007772 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 640510007773 Walker A motif; other site 640510007774 ATP binding site [chemical binding]; other site 640510007775 Walker B motif; other site 640510007776 arginine finger; other site 640510007777 Peptidase family M41; Region: Peptidase_M41; pfam01434 640510007778 FtsJ-like methyltransferase; Region: FtsJ; cl17430 640510007779 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 640510007780 Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly; Region: CRS1_YhbY; smart01103 640510007781 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 640510007782 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 640510007783 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 640510007784 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 640510007785 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 640510007786 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 640510007787 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 640510007788 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 640510007789 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 640510007790 ATP-grasp domain; Region: ATP-grasp_4; cl17255 640510007791 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 640510007792 IMP binding site; other site 640510007793 dimer interface [polypeptide binding]; other site 640510007794 interdomain contacts; other site 640510007795 partial ornithine binding site; other site 640510007796 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 640510007797 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 640510007798 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 640510007799 catalytic site [active] 640510007800 subunit interface [polypeptide binding]; other site 640510007801 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 640510007802 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 640510007803 N-acetyl-D-glucosamine binding site [chemical binding]; other site 640510007804 catalytic residue [active] 640510007805 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 640510007806 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 640510007807 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 640510007808 Methyltransferase domain; Region: Methyltransf_11; pfam08241 640510007809 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 640510007810 RNA/DNA hybrid binding site [nucleotide binding]; other site 640510007811 active site 640510007812 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 640510007813 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 640510007814 active site 640510007815 catalytic site [active] 640510007816 substrate binding site [chemical binding]; other site 640510007817 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 640510007818 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 640510007819 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 640510007820 Walker A/P-loop; other site 640510007821 ATP binding site [chemical binding]; other site 640510007822 Q-loop/lid; other site 640510007823 ABC transporter signature motif; other site 640510007824 Walker B; other site 640510007825 D-loop; other site 640510007826 H-loop/switch region; other site 640510007827 Predicted membrane protein (DUF2214); Region: DUF2214; pfam09980 640510007828 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 640510007829 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640510007830 putative ADP-binding pocket [chemical binding]; other site 640510007831 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 640510007832 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 640510007833 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640510007834 Walker A/P-loop; other site 640510007835 ATP binding site [chemical binding]; other site 640510007836 Q-loop/lid; other site 640510007837 ABC transporter signature motif; other site 640510007838 Walker B; other site 640510007839 D-loop; other site 640510007840 H-loop/switch region; other site 640510007841 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 640510007842 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 640510007843 active site 640510007844 homotetramer interface [polypeptide binding]; other site 640510007845 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 640510007846 Trehalose-phosphatase; Region: Trehalose_PPase; pfam02358 640510007847 active site 640510007848 motif I; other site 640510007849 motif II; other site 640510007850 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 640510007851 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 640510007852 Cu(I) binding site [ion binding]; other site 640510007853 Protein of unknown function (DUF461); Region: DUF461; pfam04314 640510007854 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 640510007855 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 640510007856 Coenzyme A binding pocket [chemical binding]; other site 640510007857 TraB family; Region: TraB; pfam01963 640510007858 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 640510007859 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 640510007860 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 640510007861 GIY-YIG motif/motif A; other site 640510007862 active site 640510007863 catalytic site [active] 640510007864 putative DNA binding site [nucleotide binding]; other site 640510007865 metal binding site [ion binding]; metal-binding site 640510007866 UvrB/uvrC motif; Region: UVR; pfam02151 640510007867 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 640510007868 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 640510007869 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 640510007870 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 640510007871 elongation factor P; Validated; Region: PRK00529 640510007872 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 640510007873 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 640510007874 RNA binding site [nucleotide binding]; other site 640510007875 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 640510007876 RNA binding site [nucleotide binding]; other site 640510007877 CsbD-like; Region: CsbD; cl17424 640510007878 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 640510007879 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510007880 active site 640510007881 phosphorylation site [posttranslational modification] 640510007882 intermolecular recognition site; other site 640510007883 dimerization interface [polypeptide binding]; other site 640510007884 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 640510007885 Walker A motif; other site 640510007886 ATP binding site [chemical binding]; other site 640510007887 Walker B motif; other site 640510007888 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 640510007889 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 640510007890 beta-hexosaminidase; Provisional; Region: PRK05337 640510007891 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 640510007892 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 640510007893 active site 640510007894 hydrophilic channel; other site 640510007895 dimerization interface [polypeptide binding]; other site 640510007896 catalytic residues [active] 640510007897 active site lid [active] 640510007898 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 640510007899 Recombination protein O N terminal; Region: RecO_N; pfam11967 640510007900 Recombination protein O C terminal; Region: RecO_C; pfam02565 640510007901 GTPase Era; Reviewed; Region: era; PRK00089 640510007902 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 640510007903 G1 box; other site 640510007904 GTP/Mg2+ binding site [chemical binding]; other site 640510007905 Switch I region; other site 640510007906 G2 box; other site 640510007907 Switch II region; other site 640510007908 G3 box; other site 640510007909 G4 box; other site 640510007910 G5 box; other site 640510007911 KH domain; Region: KH_2; pfam07650 640510007912 ribonuclease III; Reviewed; Region: PRK12372 640510007913 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 640510007914 dimerization interface [polypeptide binding]; other site 640510007915 active site 640510007916 metal binding site [ion binding]; metal-binding site 640510007917 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 640510007918 signal peptidase I; Provisional; Region: PRK10861 640510007919 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 640510007920 Catalytic site [active] 640510007921 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 640510007922 GTP-binding protein LepA; Provisional; Region: PRK05433 640510007923 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 640510007924 G1 box; other site 640510007925 putative GEF interaction site [polypeptide binding]; other site 640510007926 GTP/Mg2+ binding site [chemical binding]; other site 640510007927 Switch I region; other site 640510007928 G2 box; other site 640510007929 G3 box; other site 640510007930 Switch II region; other site 640510007931 G4 box; other site 640510007932 G5 box; other site 640510007933 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 640510007934 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 640510007935 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 640510007936 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 640510007937 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 640510007938 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 640510007939 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 640510007940 protein binding site [polypeptide binding]; other site 640510007941 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 640510007942 protein binding site [polypeptide binding]; other site 640510007943 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 640510007944 anti-sigma E factor; Provisional; Region: rseB; PRK09455 640510007945 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 640510007946 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 640510007947 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640510007948 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 640510007949 DNA binding residues [nucleotide binding] 640510007950 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 640510007951 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 640510007952 dimer interface [polypeptide binding]; other site 640510007953 active site 640510007954 acyl carrier protein; Provisional; Region: acpP; PRK00982 640510007955 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 640510007956 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 640510007957 NAD(P) binding site [chemical binding]; other site 640510007958 homotetramer interface [polypeptide binding]; other site 640510007959 homodimer interface [polypeptide binding]; other site 640510007960 active site 640510007961 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 640510007962 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 640510007963 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 640510007964 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 640510007965 dimer interface [polypeptide binding]; other site 640510007966 active site 640510007967 CoA binding pocket [chemical binding]; other site 640510007968 putative phosphate acyltransferase; Provisional; Region: PRK05331 640510007969 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 640510007970 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 640510007971 Maf-like protein; Region: Maf; pfam02545 640510007972 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 640510007973 active site 640510007974 dimer interface [polypeptide binding]; other site 640510007975 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 640510007976 putative SAM binding site [chemical binding]; other site 640510007977 homodimer interface [polypeptide binding]; other site 640510007978 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 640510007979 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 640510007980 tandem repeat interface [polypeptide binding]; other site 640510007981 oligomer interface [polypeptide binding]; other site 640510007982 active site residues [active] 640510007983 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 640510007984 iron-sulfur cluster [ion binding]; other site 640510007985 [2Fe-2S] cluster binding site [ion binding]; other site 640510007986 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 640510007987 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 640510007988 motif II; other site 640510007989 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 640510007990 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 640510007991 RNA binding surface [nucleotide binding]; other site 640510007992 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 640510007993 active site 640510007994 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 640510007995 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 640510007996 homodimer interface [polypeptide binding]; other site 640510007997 oligonucleotide binding site [chemical binding]; other site 640510007998 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 640510007999 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 640510008000 FeS/SAM binding site; other site 640510008001 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 640510008002 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 640510008003 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 640510008004 GTP binding site; other site 640510008005 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 640510008006 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 640510008007 dimer interface [polypeptide binding]; other site 640510008008 putative functional site; other site 640510008009 putative MPT binding site; other site 640510008010 RmuC family; Region: RmuC; pfam02646 640510008011 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 640510008012 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 640510008013 dimerization interface [polypeptide binding]; other site 640510008014 ligand binding site [chemical binding]; other site 640510008015 NADP binding site [chemical binding]; other site 640510008016 catalytic site [active] 640510008017 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 640510008018 Uncharacterized conserved protein [Function unknown]; Region: COG1556 640510008019 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 640510008020 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 640510008021 active site 640510008022 Ferredoxin [Energy production and conversion]; Region: COG1146 640510008023 4Fe-4S binding domain; Region: Fer4; cl02805 640510008024 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 640510008025 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 640510008026 CreA protein; Region: CreA; pfam05981 640510008027 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 640510008028 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510008029 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640510008030 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510008031 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 640510008032 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 640510008033 Protein of unknown function (DUF4088); Region: DUF4088; pfam13317 640510008034 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 640510008035 Part of AAA domain; Region: AAA_19; pfam13245 640510008036 Family description; Region: UvrD_C_2; pfam13538 640510008037 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 640510008038 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 640510008039 RNA binding surface [nucleotide binding]; other site 640510008040 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 640510008041 multidrug efflux protein; Reviewed; Region: PRK01766 640510008042 cation binding site [ion binding]; other site 640510008043 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 640510008044 Sodium Bile acid symporter family; Region: SBF; pfam01758 640510008045 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 640510008046 PLD-like domain; Region: PLDc_2; pfam13091 640510008047 putative active site [active] 640510008048 catalytic site [active] 640510008049 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 640510008050 PLD-like domain; Region: PLDc_2; pfam13091 640510008051 putative active site [active] 640510008052 catalytic site [active] 640510008053 fumarate hydratase; Reviewed; Region: fumC; PRK00485 640510008054 Class II fumarases; Region: Fumarase_classII; cd01362 640510008055 active site 640510008056 tetramer interface [polypeptide binding]; other site 640510008057 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 640510008058 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 640510008059 conserved cys residue [active] 640510008060 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640510008061 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510008062 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510008063 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640510008064 putative substrate translocation pore; other site 640510008065 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 640510008066 dimerization interface [polypeptide binding]; other site 640510008067 putative DNA binding site [nucleotide binding]; other site 640510008068 putative Zn2+ binding site [ion binding]; other site 640510008069 thymidylate synthase; Provisional; Region: thyA; PRK13821 640510008070 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 640510008071 dimerization interface [polypeptide binding]; other site 640510008072 active site 640510008073 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 640510008074 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 640510008075 Walker A motif; other site 640510008076 ATP binding site [chemical binding]; other site 640510008077 Walker B motif; other site 640510008078 arginine finger; other site 640510008079 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 640510008080 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 640510008081 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 640510008082 folate binding site [chemical binding]; other site 640510008083 NADP+ binding site [chemical binding]; other site 640510008084 peptidase PmbA; Provisional; Region: PRK11040 640510008085 hypothetical protein; Provisional; Region: PRK05255 640510008086 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 640510008087 MPT binding site; other site 640510008088 trimer interface [polypeptide binding]; other site 640510008089 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 640510008090 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 640510008091 catalytic site [active] 640510008092 putative active site [active] 640510008093 putative substrate binding site [chemical binding]; other site 640510008094 dimer interface [polypeptide binding]; other site 640510008095 Peptidase family M48; Region: Peptidase_M48; cl12018 640510008096 GTPase RsgA; Reviewed; Region: PRK00098 640510008097 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 640510008098 RNA binding site [nucleotide binding]; other site 640510008099 homodimer interface [polypeptide binding]; other site 640510008100 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 640510008101 GTPase/Zn-binding domain interface [polypeptide binding]; other site 640510008102 GTP/Mg2+ binding site [chemical binding]; other site 640510008103 G4 box; other site 640510008104 G5 box; other site 640510008105 G1 box; other site 640510008106 Switch I region; other site 640510008107 G2 box; other site 640510008108 G3 box; other site 640510008109 Switch II region; other site 640510008110 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 640510008111 CobD/CbiB family protein; Provisional; Region: PRK07630 640510008112 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 640510008113 putative active site [active] 640510008114 putative CoA binding site [chemical binding]; other site 640510008115 nudix motif; other site 640510008116 metal binding site [ion binding]; metal-binding site 640510008117 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 640510008118 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 640510008119 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 640510008120 RimM N-terminal domain; Region: RimM; pfam01782 640510008121 PRC-barrel domain; Region: PRC; pfam05239 640510008122 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 640510008123 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 640510008124 Domain of unknown function (DUF373); Region: DUF373; cl12079 640510008125 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 640510008126 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 640510008127 FeS/SAM binding site; other site 640510008128 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 640510008129 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 640510008130 putative DNA binding site [nucleotide binding]; other site 640510008131 putative Zn2+ binding site [ion binding]; other site 640510008132 AsnC family; Region: AsnC_trans_reg; pfam01037 640510008133 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 640510008134 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 640510008135 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 640510008136 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640510008137 active site 640510008138 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 640510008139 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 640510008140 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 640510008141 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 640510008142 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 640510008143 Ligand binding site [chemical binding]; other site 640510008144 Electron transfer flavoprotein domain; Region: ETF; pfam01012 640510008145 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 640510008146 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 640510008147 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510008148 dimer interface [polypeptide binding]; other site 640510008149 conserved gate region; other site 640510008150 ABC-ATPase subunit interface; other site 640510008151 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 640510008152 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 640510008153 Walker A/P-loop; other site 640510008154 ATP binding site [chemical binding]; other site 640510008155 Q-loop/lid; other site 640510008156 ABC transporter signature motif; other site 640510008157 Walker B; other site 640510008158 D-loop; other site 640510008159 H-loop/switch region; other site 640510008160 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 640510008161 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 640510008162 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 640510008163 enoyl-CoA hydratase; Validated; Region: PRK08139 640510008164 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 640510008165 substrate binding site [chemical binding]; other site 640510008166 oxyanion hole (OAH) forming residues; other site 640510008167 trimer interface [polypeptide binding]; other site 640510008168 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 640510008169 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 640510008170 putative active site [active] 640510008171 Zn binding site [ion binding]; other site 640510008172 Transglycosylase SLT domain; Region: SLT_2; pfam13406 640510008173 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 640510008174 N-acetyl-D-glucosamine binding site [chemical binding]; other site 640510008175 cysteine synthase B; Region: cysM; TIGR01138 640510008176 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 640510008177 dimer interface [polypeptide binding]; other site 640510008178 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510008179 catalytic residue [active] 640510008180 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 640510008181 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 640510008182 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 640510008183 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 640510008184 NADP binding site [chemical binding]; other site 640510008185 homopentamer interface [polypeptide binding]; other site 640510008186 substrate binding site [chemical binding]; other site 640510008187 active site 640510008188 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 640510008189 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 640510008190 putative ribose interaction site [chemical binding]; other site 640510008191 putative ADP binding site [chemical binding]; other site 640510008192 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 640510008193 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 640510008194 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 640510008195 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 640510008196 tetratricopeptide repeat protein; Provisional; Region: PRK11788 640510008197 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 640510008198 binding surface 640510008199 TPR motif; other site 640510008200 Protein of unknown function (DUF1049); Region: DUF1049; pfam06305 640510008201 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 640510008202 IHF dimer interface [polypeptide binding]; other site 640510008203 IHF - DNA interface [nucleotide binding]; other site 640510008204 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 640510008205 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 640510008206 RNA binding site [nucleotide binding]; other site 640510008207 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 640510008208 RNA binding site [nucleotide binding]; other site 640510008209 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 640510008210 RNA binding site [nucleotide binding]; other site 640510008211 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec4; cd05689 640510008212 RNA binding site [nucleotide binding]; other site 640510008213 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec5; cd05690 640510008214 RNA binding site [nucleotide binding]; other site 640510008215 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec6; cd05691 640510008216 RNA binding site [nucleotide binding]; other site 640510008217 cytidylate kinase; Provisional; Region: cmk; PRK00023 640510008218 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 640510008219 CMP-binding site; other site 640510008220 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 640510008221 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 640510008222 hinge; other site 640510008223 active site 640510008224 prephenate dehydrogenase; Validated; Region: PRK08507 640510008225 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 640510008226 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 640510008227 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510008228 homodimer interface [polypeptide binding]; other site 640510008229 catalytic residue [active] 640510008230 Chorismate mutase type II; Region: CM_2; pfam01817 640510008231 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 640510008232 Prephenate dehydratase; Region: PDT; pfam00800 640510008233 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 640510008234 putative L-Phe binding site [chemical binding]; other site 640510008235 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 640510008236 homodimer interface [polypeptide binding]; other site 640510008237 substrate-cofactor binding pocket; other site 640510008238 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510008239 catalytic residue [active] 640510008240 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 640510008241 DNA gyrase subunit A; Validated; Region: PRK05560 640510008242 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 640510008243 CAP-like domain; other site 640510008244 active site 640510008245 primary dimer interface [polypeptide binding]; other site 640510008246 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 640510008247 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 640510008248 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 640510008249 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 640510008250 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 640510008251 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 640510008252 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640510008253 ligand binding site [chemical binding]; other site 640510008254 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 640510008255 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 640510008256 S-adenosylmethionine binding site [chemical binding]; other site 640510008257 phosphoglycolate phosphatase; Provisional; Region: PRK13222 640510008258 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 640510008259 motif II; other site 640510008260 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 640510008261 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 640510008262 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 640510008263 putative active site [active] 640510008264 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 640510008265 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 640510008266 Walker A/P-loop; other site 640510008267 ATP binding site [chemical binding]; other site 640510008268 Q-loop/lid; other site 640510008269 ABC transporter signature motif; other site 640510008270 Walker B; other site 640510008271 D-loop; other site 640510008272 H-loop/switch region; other site 640510008273 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 640510008274 HlyD family secretion protein; Region: HlyD_3; pfam13437 640510008275 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 640510008276 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 640510008277 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 640510008278 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 640510008279 PBP superfamily domain; Region: PBP_like; pfam12727 640510008280 formate dehydrogenase subunit gamma; Validated; Region: PRK05988 640510008281 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 640510008282 putative dimer interface [polypeptide binding]; other site 640510008283 [2Fe-2S] cluster binding site [ion binding]; other site 640510008284 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 640510008285 putative dimer interface [polypeptide binding]; other site 640510008286 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 640510008287 SLBB domain; Region: SLBB; pfam10531 640510008288 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 640510008289 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 640510008290 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 640510008291 catalytic loop [active] 640510008292 iron binding site [ion binding]; other site 640510008293 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; smart00929 640510008294 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 640510008295 [4Fe-4S] binding site [ion binding]; other site 640510008296 molybdopterin cofactor binding site; other site 640510008297 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 640510008298 molybdopterin cofactor binding site; other site 640510008299 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 640510008300 hypothetical protein; Provisional; Region: PRK06184 640510008301 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 640510008302 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 640510008303 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 640510008304 dimerization interface [polypeptide binding]; other site 640510008305 putative DNA binding site [nucleotide binding]; other site 640510008306 putative Zn2+ binding site [ion binding]; other site 640510008307 Tetratricopeptide repeat; Region: TPR_16; pfam13432 640510008308 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 640510008309 TPR motif; other site 640510008310 binding surface 640510008311 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 640510008312 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 640510008313 binding surface 640510008314 TPR motif; other site 640510008315 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 640510008316 binding surface 640510008317 TPR motif; other site 640510008318 ADP-heptose:LPS heptosyl transferase I; Provisional; Region: PRK10964; cl15782 640510008319 citrate-proton symporter; Provisional; Region: PRK15075 640510008320 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510008321 putative substrate translocation pore; other site 640510008322 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 640510008323 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640510008324 Coenzyme A binding pocket [chemical binding]; other site 640510008325 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 640510008326 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 640510008327 Peptidase C26; Region: Peptidase_C26; pfam07722 640510008328 catalytic triad [active] 640510008329 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 640510008330 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 640510008331 Protein of unknown function (DUF2848); Region: DUF2848; pfam11010 640510008332 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510008333 D-galactonate transporter; Region: 2A0114; TIGR00893 640510008334 putative substrate translocation pore; other site 640510008335 Transcriptional regulators [Transcription]; Region: GntR; COG1802 640510008336 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510008337 DNA-binding site [nucleotide binding]; DNA binding site 640510008338 FCD domain; Region: FCD; pfam07729 640510008339 amidase; Provisional; Region: PRK07056 640510008340 Amidase; Region: Amidase; cl11426 640510008341 disulfide bond formation protein B; Provisional; Region: PRK02110 640510008342 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 640510008343 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 640510008344 catalytic loop [active] 640510008345 iron binding site [ion binding]; other site 640510008346 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 640510008347 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 640510008348 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 640510008349 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 640510008350 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640510008351 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 640510008352 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 640510008353 XdhC Rossmann domain; Region: XdhC_C; pfam13478 640510008354 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 640510008355 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 640510008356 active site 640510008357 purine riboside binding site [chemical binding]; other site 640510008358 guanine deaminase; Provisional; Region: PRK09228 640510008359 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 640510008360 active site 640510008361 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 640510008362 Methyltransferase domain; Region: Methyltransf_23; pfam13489 640510008363 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 640510008364 S-adenosylmethionine binding site [chemical binding]; other site 640510008365 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 640510008366 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 640510008367 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 640510008368 dimer interface [polypeptide binding]; other site 640510008369 active site 640510008370 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 640510008371 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 640510008372 dimer interface [polypeptide binding]; other site 640510008373 active site 640510008374 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510008375 3-oxoacyl-(acyl-carrier-protein) reductase, putative; Region: fabG_rel; TIGR01831 640510008376 NAD(P) binding site [chemical binding]; other site 640510008377 active site 640510008378 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 640510008379 putative active site 1 [active] 640510008380 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 640510008381 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 640510008382 dimer interface [polypeptide binding]; other site 640510008383 active site 640510008384 Predicted exporter [General function prediction only]; Region: COG4258 640510008385 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 640510008386 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 640510008387 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 640510008388 active site 640510008389 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 640510008390 active sites [active] 640510008391 tetramer interface [polypeptide binding]; other site 640510008392 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 640510008393 Ligand binding site; other site 640510008394 Putative Catalytic site; other site 640510008395 DXD motif; other site 640510008396 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 640510008397 putative acyl-acceptor binding pocket; other site 640510008398 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 640510008399 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 640510008400 AMP binding site [chemical binding]; other site 640510008401 active site 640510008402 acyl-activating enzyme (AAE) consensus motif; other site 640510008403 CoA binding site [chemical binding]; other site 640510008404 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 640510008405 active site 2 [active] 640510008406 dimer interface [polypeptide binding]; other site 640510008407 Predicted membrane protein [Function unknown]; Region: COG4648 640510008408 acyl carrier protein; Provisional; Region: PRK05350 640510008409 Phosphopantetheine attachment site; Region: PP-binding; cl09936 640510008410 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 640510008411 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 640510008412 putative acyl-acceptor binding pocket; other site 640510008413 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 640510008414 Predicted membrane protein [Function unknown]; Region: COG2119 640510008415 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 640510008416 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 640510008417 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 640510008418 aminopeptidase N; Provisional; Region: pepN; PRK14015 640510008419 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 640510008420 active site 640510008421 Zn binding site [ion binding]; other site 640510008422 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 640510008423 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 640510008424 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 640510008425 non-specific DNA binding site [nucleotide binding]; other site 640510008426 salt bridge; other site 640510008427 sequence-specific DNA binding site [nucleotide binding]; other site 640510008428 fructose-1,6-bisphosphatase family protein; Region: PLN02628 640510008429 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 640510008430 AMP binding site [chemical binding]; other site 640510008431 metal binding site [ion binding]; metal-binding site 640510008432 active site 640510008433 chorismate mutase; Provisional; Region: PRK09269 640510008434 Chorismate mutase type II; Region: CM_2; cl00693 640510008435 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 640510008436 active site 640510008437 catalytic site [active] 640510008438 substrate binding site [chemical binding]; other site 640510008439 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 640510008440 GIY-YIG motif/motif A; other site 640510008441 active site 640510008442 catalytic site [active] 640510008443 putative DNA binding site [nucleotide binding]; other site 640510008444 metal binding site [ion binding]; metal-binding site 640510008445 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 640510008446 DNA-binding site [nucleotide binding]; DNA binding site 640510008447 RNA-binding motif; other site 640510008448 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640510008449 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 640510008450 trimer interface [polypeptide binding]; other site 640510008451 eyelet of channel; other site 640510008452 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 640510008453 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 640510008454 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 640510008455 Protein of unknown function (DUF2591); Region: DUF2591; cl11584 640510008456 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 640510008457 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 640510008458 Zn2+ binding site [ion binding]; other site 640510008459 Mg2+ binding site [ion binding]; other site 640510008460 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 640510008461 synthetase active site [active] 640510008462 NTP binding site [chemical binding]; other site 640510008463 metal binding site [ion binding]; metal-binding site 640510008464 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 640510008465 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 640510008466 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 640510008467 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 640510008468 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 640510008469 catalytic site [active] 640510008470 G-X2-G-X-G-K; other site 640510008471 hypothetical protein; Provisional; Region: PRK11820 640510008472 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 640510008473 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 640510008474 ribonuclease PH; Reviewed; Region: rph; PRK00173 640510008475 Ribonuclease PH; Region: RNase_PH_bact; cd11362 640510008476 hexamer interface [polypeptide binding]; other site 640510008477 active site 640510008478 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 640510008479 active site 640510008480 dimerization interface [polypeptide binding]; other site 640510008481 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 640510008482 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 640510008483 FeS/SAM binding site; other site 640510008484 HemN C-terminal domain; Region: HemN_C; pfam06969 640510008485 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510008486 putative substrate translocation pore; other site 640510008487 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 640510008488 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 640510008489 inhibitor-cofactor binding pocket; inhibition site 640510008490 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510008491 catalytic residue [active] 640510008492 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 640510008493 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 640510008494 catalytic motif [active] 640510008495 Zn binding site [ion binding]; other site 640510008496 RibD C-terminal domain; Region: RibD_C; cl17279 640510008497 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 640510008498 Lumazine binding domain; Region: Lum_binding; pfam00677 640510008499 Lumazine binding domain; Region: Lum_binding; pfam00677 640510008500 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 640510008501 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 640510008502 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 640510008503 dimerization interface [polypeptide binding]; other site 640510008504 active site 640510008505 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 640510008506 homopentamer interface [polypeptide binding]; other site 640510008507 active site 640510008508 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 640510008509 putative RNA binding site [nucleotide binding]; other site 640510008510 aminotransferase; Validated; Region: PRK07337 640510008511 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 640510008512 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510008513 homodimer interface [polypeptide binding]; other site 640510008514 catalytic residue [active] 640510008515 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 640510008516 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 640510008517 N-acetyl-D-glucosamine binding site [chemical binding]; other site 640510008518 catalytic residue [active] 640510008519 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 640510008520 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 640510008521 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 640510008522 tetramer interface [polypeptide binding]; other site 640510008523 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 640510008524 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510008525 catalytic residue [active] 640510008526 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 640510008527 Uncharacterized conserved protein [Function unknown]; Region: COG5495 640510008528 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 640510008529 EthD domain; Region: EthD; cl17553 640510008530 YGGT family; Region: YGGT; pfam02325 640510008531 YGGT family; Region: YGGT; pfam02325 640510008532 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 640510008533 S-adenosylmethionine binding site [chemical binding]; other site 640510008534 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 640510008535 Protein of unknown function (DUF1439); Region: DUF1439; cl06345 640510008536 Flagellin N-methylase; Region: FliB; pfam03692 640510008537 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 640510008538 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 640510008539 FeS/SAM binding site; other site 640510008540 HemN C-terminal domain; Region: HemN_C; pfam06969 640510008541 conserved hypothetical protein; Region: Lon_rel_chp; TIGR02653 640510008542 Putative ATP-dependent Lon protease; Region: Lon_2; pfam13337 640510008543 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 640510008544 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 640510008545 nucleotide binding site [chemical binding]; other site 640510008546 putative NEF/HSP70 interaction site [polypeptide binding]; other site 640510008547 SBD interface [polypeptide binding]; other site 640510008548 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 640510008549 Methyltransferase domain; Region: Methyltransf_26; pfam13659 640510008550 Restriction endonuclease [Defense mechanisms]; Region: Mrr; COG1715 640510008551 Mrr N-terminal domain; Region: Mrr_N; pfam14338 640510008552 Restriction endonuclease; Region: Mrr_cat; pfam04471 640510008553 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 640510008554 generic binding surface II; other site 640510008555 generic binding surface I; other site 640510008556 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 640510008557 non-specific DNA binding site [nucleotide binding]; other site 640510008558 salt bridge; other site 640510008559 sequence-specific DNA binding site [nucleotide binding]; other site 640510008560 Domain of unknown function (DUF955); Region: DUF955; cl01076 640510008561 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 640510008562 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 640510008563 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 640510008564 active site 640510008565 DNA binding site [nucleotide binding] 640510008566 Int/Topo IB signature motif; other site 640510008567 aromatic amino acid transporter; Provisional; Region: PRK10238 640510008568 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 640510008569 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640510008570 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_1; cd08663 640510008571 SxDxEG motif; other site 640510008572 active site 640510008573 metal binding site [ion binding]; metal-binding site 640510008574 homopentamer interface [polypeptide binding]; other site 640510008575 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 640510008576 homodimer interface [polypeptide binding]; other site 640510008577 homotetramer interface [polypeptide binding]; other site 640510008578 active site pocket [active] 640510008579 cleavage site 640510008580 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 640510008581 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 640510008582 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510008583 dimer interface [polypeptide binding]; other site 640510008584 conserved gate region; other site 640510008585 putative PBP binding loops; other site 640510008586 ABC-ATPase subunit interface; other site 640510008587 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 640510008588 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510008589 dimer interface [polypeptide binding]; other site 640510008590 conserved gate region; other site 640510008591 putative PBP binding loops; other site 640510008592 ABC-ATPase subunit interface; other site 640510008593 glutathione ABC transporter substrate-binding protein GsiB; Provisional; Region: PRK15413 640510008594 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 640510008595 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 640510008596 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640510008597 Walker A/P-loop; other site 640510008598 ATP binding site [chemical binding]; other site 640510008599 Q-loop/lid; other site 640510008600 ABC transporter signature motif; other site 640510008601 Walker B; other site 640510008602 D-loop; other site 640510008603 H-loop/switch region; other site 640510008604 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640510008605 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640510008606 Walker A/P-loop; other site 640510008607 ATP binding site [chemical binding]; other site 640510008608 Q-loop/lid; other site 640510008609 ABC transporter signature motif; other site 640510008610 Walker B; other site 640510008611 D-loop; other site 640510008612 H-loop/switch region; other site 640510008613 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 640510008614 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; cd04512 640510008615 active site 640510008616 dimer interface [polypeptide binding]; other site 640510008617 catalytic nucleophile [active] 640510008618 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 640510008619 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 640510008620 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 640510008621 putative active site [active] 640510008622 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 640510008623 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 640510008624 RNA binding surface [nucleotide binding]; other site 640510008625 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 640510008626 active site 640510008627 uracil binding [chemical binding]; other site 640510008628 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 640510008629 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510008630 NAD(P) binding site [chemical binding]; other site 640510008631 active site 640510008632 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 640510008633 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 640510008634 catalytic loop [active] 640510008635 iron binding site [ion binding]; other site 640510008636 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 640510008637 FAD binding pocket [chemical binding]; other site 640510008638 FAD binding motif [chemical binding]; other site 640510008639 phosphate binding motif [ion binding]; other site 640510008640 beta-alpha-beta structure motif; other site 640510008641 NAD binding pocket [chemical binding]; other site 640510008642 acetylornithine transaminase protein; Provisional; Region: argD; PRK03715 640510008643 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 640510008644 inhibitor-cofactor binding pocket; inhibition site 640510008645 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510008646 catalytic residue [active] 640510008647 putative acetyltransferase; Provisional; Region: PRK03624 640510008648 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640510008649 Coenzyme A binding pocket [chemical binding]; other site 640510008650 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 640510008651 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 640510008652 Walker A/P-loop; other site 640510008653 ATP binding site [chemical binding]; other site 640510008654 Q-loop/lid; other site 640510008655 ABC transporter signature motif; other site 640510008656 Walker B; other site 640510008657 D-loop; other site 640510008658 H-loop/switch region; other site 640510008659 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 640510008660 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 640510008661 Walker A/P-loop; other site 640510008662 ATP binding site [chemical binding]; other site 640510008663 Q-loop/lid; other site 640510008664 ABC transporter signature motif; other site 640510008665 Walker B; other site 640510008666 D-loop; other site 640510008667 H-loop/switch region; other site 640510008668 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 640510008669 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 640510008670 TM-ABC transporter signature motif; other site 640510008671 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640510008672 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 640510008673 TM-ABC transporter signature motif; other site 640510008674 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 640510008675 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 640510008676 dimerization interface [polypeptide binding]; other site 640510008677 ligand binding site [chemical binding]; other site 640510008678 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 640510008679 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 640510008680 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 640510008681 hypothetical protein; Reviewed; Region: PRK00024 640510008682 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 640510008683 MPN+ (JAMM) motif; other site 640510008684 Zinc-binding site [ion binding]; other site 640510008685 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 640510008686 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 640510008687 L-aspartate oxidase; Provisional; Region: PRK09077 640510008688 L-aspartate oxidase; Provisional; Region: PRK06175 640510008689 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 640510008690 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06978 640510008691 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 640510008692 dimerization interface [polypeptide binding]; other site 640510008693 active site 640510008694 quinolinate synthetase; Provisional; Region: PRK09375 640510008695 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 640510008696 Fatty acid desaturase; Region: FA_desaturase; pfam00487 640510008697 Di-iron ligands [ion binding]; other site 640510008698 Transposase; Region: DDE_Tnp_ISL3; pfam01610 640510008699 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 640510008700 Mechanosensitive ion channel; Region: MS_channel; pfam00924 640510008701 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 640510008702 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 640510008703 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 640510008704 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 640510008705 active site 640510008706 substrate binding site [chemical binding]; other site 640510008707 cosubstrate binding site; other site 640510008708 catalytic site [active] 640510008709 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 640510008710 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 640510008711 active site 640510008712 Riboflavin kinase; Region: Flavokinase; smart00904 640510008713 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 640510008714 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 640510008715 active site 640510008716 HIGH motif; other site 640510008717 nucleotide binding site [chemical binding]; other site 640510008718 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 640510008719 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 640510008720 active site 640510008721 KMSKS motif; other site 640510008722 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 640510008723 tRNA binding surface [nucleotide binding]; other site 640510008724 anticodon binding site; other site 640510008725 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 640510008726 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 640510008727 lipoprotein signal peptidase; Provisional; Region: PRK14787 640510008728 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 640510008729 Flavoprotein; Region: Flavoprotein; pfam02441 640510008730 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 640510008731 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 640510008732 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 640510008733 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 640510008734 trimer interface [polypeptide binding]; other site 640510008735 active site 640510008736 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 640510008737 Clp amino terminal domain; Region: Clp_N; pfam02861 640510008738 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 640510008739 Walker A motif; other site 640510008740 ATP binding site [chemical binding]; other site 640510008741 Walker B motif; other site 640510008742 arginine finger; other site 640510008743 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 640510008744 Walker A motif; other site 640510008745 ATP binding site [chemical binding]; other site 640510008746 Walker B motif; other site 640510008747 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 640510008748 Uncharacterized conserved protein [Function unknown]; Region: COG2127 640510008749 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 640510008750 DNA-binding site [nucleotide binding]; DNA binding site 640510008751 RNA-binding motif; other site 640510008752 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510008753 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 640510008754 putative effector binding pocket; other site 640510008755 putative dimerization interface [polypeptide binding]; other site 640510008756 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 640510008757 PAAR motif; Region: PAAR_motif; pfam05488 640510008758 isocitrate dehydrogenase; Validated; Region: PRK07362 640510008759 isocitrate dehydrogenase; Reviewed; Region: PRK07006 640510008760 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 640510008761 pseudouridine synthase; Region: TIGR00093 640510008762 active site 640510008763 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 640510008764 elongation factor G; Reviewed; Region: PRK00007 640510008765 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 640510008766 G1 box; other site 640510008767 putative GEF interaction site [polypeptide binding]; other site 640510008768 GTP/Mg2+ binding site [chemical binding]; other site 640510008769 Switch I region; other site 640510008770 G2 box; other site 640510008771 G3 box; other site 640510008772 Switch II region; other site 640510008773 G4 box; other site 640510008774 G5 box; other site 640510008775 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 640510008776 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 640510008777 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 640510008778 Cupin domain; Region: Cupin_2; cl17218 640510008779 High-affinity nickel permease [Inorganic ion transport and metabolism]; Region: HoxN; COG3376 640510008780 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 640510008781 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 640510008782 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 640510008783 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510008784 dimer interface [polypeptide binding]; other site 640510008785 conserved gate region; other site 640510008786 putative PBP binding loops; other site 640510008787 ABC-ATPase subunit interface; other site 640510008788 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 640510008789 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510008790 putative PBP binding loops; other site 640510008791 dimer interface [polypeptide binding]; other site 640510008792 ABC-ATPase subunit interface; other site 640510008793 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 640510008794 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640510008795 Walker A/P-loop; other site 640510008796 ATP binding site [chemical binding]; other site 640510008797 Q-loop/lid; other site 640510008798 ABC transporter signature motif; other site 640510008799 Walker B; other site 640510008800 D-loop; other site 640510008801 H-loop/switch region; other site 640510008802 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640510008803 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 640510008804 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640510008805 Walker A/P-loop; other site 640510008806 ATP binding site [chemical binding]; other site 640510008807 Q-loop/lid; other site 640510008808 ABC transporter signature motif; other site 640510008809 Walker B; other site 640510008810 D-loop; other site 640510008811 H-loop/switch region; other site 640510008812 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640510008813 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 640510008814 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 640510008815 active site 640510008816 catalytic tetrad [active] 640510008817 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 640510008818 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510008819 DNA-binding site [nucleotide binding]; DNA binding site 640510008820 UTRA domain; Region: UTRA; pfam07702 640510008821 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 640510008822 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640510008823 Helix-turn-helix domain; Region: HTH_17; pfam12728 640510008824 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 640510008825 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 640510008826 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 640510008827 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 640510008828 dimer interface [polypeptide binding]; other site 640510008829 active site 640510008830 oxalacetate/citrate binding site [chemical binding]; other site 640510008831 citrylCoA binding site [chemical binding]; other site 640510008832 coenzyme A binding site [chemical binding]; other site 640510008833 catalytic triad [active] 640510008834 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 640510008835 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 640510008836 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510008837 DNA-binding site [nucleotide binding]; DNA binding site 640510008838 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 640510008839 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510008840 homodimer interface [polypeptide binding]; other site 640510008841 catalytic residue [active] 640510008842 putative transporter; Provisional; Region: PRK10504 640510008843 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510008844 putative substrate translocation pore; other site 640510008845 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 640510008846 RNA polymerase sigma-70 factor, TIGR02957 family; Region: SigX4 640510008847 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 640510008848 DNA binding residues [nucleotide binding] 640510008849 Clp protease; Region: CLP_protease; pfam00574 640510008850 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 640510008851 oligomer interface [polypeptide binding]; other site 640510008852 active site residues [active] 640510008853 LabA_like proteins; Region: LabA_like; cd06167 640510008854 putative metal binding site [ion binding]; other site 640510008855 Uncharacterized conserved protein [Function unknown]; Region: COG1432 640510008856 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 640510008857 Glycine-zipper containing OmpA-like membrane domain; Region: Gly-zipper_OmpA; pfam13436 640510008858 superoxide dismutase; Provisional; Region: PRK10543 640510008859 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 640510008860 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 640510008861 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 640510008862 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 640510008863 generic binding surface II; other site 640510008864 generic binding surface I; other site 640510008865 tetraacyldisaccharide 4'-kinase; Provisional; Region: PRK01906 640510008866 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 640510008867 Uncharacterized conserved protein [Function unknown]; Region: COG2835 640510008868 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 640510008869 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 640510008870 Ligand binding site; other site 640510008871 oligomer interface; other site 640510008872 adenylate kinase; Reviewed; Region: adk; PRK00279 640510008873 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 640510008874 AMP-binding site [chemical binding]; other site 640510008875 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 640510008876 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 640510008877 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 640510008878 NAD binding site [chemical binding]; other site 640510008879 homodimer interface [polypeptide binding]; other site 640510008880 homotetramer interface [polypeptide binding]; other site 640510008881 active site 640510008882 Uncharacterized conserved protein [Function unknown]; Region: COG2912 640510008883 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 640510008884 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 640510008885 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 640510008886 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 640510008887 ornithine carbamoyltransferase; Provisional; Region: PRK00779 640510008888 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 640510008889 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 640510008890 argininosuccinate synthase; Provisional; Region: PRK13820 640510008891 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 640510008892 ANP binding site [chemical binding]; other site 640510008893 Substrate Binding Site II [chemical binding]; other site 640510008894 Substrate Binding Site I [chemical binding]; other site 640510008895 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 640510008896 FAD binding domain; Region: FAD_binding_4; pfam01565 640510008897 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 640510008898 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 640510008899 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 640510008900 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 640510008901 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 640510008902 putative deacylase active site [active] 640510008903 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 640510008904 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 640510008905 acyl-activating enzyme (AAE) consensus motif; other site 640510008906 AMP binding site [chemical binding]; other site 640510008907 active site 640510008908 CoA binding site [chemical binding]; other site 640510008909 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 640510008910 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 640510008911 active site 640510008912 Int/Topo IB signature motif; other site 640510008913 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 640510008914 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 640510008915 DNA binding site [nucleotide binding] 640510008916 active site 640510008917 epoxyqueuosine reductase; Region: TIGR00276 640510008918 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 640510008919 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 640510008920 AMIN domain; Region: AMIN; pfam11741 640510008921 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 640510008922 active site 640510008923 metal binding site [ion binding]; metal-binding site 640510008924 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 640510008925 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 640510008926 oligomeric interface; other site 640510008927 putative active site [active] 640510008928 homodimer interface [polypeptide binding]; other site 640510008929 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 640510008930 Pirin-related protein [General function prediction only]; Region: COG1741 640510008931 Pirin; Region: Pirin; pfam02678 640510008932 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 640510008933 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 640510008934 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 640510008935 catalytic residues [active] 640510008936 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 640510008937 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 640510008938 putative ATP binding site [chemical binding]; other site 640510008939 putative substrate interface [chemical binding]; other site 640510008940 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 640510008941 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 640510008942 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 640510008943 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 640510008944 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 640510008945 S-adenosylmethionine binding site [chemical binding]; other site 640510008946 Protein of unknown function DUF72; Region: DUF72; pfam01904 640510008947 methionine sulfoxide reductase A; Provisional; Region: PRK14054 640510008948 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 640510008949 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 640510008950 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 640510008951 putative DNA binding site [nucleotide binding]; other site 640510008952 putative Zn2+ binding site [ion binding]; other site 640510008953 AsnC family; Region: AsnC_trans_reg; pfam01037 640510008954 arylformamidase; Region: trp_arylform; TIGR03035 640510008955 Kynureninase [Amino acid transport and metabolism]; Region: COG3844 640510008956 kynureninase; Region: kynureninase; TIGR01814 640510008957 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640510008958 catalytic residue [active] 640510008959 tryptophan 2,3-dioxygenase; Region: trp_2_3_diox; TIGR03036 640510008960 short chain dehydrogenase; Provisional; Region: PRK07060 640510008961 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510008962 NAD(P) binding site [chemical binding]; other site 640510008963 active site 640510008964 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 640510008965 uncharacterized xylulose kinase-like proteins; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_XK_like_1; cd07804 640510008966 N- and C-terminal domain interface [polypeptide binding]; other site 640510008967 putative active site [active] 640510008968 MgATP binding site [chemical binding]; other site 640510008969 catalytic site [active] 640510008970 metal binding site [ion binding]; metal-binding site 640510008971 putative xylulose binding site [chemical binding]; other site 640510008972 putative homodimer interface [polypeptide binding]; other site 640510008973 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 640510008974 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH2; cd08256 640510008975 putative NAD(P) binding site [chemical binding]; other site 640510008976 catalytic Zn binding site [ion binding]; other site 640510008977 structural Zn binding site [ion binding]; other site 640510008978 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640510008979 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 640510008980 TM-ABC transporter signature motif; other site 640510008981 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 640510008982 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 640510008983 Walker A/P-loop; other site 640510008984 ATP binding site [chemical binding]; other site 640510008985 Q-loop/lid; other site 640510008986 ABC transporter signature motif; other site 640510008987 Walker B; other site 640510008988 D-loop; other site 640510008989 H-loop/switch region; other site 640510008990 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 640510008991 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_11; cd06321 640510008992 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640510008993 putative ligand binding site [chemical binding]; other site 640510008994 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 640510008995 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 640510008996 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510008997 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 640510008998 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 640510008999 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 640510009000 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 640510009001 N- and C-terminal domain interface [polypeptide binding]; other site 640510009002 D-xylulose kinase; Region: XylB; TIGR01312 640510009003 active site 640510009004 MgATP binding site [chemical binding]; other site 640510009005 catalytic site [active] 640510009006 metal binding site [ion binding]; metal-binding site 640510009007 xylulose binding site [chemical binding]; other site 640510009008 homodimer interface [polypeptide binding]; other site 640510009009 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 640510009010 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 640510009011 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 640510009012 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 640510009013 Walker A/P-loop; other site 640510009014 ATP binding site [chemical binding]; other site 640510009015 Q-loop/lid; other site 640510009016 ABC transporter signature motif; other site 640510009017 Walker B; other site 640510009018 D-loop; other site 640510009019 H-loop/switch region; other site 640510009020 TOBE domain; Region: TOBE_2; pfam08402 640510009021 TOBE domain; Region: TOBE_2; pfam08402 640510009022 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 640510009023 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 640510009024 active site 640510009025 motif I; other site 640510009026 motif II; other site 640510009027 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 640510009028 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510009029 dimer interface [polypeptide binding]; other site 640510009030 conserved gate region; other site 640510009031 putative PBP binding loops; other site 640510009032 ABC-ATPase subunit interface; other site 640510009033 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510009034 ABC-ATPase subunit interface; other site 640510009035 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 640510009036 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 640510009037 sorbitol dehydrogenase; Provisional; Region: PRK07067 640510009038 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510009039 NAD(P) binding site [chemical binding]; other site 640510009040 active site 640510009041 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 640510009042 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 640510009043 metal binding site [ion binding]; metal-binding site 640510009044 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 640510009045 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 640510009046 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 640510009047 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 640510009048 ABC-ATPase subunit interface; other site 640510009049 dimer interface [polypeptide binding]; other site 640510009050 putative PBP binding regions; other site 640510009051 S-formylglutathione hydrolase; Region: PLN02442 640510009052 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 640510009053 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 640510009054 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 640510009055 substrate binding site [chemical binding]; other site 640510009056 catalytic Zn binding site [ion binding]; other site 640510009057 NAD binding site [chemical binding]; other site 640510009058 structural Zn binding site [ion binding]; other site 640510009059 dimer interface [polypeptide binding]; other site 640510009060 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 640510009061 D-xylulose kinase; Region: XylB; TIGR01312 640510009062 nucleotide binding site [chemical binding]; other site 640510009063 xanthine permease; Region: pbuX; TIGR03173 640510009064 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640510009065 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 640510009066 Protein export membrane protein; Region: SecD_SecF; cl14618 640510009067 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 640510009068 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 640510009069 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640510009070 HlyD family secretion protein; Region: HlyD_3; pfam13437 640510009071 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 640510009072 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640510009073 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 640510009074 Isochorismatase family; Region: Isochorismatase; pfam00857 640510009075 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 640510009076 catalytic triad [active] 640510009077 conserved cis-peptide bond; other site 640510009078 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 640510009079 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 640510009080 conserved cys residue [active] 640510009081 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510009082 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 640510009083 putative hydrophobic ligand binding site [chemical binding]; other site 640510009084 Domain of unknown function (DUF427); Region: DUF427; pfam04248 640510009085 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 640510009086 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 640510009087 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 640510009088 protein binding site [polypeptide binding]; other site 640510009089 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 640510009090 protein binding site [polypeptide binding]; other site 640510009091 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640510009092 HAMP domain; Region: HAMP; pfam00672 640510009093 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 640510009094 dimer interface [polypeptide binding]; other site 640510009095 phosphorylation site [posttranslational modification] 640510009096 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510009097 ATP binding site [chemical binding]; other site 640510009098 Mg2+ binding site [ion binding]; other site 640510009099 G-X-G motif; other site 640510009100 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 640510009101 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510009102 active site 640510009103 phosphorylation site [posttranslational modification] 640510009104 intermolecular recognition site; other site 640510009105 dimerization interface [polypeptide binding]; other site 640510009106 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 640510009107 DNA binding site [nucleotide binding] 640510009108 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 640510009109 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 640510009110 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 640510009111 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 640510009112 active site 640510009113 catalytic triad [active] 640510009114 oxyanion hole [active] 640510009115 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 640510009116 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 640510009117 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 640510009118 ATP-grasp domain; Region: ATP-grasp; pfam02222 640510009119 AIR carboxylase; Region: AIRC; pfam00731 640510009120 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 640510009121 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 640510009122 ATP binding site [chemical binding]; other site 640510009123 active site 640510009124 substrate binding site [chemical binding]; other site 640510009125 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 640510009126 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 640510009127 intersubunit interface [polypeptide binding]; other site 640510009128 active site 640510009129 zinc binding site [ion binding]; other site 640510009130 Na+ binding site [ion binding]; other site 640510009131 pyruvate kinase; Provisional; Region: PRK05826 640510009132 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 640510009133 domain interfaces; other site 640510009134 active site 640510009135 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 640510009136 Phosphoglycerate kinase; Region: PGK; pfam00162 640510009137 substrate binding site [chemical binding]; other site 640510009138 hinge regions; other site 640510009139 ADP binding site [chemical binding]; other site 640510009140 catalytic site [active] 640510009141 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 640510009142 AzlC protein; Region: AzlC; pfam03591 640510009143 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 640510009144 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 640510009145 homodimer interface [polypeptide binding]; other site 640510009146 substrate-cofactor binding pocket; other site 640510009147 catalytic residue [active] 640510009148 Zinc-finger domain; Region: zf-CHCC; cl01821 640510009149 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 640510009150 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 640510009151 putative active site [active] 640510009152 SnoaL-like domain; Region: SnoaL_3; pfam13474 640510009153 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 640510009154 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 640510009155 Protein of unknown function (DUF2946); Region: DUF2944; pfam11161 640510009156 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 640510009157 Peptidase family M48; Region: Peptidase_M48; pfam01435 640510009158 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 640510009159 trimer interface [polypeptide binding]; other site 640510009160 dimer interface [polypeptide binding]; other site 640510009161 putative active site [active] 640510009162 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 640510009163 O-Antigen ligase; Region: Wzy_C; pfam04932 640510009164 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 640510009165 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 640510009166 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 640510009167 Pilin (bacterial filament); Region: Pilin; pfam00114 640510009168 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 640510009169 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 640510009170 CoA binding domain; Region: CoA_binding; smart00881 640510009171 CoA-ligase; Region: Ligase_CoA; pfam00549 640510009172 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 640510009173 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 640510009174 CoA-ligase; Region: Ligase_CoA; pfam00549 640510009175 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 640510009176 RecX family; Region: RecX; cl00936 640510009177 recombinase A; Provisional; Region: recA; PRK09354 640510009178 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 640510009179 hexamer interface [polypeptide binding]; other site 640510009180 Walker A motif; other site 640510009181 ATP binding site [chemical binding]; other site 640510009182 Walker B motif; other site 640510009183 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 640510009184 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510009185 active site 640510009186 phosphorylation site [posttranslational modification] 640510009187 intermolecular recognition site; other site 640510009188 dimerization interface [polypeptide binding]; other site 640510009189 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 640510009190 DNA binding site [nucleotide binding] 640510009191 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 640510009192 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640510009193 HAMP domain; Region: HAMP; pfam00672 640510009194 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 640510009195 dimer interface [polypeptide binding]; other site 640510009196 phosphorylation site [posttranslational modification] 640510009197 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510009198 ATP binding site [chemical binding]; other site 640510009199 Mg2+ binding site [ion binding]; other site 640510009200 G-X-G motif; other site 640510009201 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510009202 putative substrate translocation pore; other site 640510009203 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640510009204 MarR family; Region: MarR_2; pfam12802 640510009205 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 640510009206 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510009207 putative substrate translocation pore; other site 640510009208 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510009209 Transcriptional regulators [Transcription]; Region: FadR; COG2186 640510009210 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510009211 DNA-binding site [nucleotide binding]; DNA binding site 640510009212 FCD domain; Region: FCD; pfam07729 640510009213 galactonate dehydratase; Provisional; Region: PRK14017 640510009214 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 640510009215 putative active site pocket [active] 640510009216 putative metal binding site [ion binding]; other site 640510009217 CopC domain; Region: CopC; pfam04234 640510009218 Cytochrome c553 [Energy production and conversion]; Region: COG2863 640510009219 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640510009220 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640510009221 Cytochrome c; Region: Cytochrom_C; cl11414 640510009222 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640510009223 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640510009224 Cytochrome c; Region: Cytochrom_C; pfam00034 640510009225 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 640510009226 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 640510009227 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 640510009228 ATP binding site [chemical binding]; other site 640510009229 Mg++ binding site [ion binding]; other site 640510009230 motif III; other site 640510009231 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 640510009232 nucleotide binding region [chemical binding]; other site 640510009233 ATP-binding site [chemical binding]; other site 640510009234 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 640510009235 dinuclear metal binding motif [ion binding]; other site 640510009236 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 640510009237 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 640510009238 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 640510009239 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 640510009240 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 640510009241 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 640510009242 glycerol kinase; Provisional; Region: glpK; PRK00047 640510009243 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 640510009244 N- and C-terminal domain interface [polypeptide binding]; other site 640510009245 active site 640510009246 MgATP binding site [chemical binding]; other site 640510009247 catalytic site [active] 640510009248 metal binding site [ion binding]; metal-binding site 640510009249 glycerol binding site [chemical binding]; other site 640510009250 homotetramer interface [polypeptide binding]; other site 640510009251 homodimer interface [polypeptide binding]; other site 640510009252 FBP binding site [chemical binding]; other site 640510009253 protein IIAGlc interface [polypeptide binding]; other site 640510009254 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 640510009255 amphipathic channel; other site 640510009256 Asn-Pro-Ala signature motifs; other site 640510009257 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 640510009258 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 640510009259 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 640510009260 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 640510009261 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 640510009262 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 640510009263 non-specific DNA binding site [nucleotide binding]; other site 640510009264 salt bridge; other site 640510009265 sequence-specific DNA binding site [nucleotide binding]; other site 640510009266 Cupin domain; Region: Cupin_2; pfam07883 640510009267 MFS transport protein AraJ; Provisional; Region: PRK10091 640510009268 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510009269 putative substrate translocation pore; other site 640510009270 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640510009271 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 640510009272 dimer interface [polypeptide binding]; other site 640510009273 putative metal binding site [ion binding]; other site 640510009274 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510009275 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510009276 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 640510009277 putative effector binding pocket; other site 640510009278 dimerization interface [polypeptide binding]; other site 640510009279 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 640510009280 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 640510009281 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 640510009282 FeS/SAM binding site; other site 640510009283 TRAM domain; Region: TRAM; pfam01938 640510009284 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 640510009285 PhoH-like protein; Region: PhoH; pfam02562 640510009286 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 640510009287 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 640510009288 putative active site pocket [active] 640510009289 dimerization interface [polypeptide binding]; other site 640510009290 putative catalytic residue [active] 640510009291 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 640510009292 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 640510009293 Transporter associated domain; Region: CorC_HlyC; smart01091 640510009294 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 640510009295 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 640510009296 putative active site [active] 640510009297 catalytic triad [active] 640510009298 putative dimer interface [polypeptide binding]; other site 640510009299 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 640510009300 putative glutathione S-transferase; Provisional; Region: PRK10357 640510009301 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 640510009302 putative C-terminal domain interface [polypeptide binding]; other site 640510009303 putative GSH binding site (G-site) [chemical binding]; other site 640510009304 putative dimer interface [polypeptide binding]; other site 640510009305 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 640510009306 dimer interface [polypeptide binding]; other site 640510009307 N-terminal domain interface [polypeptide binding]; other site 640510009308 putative substrate binding pocket (H-site) [chemical binding]; other site 640510009309 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 640510009310 proline aminopeptidase P II; Provisional; Region: PRK10879 640510009311 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 640510009312 active site 640510009313 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 640510009314 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 640510009315 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 640510009316 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 640510009317 FMN binding site [chemical binding]; other site 640510009318 active site 640510009319 catalytic residues [active] 640510009320 substrate binding site [chemical binding]; other site 640510009321 DNA-binding protein Fis; Provisional; Region: PRK01905 640510009322 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 640510009323 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 640510009324 purine monophosphate binding site [chemical binding]; other site 640510009325 dimer interface [polypeptide binding]; other site 640510009326 putative catalytic residues [active] 640510009327 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 640510009328 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 640510009329 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 640510009330 active site 640510009331 putative DNA-binding cleft [nucleotide binding]; other site 640510009332 dimer interface [polypeptide binding]; other site 640510009333 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 640510009334 RuvA N terminal domain; Region: RuvA_N; pfam01330 640510009335 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 640510009336 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 640510009337 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 640510009338 Walker A motif; other site 640510009339 ATP binding site [chemical binding]; other site 640510009340 Walker B motif; other site 640510009341 arginine finger; other site 640510009342 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 640510009343 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 640510009344 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 640510009345 catalytic core [active] 640510009346 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 640510009347 putative active site [active] 640510009348 dimerization interface [polypeptide binding]; other site 640510009349 putative tRNAtyr binding site [nucleotide binding]; other site 640510009350 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 640510009351 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 640510009352 active site 640510009353 HIGH motif; other site 640510009354 dimer interface [polypeptide binding]; other site 640510009355 KMSKS motif; other site 640510009356 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 640510009357 RNA binding surface [nucleotide binding]; other site 640510009358 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 640510009359 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 640510009360 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 640510009361 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 640510009362 23S rRNA interface [nucleotide binding]; other site 640510009363 L3 interface [polypeptide binding]; other site 640510009364 OsmC-like protein; Region: OsmC; cl00767 640510009365 Protein of unknown function (DUF3025); Region: DUF3025; pfam11227 640510009366 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 640510009367 active site 640510009368 substrate binding pocket [chemical binding]; other site 640510009369 dimer interface [polypeptide binding]; other site 640510009370 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 640510009371 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 640510009372 putative active site [active] 640510009373 putative dimer interface [polypeptide binding]; other site 640510009374 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 640510009375 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 640510009376 Walker A/P-loop; other site 640510009377 ATP binding site [chemical binding]; other site 640510009378 Q-loop/lid; other site 640510009379 ABC transporter signature motif; other site 640510009380 Walker B; other site 640510009381 D-loop; other site 640510009382 H-loop/switch region; other site 640510009383 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640510009384 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510009385 dimer interface [polypeptide binding]; other site 640510009386 conserved gate region; other site 640510009387 putative PBP binding loops; other site 640510009388 ABC-ATPase subunit interface; other site 640510009389 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640510009390 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510009391 dimer interface [polypeptide binding]; other site 640510009392 conserved gate region; other site 640510009393 putative PBP binding loops; other site 640510009394 ABC-ATPase subunit interface; other site 640510009395 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 640510009396 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 640510009397 substrate binding pocket [chemical binding]; other site 640510009398 membrane-bound complex binding site; other site 640510009399 hinge residues; other site 640510009400 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 640510009401 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 640510009402 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 640510009403 NAD(P) binding site [chemical binding]; other site 640510009404 cell density-dependent motility repressor; Provisional; Region: PRK10082 640510009405 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510009406 The 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 640510009407 dimerization interface [polypeptide binding]; other site 640510009408 adenylosuccinate lyase; Provisional; Region: PRK09285 640510009409 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 640510009410 tetramer interface [polypeptide binding]; other site 640510009411 active site 640510009412 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 640510009413 ATP-binding site [chemical binding]; other site 640510009414 Gluconate-6-phosphate binding site [chemical binding]; other site 640510009415 Shikimate kinase; Region: SKI; pfam01202 640510009416 fructuronate transporter; Provisional; Region: PRK10034; cl15264 640510009417 GntP family permease; Region: GntP_permease; pfam02447 640510009418 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 640510009419 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 640510009420 active site 640510009421 intersubunit interface [polypeptide binding]; other site 640510009422 catalytic residue [active] 640510009423 phosphogluconate dehydratase; Validated; Region: PRK09054 640510009424 6-phosphogluconate dehydratase; Region: edd; TIGR01196 640510009425 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 640510009426 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 640510009427 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 640510009428 putative active site [active] 640510009429 Methyltransferase domain; Region: Methyltransf_23; pfam13489 640510009430 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 640510009431 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 640510009432 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 640510009433 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 640510009434 Surface antigen; Region: Bac_surface_Ag; pfam01103 640510009435 filamentous hemagglutinin family N-terminal domain; Region: adhes_NPXG; TIGR01901 640510009436 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 640510009437 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 640510009438 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 640510009439 putative catalytic cysteine [active] 640510009440 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 640510009441 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 640510009442 Lipopolysaccharide-assembly; Region: LptE; cl01125 640510009443 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 640510009444 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 640510009445 HIGH motif; other site 640510009446 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 640510009447 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 640510009448 active site 640510009449 KMSKS motif; other site 640510009450 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 640510009451 tRNA binding surface [nucleotide binding]; other site 640510009452 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 640510009453 TolR protein; Region: tolR; TIGR02801 640510009454 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 640510009455 dihydrodipicolinate reductase; Provisional; Region: PRK00048 640510009456 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 640510009457 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 640510009458 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 640510009459 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 640510009460 ferric uptake regulator; Provisional; Region: fur; PRK09462 640510009461 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 640510009462 metal binding site 2 [ion binding]; metal-binding site 640510009463 putative DNA binding helix; other site 640510009464 metal binding site 1 [ion binding]; metal-binding site 640510009465 dimer interface [polypeptide binding]; other site 640510009466 structural Zn2+ binding site [ion binding]; other site 640510009467 ureidoglycolate hydrolase; Provisional; Region: PRK03606 640510009468 allantoicase; Provisional; Region: PRK13257 640510009469 Allantoicase repeat; Region: Allantoicase; pfam03561 640510009470 Allantoicase repeat; Region: Allantoicase; pfam03561 640510009471 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK13027 640510009472 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 640510009473 Transcriptional regulators [Transcription]; Region: FadR; COG2186 640510009474 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510009475 DNA-binding site [nucleotide binding]; DNA binding site 640510009476 FCD domain; Region: FCD; pfam07729 640510009477 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 640510009478 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 640510009479 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 640510009480 transketolase; Reviewed; Region: PRK12753 640510009481 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 640510009482 TPP-binding site [chemical binding]; other site 640510009483 dimer interface [polypeptide binding]; other site 640510009484 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 640510009485 PYR/PP interface [polypeptide binding]; other site 640510009486 dimer interface [polypeptide binding]; other site 640510009487 TPP binding site [chemical binding]; other site 640510009488 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 640510009489 spermidine synthase; Provisional; Region: PRK00811 640510009490 Spermidine synthase [Amino acid transport and metabolism]; Region: SpeE; COG0421 640510009491 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 640510009492 putative dimer interface [polypeptide binding]; other site 640510009493 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 640510009494 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 640510009495 putative RNAase interaction site [polypeptide binding]; other site 640510009496 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 640510009497 active site 640510009498 barstar interaction site; other site 640510009499 malic enzyme; Reviewed; Region: PRK12862 640510009500 Malic enzyme, N-terminal domain; Region: malic; pfam00390 640510009501 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 640510009502 putative NAD(P) binding site [chemical binding]; other site 640510009503 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 640510009504 thiamine monophosphate kinase; Provisional; Region: PRK05731 640510009505 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 640510009506 ATP binding site [chemical binding]; other site 640510009507 dimerization interface [polypeptide binding]; other site 640510009508 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 640510009509 tetramer interfaces [polypeptide binding]; other site 640510009510 binuclear metal-binding site [ion binding]; other site 640510009511 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 640510009512 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 640510009513 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 640510009514 active site 640510009515 dimer interface [polypeptide binding]; other site 640510009516 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 640510009517 active site 640510009518 catalytic residues [active] 640510009519 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 640510009520 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 640510009521 classical (c) SDRs; Region: SDR_c; cd05233 640510009522 NAD(P) binding site [chemical binding]; other site 640510009523 active site 640510009524 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640510009525 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 640510009526 TM-ABC transporter signature motif; other site 640510009527 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 640510009528 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 640510009529 Walker A/P-loop; other site 640510009530 ATP binding site [chemical binding]; other site 640510009531 Q-loop/lid; other site 640510009532 ABC transporter signature motif; other site 640510009533 Walker B; other site 640510009534 D-loop; other site 640510009535 H-loop/switch region; other site 640510009536 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 640510009537 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 640510009538 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 640510009539 ligand binding site [chemical binding]; other site 640510009540 short chain dehydrogenase; Provisional; Region: PRK07063 640510009541 classical (c) SDRs; Region: SDR_c; cd05233 640510009542 NAD(P) binding site [chemical binding]; other site 640510009543 active site 640510009544 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 640510009545 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 640510009546 active site 640510009547 intersubunit interface [polypeptide binding]; other site 640510009548 catalytic residue [active] 640510009549 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 640510009550 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 640510009551 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640510009552 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 640510009553 Bacterial transcriptional regulator; Region: IclR; pfam01614 640510009554 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 640510009555 Transglycosylase; Region: Transgly; cl17702 640510009556 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 640510009557 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 640510009558 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 640510009559 shikimate binding site; other site 640510009560 NAD(P) binding site [chemical binding]; other site 640510009561 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 640510009562 RNB domain; Region: RNB; pfam00773 640510009563 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 640510009564 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640510009565 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 640510009566 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 640510009567 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 640510009568 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 640510009569 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 640510009570 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 640510009571 catalytic residues [active] 640510009572 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 640510009573 Dehydroquinase class II; Region: DHquinase_II; pfam01220 640510009574 active site 640510009575 trimer interface [polypeptide binding]; other site 640510009576 dimer interface [polypeptide binding]; other site 640510009577 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 640510009578 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 640510009579 carboxyltransferase (CT) interaction site; other site 640510009580 biotinylation site [posttranslational modification]; other site 640510009581 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 640510009582 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 640510009583 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 640510009584 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 640510009585 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 640510009586 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 640510009587 S-adenosylmethionine binding site [chemical binding]; other site 640510009588 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 640510009589 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 640510009590 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 640510009591 dimer interface [polypeptide binding]; other site 640510009592 catalytic triad [active] 640510009593 peroxidatic and resolving cysteines [active] 640510009594 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 640510009595 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 640510009596 substrate binding site [chemical binding]; other site 640510009597 ATP binding site [chemical binding]; other site 640510009598 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 640510009599 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 640510009600 dimer interface [polypeptide binding]; other site 640510009601 putative radical transfer pathway; other site 640510009602 diiron center [ion binding]; other site 640510009603 tyrosyl radical; other site 640510009604 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 640510009605 ATP cone domain; Region: ATP-cone; pfam03477 640510009606 Class I ribonucleotide reductase; Region: RNR_I; cd01679 640510009607 active site 640510009608 dimer interface [polypeptide binding]; other site 640510009609 catalytic residues [active] 640510009610 effector binding site; other site 640510009611 R2 peptide binding site; other site 640510009612 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 640510009613 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 640510009614 amidase catalytic site [active] 640510009615 Zn binding residues [ion binding]; other site 640510009616 substrate binding site [chemical binding]; other site 640510009617 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 640510009618 signal recognition particle protein; Provisional; Region: PRK10867 640510009619 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 640510009620 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 640510009621 P loop; other site 640510009622 GTP binding site [chemical binding]; other site 640510009623 Signal peptide binding domain; Region: SRP_SPB; pfam02978 640510009624 Methyl-coenzyme M reductase operon protein C; Region: MCR_C; cl01674 640510009625 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 640510009626 active site 640510009627 MarC family integral membrane protein; Region: MarC; cl00919 640510009628 prolyl-tRNA synthetase; Provisional; Region: PRK09194 640510009629 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 640510009630 dimer interface [polypeptide binding]; other site 640510009631 motif 1; other site 640510009632 active site 640510009633 motif 2; other site 640510009634 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 640510009635 putative deacylase active site [active] 640510009636 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 640510009637 active site 640510009638 motif 3; other site 640510009639 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 640510009640 anticodon binding site; other site 640510009641 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 640510009642 putative active site [active] 640510009643 Ap4A binding site [chemical binding]; other site 640510009644 nudix motif; other site 640510009645 putative metal binding site [ion binding]; other site 640510009646 CNP1-like family; Region: CNP1; pfam08750 640510009647 gamma-glutamyl kinase; Provisional; Region: PRK05429 640510009648 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 640510009649 nucleotide binding site [chemical binding]; other site 640510009650 homotetrameric interface [polypeptide binding]; other site 640510009651 putative phosphate binding site [ion binding]; other site 640510009652 putative allosteric binding site; other site 640510009653 PUA domain; Region: PUA; pfam01472 640510009654 GTPase CgtA; Reviewed; Region: obgE; PRK12299 640510009655 GTP1/OBG; Region: GTP1_OBG; pfam01018 640510009656 Obg GTPase; Region: Obg; cd01898 640510009657 G1 box; other site 640510009658 GTP/Mg2+ binding site [chemical binding]; other site 640510009659 Switch I region; other site 640510009660 G2 box; other site 640510009661 G3 box; other site 640510009662 Switch II region; other site 640510009663 G4 box; other site 640510009664 G5 box; other site 640510009665 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 640510009666 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 640510009667 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 640510009668 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 640510009669 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 640510009670 substrate binding pocket [chemical binding]; other site 640510009671 chain length determination region; other site 640510009672 substrate-Mg2+ binding site; other site 640510009673 catalytic residues [active] 640510009674 aspartate-rich region 1; other site 640510009675 active site lid residues [active] 640510009676 aspartate-rich region 2; other site 640510009677 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 640510009678 Domain of unknown function DUF21; Region: DUF21; pfam01595 640510009679 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 640510009680 Transporter associated domain; Region: CorC_HlyC; smart01091 640510009681 Type II/IV secretion system protein; Region: T2SE; pfam00437 640510009682 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 640510009683 Walker A motif; other site 640510009684 ATP binding site [chemical binding]; other site 640510009685 Walker B motif; other site 640510009686 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 640510009687 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 640510009688 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 640510009689 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 640510009690 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 640510009691 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 640510009692 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 640510009693 CoA-binding site [chemical binding]; other site 640510009694 ATP-binding [chemical binding]; other site 640510009695 hypothetical protein; Provisional; Region: PRK05287 640510009696 Domain of unknown function (DUF329); Region: DUF329; pfam03884 640510009697 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 640510009698 active site 640510009699 8-oxo-dGMP binding site [chemical binding]; other site 640510009700 nudix motif; other site 640510009701 metal binding site [ion binding]; metal-binding site 640510009702 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 640510009703 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 640510009704 Walker A motif; other site 640510009705 ATP binding site [chemical binding]; other site 640510009706 Walker B motif; other site 640510009707 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 640510009708 heterotetramer interface [polypeptide binding]; other site 640510009709 active site pocket [active] 640510009710 cleavage site 640510009711 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 640510009712 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 640510009713 SEC-C motif; Region: SEC-C; pfam02810 640510009714 Protein of unknown function (DUF721); Region: DUF721; cl02324 640510009715 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 640510009716 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 640510009717 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 640510009718 catalytic triad [active] 640510009719 dimer interface [polypeptide binding]; other site 640510009720 cell division protein FtsZ; Validated; Region: PRK09330 640510009721 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 640510009722 nucleotide binding site [chemical binding]; other site 640510009723 SulA interaction site; other site 640510009724 cell division protein FtsA; Region: ftsA; TIGR01174 640510009725 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 640510009726 nucleotide binding site [chemical binding]; other site 640510009727 Cell division protein FtsA; Region: FtsA; pfam14450 640510009728 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 640510009729 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 640510009730 Cell division protein FtsQ; Region: FtsQ; pfam03799 640510009731 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 640510009732 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 640510009733 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 640510009734 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 640510009735 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 640510009736 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 640510009737 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 640510009738 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 640510009739 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 640510009740 active site 640510009741 homodimer interface [polypeptide binding]; other site 640510009742 cell division protein FtsW; Region: ftsW; TIGR02614 640510009743 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02006 640510009744 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 640510009745 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 640510009746 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 640510009747 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 640510009748 Mg++ binding site [ion binding]; other site 640510009749 putative catalytic motif [active] 640510009750 putative substrate binding site [chemical binding]; other site 640510009751 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 640510009752 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 640510009753 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 640510009754 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 640510009755 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 640510009756 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 640510009757 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 640510009758 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 640510009759 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 640510009760 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 640510009761 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 640510009762 Cell division protein FtsL; Region: FtsL; cl11433 640510009763 MraW methylase family; Region: Methyltransf_5; cl17771 640510009764 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 640510009765 cell division protein MraZ; Reviewed; Region: PRK00326 640510009766 MraZ protein; Region: MraZ; pfam02381 640510009767 MraZ protein; Region: MraZ; pfam02381 640510009768 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 640510009769 diiron binding motif [ion binding]; other site 640510009770 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640510009771 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 640510009772 trimer interface [polypeptide binding]; other site 640510009773 eyelet of channel; other site 640510009774 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 640510009775 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 640510009776 acyl-activating enzyme (AAE) consensus motif; other site 640510009777 putative AMP binding site [chemical binding]; other site 640510009778 putative active site [active] 640510009779 putative CoA binding site [chemical binding]; other site 640510009780 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 640510009781 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 640510009782 putative [4Fe-4S] binding site [ion binding]; other site 640510009783 putative molybdopterin cofactor binding site [chemical binding]; other site 640510009784 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 640510009785 putative molybdopterin cofactor binding site; other site 640510009786 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 640510009787 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 640510009788 metal binding site [ion binding]; metal-binding site 640510009789 putative dimer interface [polypeptide binding]; other site 640510009790 enoyl-CoA hydratase; Provisional; Region: PRK05862 640510009791 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 640510009792 substrate binding site [chemical binding]; other site 640510009793 oxyanion hole (OAH) forming residues; other site 640510009794 trimer interface [polypeptide binding]; other site 640510009795 phenylacetic acid degradation protein paaN; Region: PaaN_2; TIGR02288 640510009796 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 640510009797 NAD(P) binding site [chemical binding]; other site 640510009798 catalytic residues [active] 640510009799 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 640510009800 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 640510009801 dimer interface [polypeptide binding]; other site 640510009802 active site 640510009803 enoyl-CoA hydratase; Provisional; Region: PRK08140 640510009804 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 640510009805 substrate binding site [chemical binding]; other site 640510009806 oxyanion hole (OAH) forming residues; other site 640510009807 trimer interface [polypeptide binding]; other site 640510009808 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 640510009809 CoenzymeA binding site [chemical binding]; other site 640510009810 subunit interaction site [polypeptide binding]; other site 640510009811 PHB binding site; other site 640510009812 Phenylacetate-CoA ligase (also known as PaaK); Region: PaaK; cd05913 640510009813 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 640510009814 active site 640510009815 AMP binding site [chemical binding]; other site 640510009816 homodimer interface [polypeptide binding]; other site 640510009817 acyl-activating enzyme (AAE) consensus motif; other site 640510009818 CoA binding site [chemical binding]; other site 640510009819 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 640510009820 MltA specific insert domain; Region: MltA; smart00925 640510009821 3D domain; Region: 3D; pfam06725 640510009822 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 640510009823 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 640510009824 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 640510009825 substrate binding site [chemical binding]; other site 640510009826 hexamer interface [polypeptide binding]; other site 640510009827 metal binding site [ion binding]; metal-binding site 640510009828 phosphoglycolate phosphatase; Provisional; Region: PRK13222 640510009829 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 640510009830 motif II; other site 640510009831 anthranilate synthase component I; Provisional; Region: PRK13565 640510009832 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 640510009833 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 640510009834 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 640510009835 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 640510009836 glutamine binding [chemical binding]; other site 640510009837 catalytic triad [active] 640510009838 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 640510009839 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 640510009840 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 640510009841 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 640510009842 active site 640510009843 ribulose/triose binding site [chemical binding]; other site 640510009844 phosphate binding site [ion binding]; other site 640510009845 substrate (anthranilate) binding pocket [chemical binding]; other site 640510009846 product (indole) binding pocket [chemical binding]; other site 640510009847 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 640510009848 putative active site [active] 640510009849 putative metal binding residues [ion binding]; other site 640510009850 signature motif; other site 640510009851 putative triphosphate binding site [ion binding]; other site 640510009852 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 640510009853 ligand binding site [chemical binding]; other site 640510009854 active site 640510009855 UGI interface [polypeptide binding]; other site 640510009856 catalytic site [active] 640510009857 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 640510009858 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 640510009859 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 640510009860 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 640510009861 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 640510009862 protein binding site [polypeptide binding]; other site 640510009863 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 640510009864 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 640510009865 dimerization domain [polypeptide binding]; other site 640510009866 dimer interface [polypeptide binding]; other site 640510009867 catalytic residues [active] 640510009868 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608 640510009869 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 640510009870 GTP-binding protein YchF; Reviewed; Region: PRK09601 640510009871 YchF GTPase; Region: YchF; cd01900 640510009872 G1 box; other site 640510009873 GTP/Mg2+ binding site [chemical binding]; other site 640510009874 Switch I region; other site 640510009875 G2 box; other site 640510009876 Switch II region; other site 640510009877 G3 box; other site 640510009878 G4 box; other site 640510009879 G5 box; other site 640510009880 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 640510009881 PAAR motif; Region: PAAR_motif; pfam05488 640510009882 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 640510009883 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 640510009884 glycerol-3-phosphate transporter periplasmic binding protein; Provisional; Region: PRK10974 640510009885 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510009886 dimer interface [polypeptide binding]; other site 640510009887 conserved gate region; other site 640510009888 putative PBP binding loops; other site 640510009889 ABC-ATPase subunit interface; other site 640510009890 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 640510009891 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510009892 dimer interface [polypeptide binding]; other site 640510009893 conserved gate region; other site 640510009894 putative PBP binding loops; other site 640510009895 ABC-ATPase subunit interface; other site 640510009896 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 640510009897 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 640510009898 Walker A/P-loop; other site 640510009899 ATP binding site [chemical binding]; other site 640510009900 Q-loop/lid; other site 640510009901 ABC transporter signature motif; other site 640510009902 Walker B; other site 640510009903 D-loop; other site 640510009904 H-loop/switch region; other site 640510009905 TOBE domain; Region: TOBE_2; pfam08402 640510009906 Protein of unknown function (DUF3761); Region: DUF3761; pfam12587 640510009907 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 640510009908 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640510009909 Walker A/P-loop; other site 640510009910 ATP binding site [chemical binding]; other site 640510009911 Q-loop/lid; other site 640510009912 ABC transporter signature motif; other site 640510009913 Walker B; other site 640510009914 D-loop; other site 640510009915 H-loop/switch region; other site 640510009916 ABC transporter; Region: ABC_tran_2; pfam12848 640510009917 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 640510009918 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 640510009919 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 640510009920 ?-D-glucose-1-phosphatase; Provisional; Region: PRK09456 640510009921 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 640510009922 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 640510009923 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 640510009924 active site 640510009925 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 640510009926 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510009927 active site 640510009928 dimerization interface [polypeptide binding]; other site 640510009929 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 640510009930 DNA binding site [nucleotide binding] 640510009931 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 640510009932 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 640510009933 tRNA; other site 640510009934 putative tRNA binding site [nucleotide binding]; other site 640510009935 putative NADP binding site [chemical binding]; other site 640510009936 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 640510009937 peptide chain release factor 1; Validated; Region: prfA; PRK00591 640510009938 This domain is found in peptide chain release factors; Region: PCRF; smart00937 640510009939 RF-1 domain; Region: RF-1; pfam00472 640510009940 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 640510009941 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 640510009942 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 640510009943 putative GSH binding site [chemical binding]; other site 640510009944 catalytic residues [active] 640510009945 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 640510009946 Flavoprotein; Region: Flavoprotein; pfam02441 640510009947 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 640510009948 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 640510009949 putative active site [active] 640510009950 metal binding site [ion binding]; metal-binding site 640510009951 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 640510009952 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 640510009953 DNA-binding site [nucleotide binding]; DNA binding site 640510009954 RNA-binding motif; other site 640510009955 putative chaperone; Provisional; Region: PRK11678 640510009956 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 640510009957 nucleotide binding site [chemical binding]; other site 640510009958 putative NEF/HSP70 interaction site [polypeptide binding]; other site 640510009959 SBD interface [polypeptide binding]; other site 640510009960 benzoate transport; Region: 2A0115; TIGR00895 640510009961 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510009962 putative substrate translocation pore; other site 640510009963 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510009964 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 640510009965 putative FMN binding site [chemical binding]; other site 640510009966 D-galactonate transporter; Region: 2A0114; TIGR00893 640510009967 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510009968 putative substrate translocation pore; other site 640510009969 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640510009970 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640510009971 Protein of unknown function (DUF1415); Region: DUF1415; pfam07209 640510009972 Methyltransferase domain; Region: Methyltransf_32; pfam13679 640510009973 Methyltransferase domain; Region: Methyltransf_31; pfam13847 640510009974 Protein of unknown function (DUF1059); Region: DUF1059; cl02284 640510009975 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 640510009976 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 640510009977 Methyltransferase domain; Region: Methyltransf_23; pfam13489 640510009978 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 640510009979 S-adenosylmethionine binding site [chemical binding]; other site 640510009980 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 640510009981 stringent starvation protein A; Provisional; Region: sspA; PRK09481 640510009982 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 640510009983 C-terminal domain interface [polypeptide binding]; other site 640510009984 putative GSH binding site (G-site) [chemical binding]; other site 640510009985 dimer interface [polypeptide binding]; other site 640510009986 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 640510009987 dimer interface [polypeptide binding]; other site 640510009988 N-terminal domain interface [polypeptide binding]; other site 640510009989 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 640510009990 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 640510009991 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 640510009992 Qi binding site; other site 640510009993 intrachain domain interface; other site 640510009994 interchain domain interface [polypeptide binding]; other site 640510009995 heme bH binding site [chemical binding]; other site 640510009996 heme bL binding site [chemical binding]; other site 640510009997 Qo binding site; other site 640510009998 interchain domain interface [polypeptide binding]; other site 640510009999 intrachain domain interface; other site 640510010000 Qi binding site; other site 640510010001 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 640510010002 Qo binding site; other site 640510010003 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 640510010004 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 640510010005 [2Fe-2S] cluster binding site [ion binding]; other site 640510010006 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 640510010007 Uncharacterized conserved protein [Function unknown]; Region: COG0327 640510010008 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 640510010009 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 640510010010 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 640510010011 protein binding site [polypeptide binding]; other site 640510010012 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 640510010013 sec-independent translocase; Provisional; Region: tatB; PRK01919 640510010014 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 640510010015 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 640510010016 nucleotide binding site/active site [active] 640510010017 HIT family signature motif; other site 640510010018 catalytic residue [active] 640510010019 Predicted membrane protein [Function unknown]; Region: COG3671 640510010020 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 640510010021 metal binding site [ion binding]; metal-binding site 640510010022 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 640510010023 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 640510010024 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 640510010025 substrate binding site [chemical binding]; other site 640510010026 glutamase interaction surface [polypeptide binding]; other site 640510010027 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 640510010028 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 640510010029 catalytic residues [active] 640510010030 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 640510010031 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 640510010032 putative active site [active] 640510010033 oxyanion strand; other site 640510010034 catalytic triad [active] 640510010035 MarC family integral membrane protein; Region: MarC; cl00919 640510010036 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 640510010037 putative active site pocket [active] 640510010038 4-fold oligomerization interface [polypeptide binding]; other site 640510010039 metal binding residues [ion binding]; metal-binding site 640510010040 3-fold/trimer interface [polypeptide binding]; other site 640510010041 histidinol-phosphate aminotransferase; Provisional; Region: PRK04870 640510010042 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 640510010043 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510010044 homodimer interface [polypeptide binding]; other site 640510010045 catalytic residue [active] 640510010046 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 640510010047 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 640510010048 NAD binding site [chemical binding]; other site 640510010049 dimerization interface [polypeptide binding]; other site 640510010050 product binding site; other site 640510010051 substrate binding site [chemical binding]; other site 640510010052 zinc binding site [ion binding]; other site 640510010053 catalytic residues [active] 640510010054 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 640510010055 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 640510010056 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 640510010057 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 640510010058 hinge; other site 640510010059 active site 640510010060 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 640510010061 ABC-2 type transporter; Region: ABC2_membrane; cl17235 640510010062 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 640510010063 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 640510010064 Walker A/P-loop; other site 640510010065 ATP binding site [chemical binding]; other site 640510010066 Q-loop/lid; other site 640510010067 ABC transporter signature motif; other site 640510010068 Walker B; other site 640510010069 D-loop; other site 640510010070 H-loop/switch region; other site 640510010071 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 640510010072 anti sigma factor interaction site; other site 640510010073 regulatory phosphorylation site [posttranslational modification]; other site 640510010074 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 640510010075 Surface lipoprotein [Cell envelope biogenesis, outer membrane]; Region: VacJ; COG2853 640510010076 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 640510010077 mce related protein; Region: MCE; pfam02470 640510010078 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 640510010079 Permease; Region: Permease; pfam02405 640510010080 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 640510010081 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 640510010082 Walker A/P-loop; other site 640510010083 ATP binding site [chemical binding]; other site 640510010084 Q-loop/lid; other site 640510010085 ABC transporter signature motif; other site 640510010086 Walker B; other site 640510010087 D-loop; other site 640510010088 H-loop/switch region; other site 640510010089 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 640510010090 thiamine phosphate binding site [chemical binding]; other site 640510010091 active site 640510010092 pyrophosphate binding site [ion binding]; other site 640510010093 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 640510010094 ThiS interaction site; other site 640510010095 putative active site [active] 640510010096 tetramer interface [polypeptide binding]; other site 640510010097 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 640510010098 thiS-thiF/thiG interaction site; other site 640510010099 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 640510010100 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 640510010101 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 640510010102 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 640510010103 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 640510010104 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 640510010105 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510010106 NAD(P) binding site [chemical binding]; other site 640510010107 active site 640510010108 osmolarity response regulator; Provisional; Region: ompR; PRK09468 640510010109 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510010110 active site 640510010111 phosphorylation site [posttranslational modification] 640510010112 intermolecular recognition site; other site 640510010113 dimerization interface [polypeptide binding]; other site 640510010114 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 640510010115 DNA binding site [nucleotide binding] 640510010116 Flagellar L-ring protein; Region: FlgH; pfam02107 640510010117 osmolarity response regulator; Provisional; Region: ompR; PRK09468 640510010118 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510010119 active site 640510010120 phosphorylation site [posttranslational modification] 640510010121 intermolecular recognition site; other site 640510010122 dimerization interface [polypeptide binding]; other site 640510010123 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 640510010124 DNA binding site [nucleotide binding] 640510010125 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 640510010126 dimerization interface [polypeptide binding]; other site 640510010127 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 640510010128 dimer interface [polypeptide binding]; other site 640510010129 phosphorylation site [posttranslational modification] 640510010130 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510010131 ATP binding site [chemical binding]; other site 640510010132 Mg2+ binding site [ion binding]; other site 640510010133 G-X-G motif; other site 640510010134 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 640510010135 Protein tyrosine/serine phosphatase [Signal transduction mechanisms]; Region: COG2365 640510010136 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 640510010137 benzoate transport; Region: 2A0115; TIGR00895 640510010138 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510010139 putative substrate translocation pore; other site 640510010140 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 640510010141 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640510010142 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 640510010143 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 640510010144 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 640510010145 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 640510010146 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 640510010147 active site 640510010148 dimer interface [polypeptide binding]; other site 640510010149 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 640510010150 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 640510010151 active site 640510010152 FMN binding site [chemical binding]; other site 640510010153 substrate binding site [chemical binding]; other site 640510010154 3Fe-4S cluster binding site [ion binding]; other site 640510010155 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 640510010156 domain interface; other site 640510010157 Transposase IS200 like; Region: Y1_Tnp; cl00848 640510010158 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 640510010159 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 640510010160 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 640510010161 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 640510010162 Zn2+ binding site [ion binding]; other site 640510010163 Mg2+ binding site [ion binding]; other site 640510010164 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 640510010165 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 640510010166 active site 640510010167 dimer interface [polypeptide binding]; other site 640510010168 metal binding site [ion binding]; metal-binding site 640510010169 shikimate kinase; Reviewed; Region: aroK; PRK00131 640510010170 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 640510010171 ADP binding site [chemical binding]; other site 640510010172 magnesium binding site [ion binding]; other site 640510010173 putative shikimate binding site; other site 640510010174 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 640510010175 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 640510010176 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 640510010177 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 640510010178 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 640510010179 Transglycosylase; Region: Transgly; pfam00912 640510010180 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 640510010181 frataxin-like protein; Provisional; Region: cyaY; PRK00446 640510010182 diaminopimelate decarboxylase; Region: lysA; TIGR01048 640510010183 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 640510010184 active site 640510010185 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 640510010186 substrate binding site [chemical binding]; other site 640510010187 catalytic residues [active] 640510010188 dimer interface [polypeptide binding]; other site 640510010189 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 640510010190 TMAO/DMSO reductase; Reviewed; Region: PRK05363 640510010191 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 640510010192 Moco binding site; other site 640510010193 metal coordination site [ion binding]; other site 640510010194 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 640510010195 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 640510010196 ResB-like family; Region: ResB; pfam05140 640510010197 Cytochrome c553 [Energy production and conversion]; Region: COG2863 640510010198 Cytochrome c; Region: Cytochrom_C; cl11414 640510010199 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 640510010200 G1 box; other site 640510010201 GTP/Mg2+ binding site [chemical binding]; other site 640510010202 Switch I region; other site 640510010203 G2 box; other site 640510010204 G3 box; other site 640510010205 Switch II region; other site 640510010206 G4 box; other site 640510010207 G5 box; other site 640510010208 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 640510010209 dimer interface [polypeptide binding]; other site 640510010210 active site 640510010211 aspartate-rich active site metal binding site; other site 640510010212 allosteric magnesium binding site [ion binding]; other site 640510010213 Schiff base residues; other site 640510010214 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 640510010215 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 640510010216 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 640510010217 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 640510010218 DsbD alpha interface [polypeptide binding]; other site 640510010219 catalytic residues [active] 640510010220 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 640510010221 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 640510010222 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 640510010223 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 640510010224 alphaNTD homodimer interface [polypeptide binding]; other site 640510010225 alphaNTD - beta interaction site [polypeptide binding]; other site 640510010226 alphaNTD - beta' interaction site [polypeptide binding]; other site 640510010227 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 640510010228 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 640510010229 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 640510010230 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 640510010231 RNA binding surface [nucleotide binding]; other site 640510010232 30S ribosomal protein S11; Validated; Region: PRK05309 640510010233 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 640510010234 30S ribosomal protein S13; Region: bact_S13; TIGR03631 640510010235 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 640510010236 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 640510010237 rRNA binding site [nucleotide binding]; other site 640510010238 predicted 30S ribosome binding site; other site 640510010239 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 640510010240 SecY translocase; Region: SecY; pfam00344 640510010241 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 640510010242 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 640510010243 23S rRNA binding site [nucleotide binding]; other site 640510010244 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 640510010245 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 640510010246 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 640510010247 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 640510010248 5S rRNA interface [nucleotide binding]; other site 640510010249 L27 interface [polypeptide binding]; other site 640510010250 23S rRNA interface [nucleotide binding]; other site 640510010251 L5 interface [polypeptide binding]; other site 640510010252 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 640510010253 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 640510010254 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 640510010255 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 640510010256 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 640510010257 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 640510010258 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 640510010259 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 640510010260 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 640510010261 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 640510010262 RNA binding site [nucleotide binding]; other site 640510010263 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 640510010264 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 640510010265 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 640510010266 23S rRNA interface [nucleotide binding]; other site 640510010267 putative translocon interaction site; other site 640510010268 signal recognition particle (SRP54) interaction site; other site 640510010269 L23 interface [polypeptide binding]; other site 640510010270 trigger factor interaction site; other site 640510010271 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 640510010272 23S rRNA interface [nucleotide binding]; other site 640510010273 5S rRNA interface [nucleotide binding]; other site 640510010274 putative antibiotic binding site [chemical binding]; other site 640510010275 L25 interface [polypeptide binding]; other site 640510010276 L27 interface [polypeptide binding]; other site 640510010277 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 640510010278 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 640510010279 G-X-X-G motif; other site 640510010280 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 640510010281 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 640510010282 putative translocon binding site; other site 640510010283 protein-rRNA interface [nucleotide binding]; other site 640510010284 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 640510010285 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 640510010286 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 640510010287 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 640510010288 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 640510010289 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 640510010290 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 640510010291 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 640510010292 elongation factor Tu; Reviewed; Region: PRK00049 640510010293 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 640510010294 G1 box; other site 640510010295 GEF interaction site [polypeptide binding]; other site 640510010296 GTP/Mg2+ binding site [chemical binding]; other site 640510010297 Switch I region; other site 640510010298 G2 box; other site 640510010299 G3 box; other site 640510010300 Switch II region; other site 640510010301 G4 box; other site 640510010302 G5 box; other site 640510010303 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 640510010304 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 640510010305 Antibiotic Binding Site [chemical binding]; other site 640510010306 elongation factor G; Reviewed; Region: PRK00007 640510010307 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 640510010308 G1 box; other site 640510010309 putative GEF interaction site [polypeptide binding]; other site 640510010310 GTP/Mg2+ binding site [chemical binding]; other site 640510010311 Switch I region; other site 640510010312 G2 box; other site 640510010313 G3 box; other site 640510010314 Switch II region; other site 640510010315 G4 box; other site 640510010316 G5 box; other site 640510010317 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 640510010318 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 640510010319 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 640510010320 30S ribosomal protein S7; Validated; Region: PRK05302 640510010321 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 640510010322 S17 interaction site [polypeptide binding]; other site 640510010323 S8 interaction site; other site 640510010324 16S rRNA interaction site [nucleotide binding]; other site 640510010325 streptomycin interaction site [chemical binding]; other site 640510010326 23S rRNA interaction site [nucleotide binding]; other site 640510010327 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 640510010328 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 640510010329 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 640510010330 ATP binding site [chemical binding]; other site 640510010331 putative Mg++ binding site [ion binding]; other site 640510010332 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 640510010333 nucleotide binding region [chemical binding]; other site 640510010334 ATP-binding site [chemical binding]; other site 640510010335 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 640510010336 HRDC domain; Region: HRDC; pfam00570 640510010337 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 640510010338 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 640510010339 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 640510010340 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 640510010341 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 640510010342 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 640510010343 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 640510010344 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 640510010345 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 640510010346 DNA binding site [nucleotide binding] 640510010347 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 640510010348 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 640510010349 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 640510010350 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 640510010351 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 640510010352 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 640510010353 RPB12 interaction site [polypeptide binding]; other site 640510010354 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 640510010355 RPB3 interaction site [polypeptide binding]; other site 640510010356 RPB1 interaction site [polypeptide binding]; other site 640510010357 RPB11 interaction site [polypeptide binding]; other site 640510010358 RPB10 interaction site [polypeptide binding]; other site 640510010359 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 640510010360 peripheral dimer interface [polypeptide binding]; other site 640510010361 core dimer interface [polypeptide binding]; other site 640510010362 L10 interface [polypeptide binding]; other site 640510010363 L11 interface [polypeptide binding]; other site 640510010364 putative EF-Tu interaction site [polypeptide binding]; other site 640510010365 putative EF-G interaction site [polypeptide binding]; other site 640510010366 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 640510010367 23S rRNA interface [nucleotide binding]; other site 640510010368 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 640510010369 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 640510010370 mRNA/rRNA interface [nucleotide binding]; other site 640510010371 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 640510010372 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 640510010373 23S rRNA interface [nucleotide binding]; other site 640510010374 L7/L12 interface [polypeptide binding]; other site 640510010375 putative thiostrepton binding site; other site 640510010376 L25 interface [polypeptide binding]; other site 640510010377 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 640510010378 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 640510010379 putative homodimer interface [polypeptide binding]; other site 640510010380 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 640510010381 heterodimer interface [polypeptide binding]; other site 640510010382 homodimer interface [polypeptide binding]; other site 640510010383 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 640510010384 elongation factor Tu; Reviewed; Region: PRK00049 640510010385 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 640510010386 G1 box; other site 640510010387 GEF interaction site [polypeptide binding]; other site 640510010388 GTP/Mg2+ binding site [chemical binding]; other site 640510010389 Switch I region; other site 640510010390 G2 box; other site 640510010391 G3 box; other site 640510010392 Switch II region; other site 640510010393 G4 box; other site 640510010394 G5 box; other site 640510010395 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 640510010396 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 640510010397 Antibiotic Binding Site [chemical binding]; other site 640510010398 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 640510010399 active site 640510010400 catalytic triad [active] 640510010401 oxyanion hole [active] 640510010402 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 640510010403 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 640510010404 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 640510010405 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 640510010406 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 640510010407 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 640510010408 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 640510010409 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 640510010410 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 640510010411 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 640510010412 FAD binding pocket [chemical binding]; other site 640510010413 FAD binding motif [chemical binding]; other site 640510010414 phosphate binding motif [ion binding]; other site 640510010415 beta-alpha-beta structure motif; other site 640510010416 NAD(p) ribose binding residues [chemical binding]; other site 640510010417 NAD binding pocket [chemical binding]; other site 640510010418 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 640510010419 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 640510010420 catalytic loop [active] 640510010421 iron binding site [ion binding]; other site 640510010422 Domain of unknown function (DUF1835); Region: DUF1835; pfam08874 640510010423 Protein of unknown function; Region: DUF3658; pfam12395 640510010424 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640510010425 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640510010426 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 640510010427 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640510010428 Coenzyme A binding pocket [chemical binding]; other site 640510010429 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 640510010430 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 640510010431 putative DNA binding site [nucleotide binding]; other site 640510010432 putative Zn2+ binding site [ion binding]; other site 640510010433 AsnC family; Region: AsnC_trans_reg; pfam01037 640510010434 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 640510010435 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 640510010436 dimer interface [polypeptide binding]; other site 640510010437 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 640510010438 active site 640510010439 Fe binding site [ion binding]; other site 640510010440 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 640510010441 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 640510010442 dimer interface [polypeptide binding]; other site 640510010443 PYR/PP interface [polypeptide binding]; other site 640510010444 TPP binding site [chemical binding]; other site 640510010445 substrate binding site [chemical binding]; other site 640510010446 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 640510010447 TPP-binding site; other site 640510010448 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 640510010449 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 640510010450 Malic enzyme, N-terminal domain; Region: malic; pfam00390 640510010451 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 640510010452 putative NAD(P) binding site [chemical binding]; other site 640510010453 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 640510010454 benzoate transport; Region: 2A0115; TIGR00895 640510010455 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510010456 putative substrate translocation pore; other site 640510010457 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 640510010458 active site 640510010459 transcriptional regulator RcsB; Provisional; Region: PRK10840 640510010460 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510010461 active site 640510010462 phosphorylation site [posttranslational modification] 640510010463 intermolecular recognition site; other site 640510010464 dimerization interface [polypeptide binding]; other site 640510010465 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 640510010466 DNA binding residues [nucleotide binding] 640510010467 dimerization interface [polypeptide binding]; other site 640510010468 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 640510010469 substrate binding site [chemical binding]; other site 640510010470 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 640510010471 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 640510010472 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 640510010473 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 640510010474 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 640510010475 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 640510010476 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 640510010477 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 640510010478 Ub domain fused to Mut7-C; Region: Ub-Mut7C; pfam14451 640510010479 Uncharacterized conserved protein [Function unknown]; Region: COG1656 640510010480 Protein of unknown function DUF82; Region: DUF82; pfam01927 640510010481 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 640510010482 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 640510010483 Bacterial transcriptional regulator; Region: IclR; pfam01614 640510010484 Uncharacterized protein conserved in bacteria (DUF2242); Region: DUF2242; pfam10001 640510010485 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 640510010486 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 640510010487 N-acetyl-D-glucosamine binding site [chemical binding]; other site 640510010488 catalytic residue [active] 640510010489 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 640510010490 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 640510010491 glutaminase active site [active] 640510010492 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 640510010493 dimer interface [polypeptide binding]; other site 640510010494 active site 640510010495 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 640510010496 dimer interface [polypeptide binding]; other site 640510010497 active site 640510010498 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 640510010499 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 640510010500 Substrate binding site; other site 640510010501 Mg++ binding site; other site 640510010502 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 640510010503 active site 640510010504 substrate binding site [chemical binding]; other site 640510010505 CoA binding site [chemical binding]; other site 640510010506 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 640510010507 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 640510010508 Ligand Binding Site [chemical binding]; other site 640510010509 Dihydroneopterin aldolase; Region: FolB; smart00905 640510010510 active site 640510010511 short chain dehydrogenase; Provisional; Region: PRK09134 640510010512 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510010513 NAD(P) binding site [chemical binding]; other site 640510010514 active site 640510010515 Uncharacterized conserved protein [Function unknown]; Region: COG1565 640510010516 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 640510010517 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 640510010518 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 640510010519 active site 640510010520 NTP binding site [chemical binding]; other site 640510010521 metal binding triad [ion binding]; metal-binding site 640510010522 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 640510010523 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 640510010524 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 640510010525 putative C-terminal domain interface [polypeptide binding]; other site 640510010526 putative GSH binding site (G-site) [chemical binding]; other site 640510010527 putative dimer interface [polypeptide binding]; other site 640510010528 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 640510010529 putative dimer interface [polypeptide binding]; other site 640510010530 putative N-terminal domain interface [polypeptide binding]; other site 640510010531 putative substrate binding pocket (H-site) [chemical binding]; other site 640510010532 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 640510010533 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 640510010534 putative NAD(P) binding site [chemical binding]; other site 640510010535 active site 640510010536 lytic murein transglycosylase; Provisional; Region: PRK11619 640510010537 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 640510010538 N-acetyl-D-glucosamine binding site [chemical binding]; other site 640510010539 catalytic residue [active] 640510010540 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 640510010541 MarR family; Region: MarR_2; cl17246 640510010542 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 640510010543 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 640510010544 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 640510010545 Escherichia coli putative lactam utilization protein YbgL and similar proteins; Region: LamB_YcsF_YbgL_like; cd10800 640510010546 putative active site [active] 640510010547 Protein of unknown function (DUF969); Region: DUF969; pfam06149 640510010548 Predicted membrane protein [Function unknown]; Region: COG3817 640510010549 Protein of unknown function (DUF979); Region: DUF979; pfam06166 640510010550 TPR repeat; Region: TPR_11; pfam13414 640510010551 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 640510010552 binding surface 640510010553 TPR motif; other site 640510010554 TPR repeat; Region: TPR_11; pfam13414 640510010555 TPR repeat; Region: TPR_11; pfam13414 640510010556 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 640510010557 binding surface 640510010558 TPR motif; other site 640510010559 TPR repeat; Region: TPR_11; pfam13414 640510010560 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 640510010561 binding surface 640510010562 TPR motif; other site 640510010563 Tetratricopeptide repeat; Region: TPR_12; pfam13424 640510010564 Tetratricopeptide repeat; Region: TPR_17; pfam13431 640510010565 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 640510010566 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 640510010567 PemK-like protein; Region: PemK; cl00995 640510010568 TraB family; Region: TraB; pfam01963 640510010569 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 640510010570 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640510010571 Walker A/P-loop; other site 640510010572 ATP binding site [chemical binding]; other site 640510010573 Q-loop/lid; other site 640510010574 ABC transporter signature motif; other site 640510010575 Walker B; other site 640510010576 D-loop; other site 640510010577 H-loop/switch region; other site 640510010578 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 640510010579 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 640510010580 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 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 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640510010589 dipeptide transporter; Provisional; Region: PRK10913 640510010590 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510010591 dimer interface [polypeptide binding]; other site 640510010592 conserved gate region; other site 640510010593 putative PBP binding loops; other site 640510010594 ABC-ATPase subunit interface; other site 640510010595 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 640510010596 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510010597 dimer interface [polypeptide binding]; other site 640510010598 conserved gate region; other site 640510010599 putative PBP binding loops; other site 640510010600 ABC-ATPase subunit interface; other site 640510010601 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 640510010602 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 640510010603 peptide binding site [polypeptide binding]; other site 640510010604 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 640510010605 FAD binding site [chemical binding]; other site 640510010606 Membrane protein of unknown function; Region: DUF360; pfam04020 640510010607 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 640510010608 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 640510010609 homotetramer interface [polypeptide binding]; other site 640510010610 ligand binding site [chemical binding]; other site 640510010611 catalytic site [active] 640510010612 NAD binding site [chemical binding]; other site 640510010613 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 640510010614 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 640510010615 active site 640510010616 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510010617 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510010618 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 640510010619 putative dimerization interface [polypeptide binding]; other site 640510010620 choline dehydrogenase; Validated; Region: PRK02106 640510010621 lycopene cyclase; Region: lycopene_cycl; TIGR01789 640510010622 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 640510010623 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 640510010624 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640510010625 active site 640510010626 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 640510010627 NAD(P) binding site [chemical binding]; other site 640510010628 catalytic residues [active] 640510010629 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 640510010630 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 640510010631 Flagellar protein FliT; Region: FliT; cl05125 640510010632 flagellar protein FliS; Validated; Region: fliS; PRK05685 640510010633 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 640510010634 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 640510010635 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 640510010636 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 640510010637 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 640510010638 FliG C-terminal domain; Region: FliG_C; pfam01706 640510010639 flagellar assembly protein H; Validated; Region: fliH; PRK05687 640510010640 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 640510010641 Flagellar assembly protein FliH; Region: FliH; pfam02108 640510010642 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 640510010643 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 640510010644 Walker A motif/ATP binding site; other site 640510010645 Walker B motif; other site 640510010646 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 640510010647 Flagellar FliJ protein; Region: FliJ; pfam02050 640510010648 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 640510010649 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07021 640510010650 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 640510010651 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 640510010652 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 640510010653 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 640510010654 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 640510010655 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 640510010656 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 640510010657 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 640510010658 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 640510010659 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 640510010660 Flagellar regulator YcgR; Region: YcgR; pfam07317 640510010661 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 640510010662 PilZ domain; Region: PilZ; pfam07238 640510010663 flagellar rod assembly protein/muramidase FlgJ; Provisional; Region: flgJ; PRK12709 640510010664 Rod binding protein; Region: Rod-binding; cl01626 640510010665 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 640510010666 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 640510010667 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 640510010668 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12697 640510010669 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 640510010670 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12694 640510010671 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 640510010672 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 640510010673 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 640510010674 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 640510010675 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 640510010676 flagellar hook protein FlgE; Provisional; Region: flgE; PRK12637 640510010677 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 640510010678 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 640510010679 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 640510010680 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 640510010681 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 640510010682 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 640510010683 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 640510010684 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 640510010685 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12626 640510010686 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 640510010687 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK07018 640510010688 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 640510010689 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 640510010690 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 640510010691 FlgN protein; Region: FlgN; pfam05130 640510010692 YcfA-like protein; Region: YcfA; pfam07927 640510010693 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 640510010694 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 640510010695 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 640510010696 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640510010697 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 640510010698 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 640510010699 DNA binding residues [nucleotide binding] 640510010700 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 640510010701 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 640510010702 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 640510010703 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14722 640510010704 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 640510010705 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 640510010706 FHIPEP family; Region: FHIPEP; pfam00771 640510010707 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 640510010708 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 640510010709 Protein of unknown function (DUF3443); Region: DUF3443; pfam11925 640510010710 Protein of unknown function (DUF2844); Region: DUF2844; pfam11005 640510010711 chemotaxis regulator CheZ; Provisional; Region: PRK11166 640510010712 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 640510010713 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510010714 active site 640510010715 phosphorylation site [posttranslational modification] 640510010716 intermolecular recognition site; other site 640510010717 dimerization interface [polypeptide binding]; other site 640510010718 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 640510010719 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510010720 active site 640510010721 phosphorylation site [posttranslational modification] 640510010722 intermolecular recognition site; other site 640510010723 dimerization interface [polypeptide binding]; other site 640510010724 CheB methylesterase; Region: CheB_methylest; pfam01339 640510010725 chemoreceptor glutamine deamidase CheD; Provisional; Region: PRK13489 640510010726 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 640510010727 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 640510010728 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 640510010729 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 640510010730 dimer interface [polypeptide binding]; other site 640510010731 ligand binding site [chemical binding]; other site 640510010732 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 640510010733 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 640510010734 dimerization interface [polypeptide binding]; other site 640510010735 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640510010736 dimer interface [polypeptide binding]; other site 640510010737 putative CheW interface [polypeptide binding]; other site 640510010738 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 640510010739 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 640510010740 putative binding surface; other site 640510010741 active site 640510010742 CheY binding; Region: CheY-binding; pfam09078 640510010743 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 640510010744 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510010745 ATP binding site [chemical binding]; other site 640510010746 Mg2+ binding site [ion binding]; other site 640510010747 G-X-G motif; other site 640510010748 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 640510010749 Response regulator receiver domain; Region: Response_reg; pfam00072 640510010750 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510010751 active site 640510010752 phosphorylation site [posttranslational modification] 640510010753 intermolecular recognition site; other site 640510010754 dimerization interface [polypeptide binding]; other site 640510010755 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 640510010756 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 640510010757 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640510010758 ligand binding site [chemical binding]; other site 640510010759 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 640510010760 flagellar motor protein MotA; Validated; Region: PRK09110 640510010761 transcriptional activator FlhC; Provisional; Region: PRK12722 640510010762 transcriptional activator FlhD; Provisional; Region: PRK02909 640510010763 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640510010764 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 640510010765 putative ADP-binding pocket [chemical binding]; other site 640510010766 H-NS histone family; Region: Histone_HNS; pfam00816 640510010767 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 640510010768 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 640510010769 amphipathic channel; other site 640510010770 Asn-Pro-Ala signature motifs; other site 640510010771 putative hydrolase; Provisional; Region: PRK10976 640510010772 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 640510010773 active site 640510010774 motif I; other site 640510010775 motif II; other site 640510010776 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 640510010777 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 640510010778 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 640510010779 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 640510010780 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 640510010781 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 640510010782 active site 640510010783 catalytic tetrad [active] 640510010784 flagellin; Validated; Region: PRK06819 640510010785 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 640510010786 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 640510010787 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 640510010788 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 640510010789 Flagellar protein FliT; Region: FliT; pfam05400 640510010790 Tetratricopeptide repeat; Region: TPR_16; pfam13432 640510010791 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 640510010792 binding surface 640510010793 TPR motif; other site 640510010794 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 640510010795 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 640510010796 binding surface 640510010797 TPR motif; other site 640510010798 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 640510010799 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 640510010800 TPR motif; other site 640510010801 binding surface 640510010802 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 640510010803 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 640510010804 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 640510010805 inhibitor-cofactor binding pocket; inhibition site 640510010806 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510010807 catalytic residue [active] 640510010808 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 640510010809 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 640510010810 trimer interface [polypeptide binding]; other site 640510010811 active site 640510010812 substrate binding site [chemical binding]; other site 640510010813 CoA binding site [chemical binding]; other site 640510010814 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 640510010815 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 640510010816 PYR/PP interface [polypeptide binding]; other site 640510010817 dimer interface [polypeptide binding]; other site 640510010818 TPP binding site [chemical binding]; other site 640510010819 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 640510010820 transketolase; Reviewed; Region: PRK05899 640510010821 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 640510010822 TPP-binding site [chemical binding]; other site 640510010823 dimer interface [polypeptide binding]; other site 640510010824 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 640510010825 classical (c) SDRs; Region: SDR_c; cd05233 640510010826 NAD(P) binding site [chemical binding]; other site 640510010827 active site 640510010828 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 640510010829 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 640510010830 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 640510010831 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 640510010832 NAD(P) binding site [chemical binding]; other site 640510010833 catalytic residues [active] 640510010834 Acyl-protein synthetase, LuxE; Region: LuxE; pfam04443 640510010835 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 640510010836 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 640510010837 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 640510010838 acyl-activating enzyme (AAE) consensus motif; other site 640510010839 AMP binding site [chemical binding]; other site 640510010840 active site 640510010841 CoA binding site [chemical binding]; other site 640510010842 Phosphopantetheine attachment site; Region: PP-binding; cl09936 640510010843 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 640510010844 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 640510010845 putative trimer interface [polypeptide binding]; other site 640510010846 putative CoA binding site [chemical binding]; other site 640510010847 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 640510010848 Divergent AAA domain; Region: AAA_4; pfam04326 640510010849 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 640510010850 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 640510010851 portal vertex protein; Provisional; Region: Q; PHA02536 640510010852 Phage portal protein; Region: Phage_portal; pfam04860 640510010853 terminase ATPase subunit; Provisional; Region: P; PHA02535 640510010854 Putative ATPase subunit of terminase (gpP-like); Region: Terminase_5; pfam06056 640510010855 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 640510010856 Phage capsid scaffolding protein (GPO) serine peptidase; Region: Phage_GPO; cl15838 640510010857 capsid protein; Provisional; Region: N; PHA02538 640510010858 terminase endonuclease subunit; Provisional; Region: M; PHA02537 640510010859 Phage small terminase subunit; Region: Phage_term_smal; pfam05944 640510010860 Phage head completion protein (GPL); Region: Phage_GPL; pfam05926 640510010861 Phage Tail Protein X; Region: Phage_tail_X; pfam05489 640510010862 Protein of unknown function (DUF754); Region: DUF754; pfam05449 640510010863 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 640510010864 Protein of unknown function (DUF3380); Region: DUF3380; pfam11860 640510010865 P2 phage tail completion protein R (GpR); Region: P2_Phage_GpR; pfam06891 640510010866 Phage virion morphogenesis family; Region: Phage_tail_S; pfam05069 640510010867 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 640510010868 Phage P2 baseplate assembly protein gpV [General function prediction only]; Region: gpV; COG4540 640510010869 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 640510010870 Baseplate J-like protein; Region: Baseplate_J; cl01294 640510010871 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; pfam09684 640510010872 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 640510010873 major tail sheath protein; Provisional; Region: FI; PHA02560 640510010874 major tail tube protein; Provisional; Region: FII; PHA02600 640510010875 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 640510010876 Phage P2 GpE; Region: Phage_P2_GpE; pfam06528 640510010877 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 640510010878 Phage P2 GpU; Region: Phage_P2_GpU; pfam06995 640510010879 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 640510010880 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 640510010881 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 640510010882 non-specific DNA binding site [nucleotide binding]; other site 640510010883 salt bridge; other site 640510010884 sequence-specific DNA binding site [nucleotide binding]; other site 640510010885 Uncharacterized conserved protein [Function unknown]; Region: COG5441; cl02262 640510010886 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 640510010887 DNA primase domain-containing protein; Region: PHA02415 640510010888 CHC2 zinc finger; Region: zf-CHC2; cl17510 640510010889 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 640510010890 active site 640510010891 metal binding site [ion binding]; metal-binding site 640510010892 interdomain interaction site; other site 640510010893 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 640510010894 active site 640510010895 DNA binding site [nucleotide binding] 640510010896 Int/Topo IB signature motif; other site 640510010897 Cytochrome c; Region: Cytochrom_C; cl11414 640510010898 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640510010899 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 640510010900 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 640510010901 Part of AAA domain; Region: AAA_19; pfam13245 640510010902 Family description; Region: UvrD_C_2; pfam13538 640510010903 putative oxidoreductase; Provisional; Region: PRK11579 640510010904 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 640510010905 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 640510010906 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 640510010907 POPLD (NUC188) domain; Region: POPLD; pfam08170 640510010908 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 640510010909 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 640510010910 lipoyl attachment site [posttranslational modification]; other site 640510010911 glycine dehydrogenase; Provisional; Region: PRK05367 640510010912 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 640510010913 tetramer interface [polypeptide binding]; other site 640510010914 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510010915 catalytic residue [active] 640510010916 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 640510010917 tetramer interface [polypeptide binding]; other site 640510010918 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510010919 catalytic residue [active] 640510010920 Alginate lyase; Region: Alginate_lyase; pfam05426 640510010921 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 640510010922 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 640510010923 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 640510010924 thiamine pyrophosphate protein; Validated; Region: PRK08199 640510010925 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 640510010926 PYR/PP interface [polypeptide binding]; other site 640510010927 dimer interface [polypeptide binding]; other site 640510010928 TPP binding site [chemical binding]; other site 640510010929 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 640510010930 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 640510010931 TPP-binding site [chemical binding]; other site 640510010932 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 640510010933 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640510010934 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 640510010935 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640510010936 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 640510010937 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 640510010938 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 640510010939 C-terminal domain interface [polypeptide binding]; other site 640510010940 GSH binding site (G-site) [chemical binding]; other site 640510010941 dimer interface [polypeptide binding]; other site 640510010942 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 640510010943 N-terminal domain interface [polypeptide binding]; other site 640510010944 Phospholipid methyltransferase; Region: PEMT; cl17370 640510010945 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 640510010946 Cytochrome P450; Region: p450; cl12078 640510010947 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07769 640510010948 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 640510010949 acyl-activating enzyme (AAE) consensus motif; other site 640510010950 active site 640510010951 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 640510010952 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 640510010953 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 640510010954 inhibitor-cofactor binding pocket; inhibition site 640510010955 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510010956 catalytic residue [active] 640510010957 Predicted dehydrogenase [General function prediction only]; Region: COG5322 640510010958 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 640510010959 NAD(P) binding pocket [chemical binding]; other site 640510010960 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 640510010961 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 640510010962 dimerization interface [polypeptide binding]; other site 640510010963 ligand binding site [chemical binding]; other site 640510010964 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 640510010965 Predicted transcriptional regulator [Transcription]; Region: COG3905 640510010966 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 640510010967 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 640510010968 Glutamate binding site [chemical binding]; other site 640510010969 NAD binding site [chemical binding]; other site 640510010970 catalytic residues [active] 640510010971 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 640510010972 primosome assembly protein PriA; Validated; Region: PRK05580 640510010973 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 640510010974 ATP binding site [chemical binding]; other site 640510010975 putative Mg++ binding site [ion binding]; other site 640510010976 helicase superfamily c-terminal domain; Region: HELICc; smart00490 640510010977 ATP-binding site [chemical binding]; other site 640510010978 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 640510010979 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 640510010980 substrate binding site [chemical binding]; other site 640510010981 active site 640510010982 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 640510010983 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 640510010984 substrate binding pocket [chemical binding]; other site 640510010985 membrane-bound complex binding site; other site 640510010986 hinge residues; other site 640510010987 AMP-binding domain protein; Validated; Region: PRK08315 640510010988 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 640510010989 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 640510010990 acyl-activating enzyme (AAE) consensus motif; other site 640510010991 putative AMP binding site [chemical binding]; other site 640510010992 putative active site [active] 640510010993 putative CoA binding site [chemical binding]; other site 640510010994 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 640510010995 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 640510010996 gamma subunit interface [polypeptide binding]; other site 640510010997 epsilon subunit interface [polypeptide binding]; other site 640510010998 LBP interface [polypeptide binding]; other site 640510010999 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 640510011000 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 640510011001 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 640510011002 alpha subunit interaction interface [polypeptide binding]; other site 640510011003 Walker A motif; other site 640510011004 ATP binding site [chemical binding]; other site 640510011005 Walker B motif; other site 640510011006 inhibitor binding site; inhibition site 640510011007 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 640510011008 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 640510011009 core domain interface [polypeptide binding]; other site 640510011010 delta subunit interface [polypeptide binding]; other site 640510011011 epsilon subunit interface [polypeptide binding]; other site 640510011012 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 640510011013 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 640510011014 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 640510011015 beta subunit interaction interface [polypeptide binding]; other site 640510011016 Walker A motif; other site 640510011017 ATP binding site [chemical binding]; other site 640510011018 Walker B motif; other site 640510011019 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 640510011020 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 640510011021 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 640510011022 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 640510011023 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 640510011024 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 640510011025 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 640510011026 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 640510011027 ATP synthase I chain; Region: ATP_synt_I; pfam03899 640510011028 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 640510011029 ParB-like nuclease domain; Region: ParBc; pfam02195 640510011030 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 640510011031 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 640510011032 P-loop; other site 640510011033 Magnesium ion binding site [ion binding]; other site 640510011034 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 640510011035 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 640510011036 Magnesium ion binding site [ion binding]; other site 640510011037 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 640510011038 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 640510011039 S-adenosylmethionine binding site [chemical binding]; other site 640510011040 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 640510011041 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 640510011042 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 640510011043 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 640510011044 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 640510011045 Walker A/P-loop; other site 640510011046 ATP binding site [chemical binding]; other site 640510011047 Q-loop/lid; other site 640510011048 ABC transporter signature motif; other site 640510011049 Walker B; other site 640510011050 D-loop; other site 640510011051 H-loop/switch region; other site 640510011052 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 640510011053 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 640510011054 TM-ABC transporter signature motif; other site 640510011055 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 640510011056 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 640510011057 Walker A/P-loop; other site 640510011058 ATP binding site [chemical binding]; other site 640510011059 Q-loop/lid; other site 640510011060 ABC transporter signature motif; other site 640510011061 Walker B; other site 640510011062 D-loop; other site 640510011063 H-loop/switch region; other site 640510011064 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 640510011065 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 640510011066 TM-ABC transporter signature motif; other site 640510011067 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 640510011068 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 640510011069 putative ligand binding site [chemical binding]; other site 640510011070 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 640510011071 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 640510011072 putative ligand binding site [chemical binding]; other site 640510011073 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 640510011074 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 640510011075 TM-ABC transporter signature motif; other site 640510011076 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640510011077 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 640510011078 TM-ABC transporter signature motif; other site 640510011079 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 640510011080 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 640510011081 putative ligand binding site [chemical binding]; other site 640510011082 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 640510011083 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 640510011084 Walker A/P-loop; other site 640510011085 ATP binding site [chemical binding]; other site 640510011086 Q-loop/lid; other site 640510011087 ABC transporter signature motif; other site 640510011088 Walker B; other site 640510011089 D-loop; other site 640510011090 H-loop/switch region; other site 640510011091 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 640510011092 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 640510011093 Walker A/P-loop; other site 640510011094 ATP binding site [chemical binding]; other site 640510011095 Q-loop/lid; other site 640510011096 ABC transporter signature motif; other site 640510011097 Walker B; other site 640510011098 D-loop; other site 640510011099 H-loop/switch region; other site 640510011100 choline dehydrogenase; Validated; Region: PRK02106 640510011101 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 640510011102 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 640510011103 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 640510011104 tetrameric interface [polypeptide binding]; other site 640510011105 NAD binding site [chemical binding]; other site 640510011106 catalytic residues [active] 640510011107 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510011108 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 640510011109 The 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 640510011110 dimerization interface [polypeptide binding]; other site 640510011111 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 640510011112 putative active site [active] 640510011113 putative metal binding residues [ion binding]; other site 640510011114 signature motif; other site 640510011115 putative triphosphate binding site [ion binding]; other site 640510011116 dimer interface [polypeptide binding]; other site 640510011117 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 640510011118 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 640510011119 AsnC family; Region: AsnC_trans_reg; pfam01037 640510011120 Protein of unknown function (DUF3717); Region: DUF3717; pfam12512 640510011121 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 640510011122 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510011123 active site 640510011124 phosphorylation site [posttranslational modification] 640510011125 intermolecular recognition site; other site 640510011126 dimerization interface [polypeptide binding]; other site 640510011127 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 640510011128 DNA binding site [nucleotide binding] 640510011129 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 640510011130 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640510011131 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 640510011132 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 640510011133 dimer interface [polypeptide binding]; other site 640510011134 phosphorylation site [posttranslational modification] 640510011135 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510011136 ATP binding site [chemical binding]; other site 640510011137 Mg2+ binding site [ion binding]; other site 640510011138 G-X-G motif; other site 640510011139 Proteins containing SET domain [General function prediction only]; Region: COG2940 640510011140 SET domain; Region: SET; pfam00856 640510011141 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 640510011142 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 640510011143 active site 640510011144 FMN binding site [chemical binding]; other site 640510011145 substrate binding site [chemical binding]; other site 640510011146 homotetramer interface [polypeptide binding]; other site 640510011147 catalytic residue [active] 640510011148 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 640510011149 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 640510011150 catalytic triad [active] 640510011151 Transcriptional regulators [Transcription]; Region: MarR; COG1846 640510011152 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 640510011153 putative DNA binding site [nucleotide binding]; other site 640510011154 putative Zn2+ binding site [ion binding]; other site 640510011155 gamma-glutamyl:cysteine ligase; Provisional; Region: PRK13516 640510011156 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 640510011157 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 640510011158 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 640510011159 Uncharacterized conserved protein [Function unknown]; Region: COG4121 640510011160 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 640510011161 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 640510011162 IHF dimer interface [polypeptide binding]; other site 640510011163 IHF - DNA interface [nucleotide binding]; other site 640510011164 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 640510011165 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 640510011166 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 640510011167 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 640510011168 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 640510011169 N-acetyl-D-glucosamine binding site [chemical binding]; other site 640510011170 catalytic residue [active] 640510011171 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 640510011172 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 640510011173 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 640510011174 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 640510011175 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 640510011176 type II secretion system protein E; Region: type_II_gspE; TIGR02533 640510011177 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 640510011178 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 640510011179 Walker A motif; other site 640510011180 ATP binding site [chemical binding]; other site 640510011181 Walker B motif; other site 640510011182 type II secretion system protein F; Region: GspF; TIGR02120 640510011183 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 640510011184 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 640510011185 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 640510011186 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 640510011187 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 640510011188 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 640510011189 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 640510011190 Type II transport protein GspH; Region: GspH; pfam12019 640510011191 type II secretion system protein I; Region: gspI; TIGR01707 640510011192 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 640510011193 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 640510011194 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 640510011195 GspL periplasmic domain; Region: GspL_C; pfam12693 640510011196 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 640510011197 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 640510011198 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640510011199 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640510011200 MarR family; Region: MarR_2; cl17246 640510011201 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 640510011202 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510011203 putative substrate translocation pore; other site 640510011204 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510011205 glutamate--cysteine ligase; Provisional; Region: PRK02107 640510011206 AlkA N-terminal domain; Region: AlkA_N; pfam06029 640510011207 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 640510011208 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 640510011209 minor groove reading motif; other site 640510011210 helix-hairpin-helix signature motif; other site 640510011211 substrate binding pocket [chemical binding]; other site 640510011212 active site 640510011213 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 640510011214 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 640510011215 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510011216 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 640510011217 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 640510011218 DNA binding site [nucleotide binding] 640510011219 active site 640510011220 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 640510011221 dimer interface [polypeptide binding]; other site 640510011222 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640510011223 metal binding site [ion binding]; metal-binding site 640510011224 YaeQ protein; Region: YaeQ; pfam07152 640510011225 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510011226 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510011227 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 640510011228 putative dimerization interface [polypeptide binding]; other site 640510011229 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 640510011230 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640510011231 NAD(P) binding site [chemical binding]; other site 640510011232 catalytic residues [active] 640510011233 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 640510011234 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 640510011235 ligand binding site [chemical binding]; other site 640510011236 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 640510011237 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 640510011238 Walker A/P-loop; other site 640510011239 ATP binding site [chemical binding]; other site 640510011240 Q-loop/lid; other site 640510011241 ABC transporter signature motif; other site 640510011242 Walker B; other site 640510011243 D-loop; other site 640510011244 H-loop/switch region; other site 640510011245 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 640510011246 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640510011247 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 640510011248 TM-ABC transporter signature motif; other site 640510011249 dihydroxy-acid dehydratase; Validated; Region: PRK06131 640510011250 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 640510011251 HIT family signature motif; other site 640510011252 catalytic residue [active] 640510011253 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 640510011254 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 640510011255 putative DNA binding site [nucleotide binding]; other site 640510011256 putative Zn2+ binding site [ion binding]; other site 640510011257 AsnC family; Region: AsnC_trans_reg; pfam01037 640510011258 2-oxoacid dehydrogenase subunit E1; Provisional; Region: PRK13012 640510011259 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 640510011260 dimer interface [polypeptide binding]; other site 640510011261 TPP-binding site [chemical binding]; other site 640510011262 Transketolase, pyrimidine binding domain; Region: Transket_pyr; smart00861 640510011263 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 640510011264 active site 640510011265 Int/Topo IB signature motif; other site 640510011266 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 640510011267 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 640510011268 trmE is a tRNA modification GTPase; Region: trmE; cd04164 640510011269 G1 box; other site 640510011270 GTP/Mg2+ binding site [chemical binding]; other site 640510011271 Switch I region; other site 640510011272 G2 box; other site 640510011273 Switch II region; other site 640510011274 G3 box; other site 640510011275 G4 box; other site 640510011276 G5 box; other site 640510011277 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 640510011278 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 640510011279 sequence-specific DNA binding site [nucleotide binding]; other site 640510011280 salt bridge; other site 640510011281 membrane protein insertase; Provisional; Region: PRK01318 640510011282 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 640510011283 hypothetical protein; Validated; Region: PRK00041 640510011284 Ribonuclease P; Region: Ribonuclease_P; cl00457 640510011285 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 640510011286 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 640510011287 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 640510011288 trehalose synthase; Region: treS_nterm; TIGR02456 640510011289 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 640510011290 active site 640510011291 catalytic site [active] 640510011292 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 640510011293 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 640510011294 active site 640510011295 catalytic site [active] 640510011296 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 640510011297 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510011298 ATP binding site [chemical binding]; other site 640510011299 Mg2+ binding site [ion binding]; other site 640510011300 G-X-G motif; other site 640510011301 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 640510011302 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640510011303 PAS domain; Region: PAS; smart00091 640510011304 PAS fold; Region: PAS_4; pfam08448 640510011305 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640510011306 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 640510011307 dimer interface [polypeptide binding]; other site 640510011308 phosphorylation site [posttranslational modification] 640510011309 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510011310 ATP binding site [chemical binding]; other site 640510011311 G-X-G motif; other site 640510011312 Response regulator receiver domain; Region: Response_reg; pfam00072 640510011313 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510011314 active site 640510011315 phosphorylation site [posttranslational modification] 640510011316 intermolecular recognition site; other site 640510011317 dimerization interface [polypeptide binding]; other site 640510011318 Chemotaxis phosphatase CheX; Region: CheX; cl15816 640510011319 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 640510011320 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510011321 active site 640510011322 phosphorylation site [posttranslational modification] 640510011323 intermolecular recognition site; other site 640510011324 dimerization interface [polypeptide binding]; other site 640510011325 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 640510011326 Zn2+ binding site [ion binding]; other site 640510011327 Mg2+ binding site [ion binding]; other site 640510011328 Protein of unknown function DUF72; Region: DUF72; pfam01904 640510011329 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 640510011330 Fe-S cluster binding site [ion binding]; other site 640510011331 active site 640510011332 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 640510011333 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 640510011334 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 640510011335 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 640510011336 Flavin binding site [chemical binding]; other site 640510011337 Protein of unknown function, DUF480; Region: DUF480; pfam04337 640510011338 D-amino acid dehydrogenase small subunit; Provisional; Region: PRK12409 640510011339 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 640510011340 hydroxyglutarate oxidase; Provisional; Region: PRK11728 640510011341 BON domain; Region: BON; pfam04972 640510011342 Acetokinase family; Region: Acetate_kinase; cl17229 640510011343 putative phosphoketolase; Provisional; Region: PRK05261 640510011344 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 640510011345 TPP-binding site; other site 640510011346 XFP C-terminal domain; Region: XFP_C; pfam09363 640510011347 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 640510011348 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 640510011349 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 640510011350 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 640510011351 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 640510011352 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 640510011353 sugar efflux transporter; Region: 2A0120; TIGR00899 640510011354 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510011355 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 640510011356 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 640510011357 catalytic residues [active] 640510011358 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 640510011359 Fructose-1,6-bisphosphate aldolase; Region: FBP_aldolase_I_a; cd00948 640510011360 active site 640510011361 intersubunit interface [polypeptide binding]; other site 640510011362 catalytic residue [active] 640510011363 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640510011364 His Kinase A (phosphoacceptor) domain; Region: HisKA; smart00388 640510011365 dimer interface [polypeptide binding]; other site 640510011366 phosphorylation site [posttranslational modification] 640510011367 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510011368 ATP binding site [chemical binding]; other site 640510011369 Mg2+ binding site [ion binding]; other site 640510011370 G-X-G motif; other site 640510011371 Response regulator receiver domain; Region: Response_reg; pfam00072 640510011372 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510011373 active site 640510011374 phosphorylation site [posttranslational modification] 640510011375 intermolecular recognition site; other site 640510011376 dimerization interface [polypeptide binding]; other site 640510011377 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 640510011378 iron-sulfur cluster [ion binding]; other site 640510011379 [2Fe-2S] cluster binding site [ion binding]; other site 640510011380 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 640510011381 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640510011382 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 640510011383 Domain of unknown function DUF20; Region: UPF0118; pfam01594 640510011384 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 640510011385 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 640510011386 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 640510011387 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 640510011388 active site 640510011389 catalytic site [active] 640510011390 PRC-barrel domain; Region: PRC; pfam05239 640510011391 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 640510011392 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 640510011393 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640510011394 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 640510011395 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 640510011396 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 640510011397 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 640510011398 catalytic loop [active] 640510011399 iron binding site [ion binding]; other site 640510011400 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 640510011401 short chain dehydrogenase; Provisional; Region: PRK06701 640510011402 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 640510011403 NAD binding site [chemical binding]; other site 640510011404 metal binding site [ion binding]; metal-binding site 640510011405 active site 640510011406 Response regulator receiver domain; Region: Response_reg; pfam00072 640510011407 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510011408 active site 640510011409 phosphorylation site [posttranslational modification] 640510011410 intermolecular recognition site; other site 640510011411 dimerization interface [polypeptide binding]; other site 640510011412 ATP-dependent DNA ligase; Validated; Region: PRK09247 640510011413 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 640510011414 active site 640510011415 DNA binding site [nucleotide binding] 640510011416 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 640510011417 DNA binding site [nucleotide binding] 640510011418 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 640510011419 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 640510011420 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 640510011421 Predicted ATPase [General function prediction only]; Region: COG1485 640510011422 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 640510011423 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 640510011424 TPP-binding site [chemical binding]; other site 640510011425 dimer interface [polypeptide binding]; other site 640510011426 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 640510011427 PYR/PP interface [polypeptide binding]; other site 640510011428 dimer interface [polypeptide binding]; other site 640510011429 TPP binding site [chemical binding]; other site 640510011430 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 640510011431 Uncharacterized protein containing double-stranded beta helix domain [Function unknown]; Region: COG4297 640510011432 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 640510011433 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640510011434 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 640510011435 trimer interface [polypeptide binding]; other site 640510011436 eyelet of channel; other site 640510011437 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 640510011438 Walker A motif; other site 640510011439 ATP binding site [chemical binding]; other site 640510011440 Walker B motif; other site 640510011441 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 640510011442 metal ion-dependent adhesion site (MIDAS); other site 640510011443 MarC family integral membrane protein; Region: MarC; cl00919 640510011444 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 640510011445 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 640510011446 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 640510011447 Na binding site [ion binding]; other site 640510011448 glycogen synthase; Provisional; Region: glgA; PRK00654 640510011449 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 640510011450 ADP-binding pocket [chemical binding]; other site 640510011451 homodimer interface [polypeptide binding]; other site 640510011452 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640510011453 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640510011454 metal binding site [ion binding]; metal-binding site 640510011455 active site 640510011456 I-site; other site 640510011457 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 640510011458 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 640510011459 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 640510011460 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 640510011461 active site 640510011462 metal binding site [ion binding]; metal-binding site 640510011463 Peptidase family M1; Region: Peptidase_M1; pfam01433 640510011464 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 640510011465 Zn binding site [ion binding]; other site 640510011466 Epoxide hydrolase N terminus; Region: EHN; pfam06441 640510011467 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 640510011468 LrgA family; Region: LrgA; pfam03788 640510011469 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 640510011470 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 640510011471 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 640510011472 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 640510011473 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 640510011474 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 640510011475 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 640510011476 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 640510011477 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 640510011478 Neutral trehalase [Carbohydrate transport and metabolism]; Region: TreA; COG1626 640510011479 Trehalase; Region: Trehalase; cl17346 640510011480 Alkylated DNA repair protein [DNA replication, recombination, and repair]; Region: AlkB; COG3145 640510011481 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 640510011482 active site clefts [active] 640510011483 zinc binding site [ion binding]; other site 640510011484 dimer interface [polypeptide binding]; other site 640510011485 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 640510011486 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640510011487 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510011488 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510011489 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 640510011490 active site 640510011491 SAM binding site [chemical binding]; other site 640510011492 homodimer interface [polypeptide binding]; other site 640510011493 cobalt-precorrin-6x reductase; Reviewed; Region: PRK08057 640510011494 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 640510011495 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 640510011496 active site 640510011497 putative homodimer interface [polypeptide binding]; other site 640510011498 SAM binding site [chemical binding]; other site 640510011499 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 640510011500 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 640510011501 S-adenosylmethionine binding site [chemical binding]; other site 640510011502 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 640510011503 precorrin-3B synthase; Region: CobG; TIGR02435 640510011504 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 640510011505 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 640510011506 Precorrin-8X methylmutase; Region: CbiC; pfam02570 640510011507 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 640510011508 active site 640510011509 SAM binding site [chemical binding]; other site 640510011510 homodimer interface [polypeptide binding]; other site 640510011511 Cobalamin biosynthesis protein CbiG [Coenzyme metabolism]; Region: CbiG; COG2073 640510011512 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 640510011513 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 640510011514 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 640510011515 active site 640510011516 SAM binding site [chemical binding]; other site 640510011517 homodimer interface [polypeptide binding]; other site 640510011518 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640510011519 AAA domain; Region: AAA_23; pfam13476 640510011520 Walker A/P-loop; other site 640510011521 ATP binding site [chemical binding]; other site 640510011522 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640510011523 Q-loop/lid; other site 640510011524 ABC transporter signature motif; other site 640510011525 Walker B; other site 640510011526 D-loop; other site 640510011527 H-loop/switch region; other site 640510011528 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 640510011529 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 640510011530 active site 640510011531 metal binding site [ion binding]; metal-binding site 640510011532 DNA binding site [nucleotide binding] 640510011533 Protein of unknown function (DUF445); Region: DUF445; pfam04286 640510011534 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 640510011535 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 640510011536 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 640510011537 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 640510011538 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 640510011539 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 640510011540 aldolase II superfamily protein; Provisional; Region: PRK07044 640510011541 intersubunit interface [polypeptide binding]; other site 640510011542 active site 640510011543 Zn2+ binding site [ion binding]; other site 640510011544 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 640510011545 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 640510011546 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510011547 homodimer interface [polypeptide binding]; other site 640510011548 catalytic residue [active] 640510011549 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510011550 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510011551 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 640510011552 putative dimerization interface [polypeptide binding]; other site 640510011553 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 640510011554 DNA binding residues [nucleotide binding] 640510011555 dimerization interface [polypeptide binding]; other site 640510011556 Response regulator receiver domain; Region: Response_reg; pfam00072 640510011557 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510011558 active site 640510011559 phosphorylation site [posttranslational modification] 640510011560 intermolecular recognition site; other site 640510011561 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640510011562 dimerization interface [polypeptide binding]; other site 640510011563 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 640510011564 dimer interface [polypeptide binding]; other site 640510011565 phosphorylation site [posttranslational modification] 640510011566 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510011567 ATP binding site [chemical binding]; other site 640510011568 Mg2+ binding site [ion binding]; other site 640510011569 G-X-G motif; other site 640510011570 CheB methylesterase; Region: CheB_methylest; pfam01339 640510011571 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 640510011572 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 640510011573 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 640510011574 CHASE3 domain; Region: CHASE3; pfam05227 640510011575 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 640510011576 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 640510011577 dimer interface [polypeptide binding]; other site 640510011578 phosphorylation site [posttranslational modification] 640510011579 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510011580 ATP binding site [chemical binding]; other site 640510011581 Mg2+ binding site [ion binding]; other site 640510011582 G-X-G motif; other site 640510011583 Response regulator receiver domain; Region: Response_reg; pfam00072 640510011584 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510011585 active site 640510011586 phosphorylation site [posttranslational modification] 640510011587 intermolecular recognition site; other site 640510011588 dimerization interface [polypeptide binding]; other site 640510011589 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 640510011590 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510011591 active site 640510011592 phosphorylation site [posttranslational modification] 640510011593 intermolecular recognition site; other site 640510011594 dimerization interface [polypeptide binding]; other site 640510011595 Response regulator receiver domain; Region: Response_reg; pfam00072 640510011596 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510011597 active site 640510011598 phosphorylation site [posttranslational modification] 640510011599 intermolecular recognition site; other site 640510011600 dimerization interface [polypeptide binding]; other site 640510011601 Trehalase; Region: Trehalase; cl17346 640510011602 MltA-interacting protein MipA; Region: MipA; cl01504 640510011603 methionine sulfoxide reductase A; Provisional; Region: PRK13014 640510011604 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 640510011605 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 640510011606 putative DNA binding site [nucleotide binding]; other site 640510011607 putative Zn2+ binding site [ion binding]; other site 640510011608 AsnC family; Region: AsnC_trans_reg; pfam01037 640510011609 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 640510011610 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 640510011611 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510011612 catalytic residue [active] 640510011613 LysR family transcriptional regulator; Provisional; Region: PRK14997 640510011614 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510011615 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 640510011616 putative effector binding pocket; other site 640510011617 dimerization interface [polypeptide binding]; other site 640510011618 Pirin-related protein [General function prediction only]; Region: COG1741 640510011619 Pirin; Region: Pirin; pfam02678 640510011620 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 640510011621 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 640510011622 catalytic residue [active] 640510011623 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 640510011624 catalytic residues [active] 640510011625 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 640510011626 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640510011627 peroxiredoxin; Region: AhpC; TIGR03137 640510011628 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 640510011629 dimer interface [polypeptide binding]; other site 640510011630 decamer (pentamer of dimers) interface [polypeptide binding]; other site 640510011631 catalytic triad [active] 640510011632 peroxidatic and resolving cysteines [active] 640510011633 Propionate catabolism activator; Region: PrpR_N; pfam06506 640510011634 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 640510011635 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 640510011636 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 640510011637 Walker A motif; other site 640510011638 ATP binding site [chemical binding]; other site 640510011639 Walker B motif; other site 640510011640 arginine finger; other site 640510011641 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 640510011642 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 640510011643 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 640510011644 tetramer interface [polypeptide binding]; other site 640510011645 active site 640510011646 Mg2+/Mn2+ binding site [ion binding]; other site 640510011647 putative transporter; Provisional; Region: PRK10504 640510011648 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510011649 putative substrate translocation pore; other site 640510011650 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640510011651 Coenzyme A binding pocket [chemical binding]; other site 640510011652 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 640510011653 SnoaL-like domain; Region: SnoaL_2; pfam12680 640510011654 putative nicotinate phosphoribosyltransferase; Provisional; Region: PRK09198 640510011655 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 640510011656 active site 640510011657 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 640510011658 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 640510011659 Walker A motif; other site 640510011660 ATP binding site [chemical binding]; other site 640510011661 Walker B motif; other site 640510011662 arginine finger; other site 640510011663 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 640510011664 Mechanosensitive ion channel; Region: MS_channel; pfam00924 640510011665 DNA repair helicase (rad3); Region: rad3; TIGR00604 640510011666 DEAD/DEAH box helicase; Region: DEAD; pfam00270 640510011667 ATP binding site [chemical binding]; other site 640510011668 DEAD_2; Region: DEAD_2; pfam06733 640510011669 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 640510011670 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 640510011671 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 640510011672 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 640510011673 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 640510011674 4Fe-4S binding domain; Region: Fer4; pfam00037 640510011675 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 640510011676 Cysteine-rich domain; Region: CCG; pfam02754 640510011677 Cysteine-rich domain; Region: CCG; pfam02754 640510011678 Transcriptional regulators [Transcription]; Region: FadR; COG2186 640510011679 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510011680 DNA-binding site [nucleotide binding]; DNA binding site 640510011681 FCD domain; Region: FCD; pfam07729 640510011682 aspartate aminotransferase; Provisional; Region: PRK05764 640510011683 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 640510011684 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510011685 homodimer interface [polypeptide binding]; other site 640510011686 catalytic residue [active] 640510011687 RNA polymerase factor sigma-54; Provisional; Region: PRK12469 640510011688 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 640510011689 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 640510011690 BON domain; Region: BON; pfam04972 640510011691 Domain of unknown function (DUF2383); Region: DUF2383; cl17556 640510011692 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 640510011693 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 640510011694 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 640510011695 intracellular protease, PfpI family; Region: PfpI; TIGR01382 640510011696 proposed catalytic triad [active] 640510011697 conserved cys residue [active] 640510011698 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 640510011699 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 640510011700 active site 640510011701 DNA binding site [nucleotide binding] 640510011702 Int/Topo IB signature motif; other site 640510011703 catalytic residues [active] 640510011704 PRC-barrel domain; Region: PRC; pfam05239 640510011705 Protein of unknown function (DUF3175); Region: DUF3175; pfam11373 640510011706 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 640510011707 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 640510011708 Cupin; Region: Cupin_6; pfam12852 640510011709 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640510011710 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510011711 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 640510011712 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 640510011713 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 640510011714 active site 640510011715 catalytic tetrad [active] 640510011716 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 640510011717 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 640510011718 ATP binding site [chemical binding]; other site 640510011719 putative Mg++ binding site [ion binding]; other site 640510011720 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 640510011721 nucleotide binding region [chemical binding]; other site 640510011722 ATP-binding site [chemical binding]; other site 640510011723 DEAD/H associated; Region: DEAD_assoc; pfam08494 640510011724 RNase II stability modulator; Provisional; Region: PRK10060 640510011725 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 640510011726 putative active site [active] 640510011727 heme pocket [chemical binding]; other site 640510011728 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640510011729 metal binding site [ion binding]; metal-binding site 640510011730 active site 640510011731 I-site; other site 640510011732 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 640510011733 enoyl-CoA hydratase; Validated; Region: PRK08788 640510011734 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 640510011735 substrate binding site [chemical binding]; other site 640510011736 oxyanion hole (OAH) forming residues; other site 640510011737 trimer interface [polypeptide binding]; other site 640510011738 putative dehydrogenase; Provisional; Region: PRK10098 640510011739 hypothetical protein; Provisional; Region: PRK07907 640510011740 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_5; cd05682 640510011741 metal binding site [ion binding]; metal-binding site 640510011742 putative dimer interface [polypeptide binding]; other site 640510011743 Superinfection immunity protein; Region: Imm_superinfect; pfam14373 640510011744 Uncharacterized small protein (DUF2158); Region: DUF2158; pfam09926 640510011745 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510011746 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510011747 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640510011748 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640510011749 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 640510011750 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 640510011751 tetramer interface [polypeptide binding]; other site 640510011752 active site 640510011753 Mg2+/Mn2+ binding site [ion binding]; other site 640510011754 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 640510011755 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 640510011756 hypothetical protein; Provisional; Region: PRK07483 640510011757 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 640510011758 inhibitor-cofactor binding pocket; inhibition site 640510011759 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510011760 catalytic residue [active] 640510011761 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 640510011762 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 640510011763 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 640510011764 putative active site [active] 640510011765 PAS domain; Region: PAS; smart00091 640510011766 PAS fold; Region: PAS_7; pfam12860 640510011767 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640510011768 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640510011769 metal binding site [ion binding]; metal-binding site 640510011770 active site 640510011771 I-site; other site 640510011772 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 640510011773 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 640510011774 rod shape-determining protein MreB; Provisional; Region: PRK13930 640510011775 MreB and similar proteins; Region: MreB_like; cd10225 640510011776 nucleotide binding site [chemical binding]; other site 640510011777 Mg binding site [ion binding]; other site 640510011778 putative protofilament interaction site [polypeptide binding]; other site 640510011779 RodZ interaction site [polypeptide binding]; other site 640510011780 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 640510011781 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510011782 putative substrate translocation pore; other site 640510011783 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510011784 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 640510011785 glutaminase; Provisional; Region: PRK00971 640510011786 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 640510011787 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 640510011788 glutaminase active site [active] 640510011789 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 640510011790 dimer interface [polypeptide binding]; other site 640510011791 active site 640510011792 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 640510011793 dimer interface [polypeptide binding]; other site 640510011794 active site 640510011795 Haloacid Dehalogenase Superfamily Class (subfamily) IIA; Region: HAD-SF-IIA; TIGR01460 640510011796 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 640510011797 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510011798 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510011799 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640510011800 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 640510011801 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510011802 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510011803 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 640510011804 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 640510011805 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 640510011806 active site 640510011807 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510011808 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510011809 The 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 640510011810 dimerization interface [polypeptide binding]; other site 640510011811 metabolite-proton symporter; Region: 2A0106; TIGR00883 640510011812 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 640510011813 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 640510011814 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 640510011815 enoyl-CoA hydratase; Provisional; Region: PRK06688 640510011816 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 640510011817 substrate binding site [chemical binding]; other site 640510011818 oxyanion hole (OAH) forming residues; other site 640510011819 trimer interface [polypeptide binding]; other site 640510011820 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 640510011821 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 640510011822 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 640510011823 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 640510011824 acyl-activating enzyme (AAE) consensus motif; other site 640510011825 acyl-activating enzyme (AAE) consensus motif; other site 640510011826 putative AMP binding site [chemical binding]; other site 640510011827 putative active site [active] 640510011828 putative CoA binding site [chemical binding]; other site 640510011829 4-hydroxybenzoyl-CoA reductase, gamma subunit; Region: 4hydroxCoAred; TIGR03193 640510011830 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 640510011831 catalytic loop [active] 640510011832 iron binding site [ion binding]; other site 640510011833 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 640510011834 FAD binding domain in molybdopterin dehydrogenase; Region: FAD_binding_5; pfam00941 640510011835 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 640510011836 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 640510011837 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 640510011838 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640510011839 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 640510011840 putative hydrophobic ligand binding site [chemical binding]; other site 640510011841 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 640510011842 Flavoprotein; Region: Flavoprotein; pfam02441 640510011843 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; pfam01977 640510011844 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510011845 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510011846 The 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 640510011847 dimerization interface [polypeptide binding]; other site 640510011848 acetylornithine deacetylase; Provisional; Region: PRK07522 640510011849 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 640510011850 metal binding site [ion binding]; metal-binding site 640510011851 putative dimer interface [polypeptide binding]; other site 640510011852 Uncharacterized conserved protein [Function unknown]; Region: COG3342 640510011853 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 640510011854 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 640510011855 homotrimer interaction site [polypeptide binding]; other site 640510011856 putative active site [active] 640510011857 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 640510011858 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 640510011859 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510011860 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510011861 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 640510011862 putative substrate binding pocket [chemical binding]; other site 640510011863 dimerization interface [polypeptide binding]; other site 640510011864 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 640510011865 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 640510011866 [2Fe-2S] cluster binding site [ion binding]; other site 640510011867 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 640510011868 putative alpha subunit interface [polypeptide binding]; other site 640510011869 putative active site [active] 640510011870 putative substrate binding site [chemical binding]; other site 640510011871 Fe binding site [ion binding]; other site 640510011872 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 640510011873 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 640510011874 Walker A/P-loop; other site 640510011875 ATP binding site [chemical binding]; other site 640510011876 Q-loop/lid; other site 640510011877 ABC transporter signature motif; other site 640510011878 Walker B; other site 640510011879 D-loop; other site 640510011880 H-loop/switch region; other site 640510011881 TOBE domain; Region: TOBE_2; pfam08402 640510011882 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 640510011883 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 640510011884 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510011885 dimer interface [polypeptide binding]; other site 640510011886 conserved gate region; other site 640510011887 putative PBP binding loops; other site 640510011888 ABC-ATPase subunit interface; other site 640510011889 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 640510011890 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510011891 conserved gate region; other site 640510011892 dimer interface [polypeptide binding]; other site 640510011893 putative PBP binding loops; other site 640510011894 ABC-ATPase subunit interface; other site 640510011895 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510011896 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510011897 The 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 640510011898 dimerization interface [polypeptide binding]; other site 640510011899 hypothetical protein; Provisional; Region: PRK07079 640510011900 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_2; cd05679 640510011901 metal binding site [ion binding]; metal-binding site 640510011902 putative dimer interface [polypeptide binding]; other site 640510011903 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510011904 metabolite-proton symporter; Region: 2A0106; TIGR00883 640510011905 putative substrate translocation pore; other site 640510011906 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 640510011907 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640510011908 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510011909 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640510011910 putative substrate translocation pore; other site 640510011911 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 640510011912 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510011913 active site 640510011914 phosphorylation site [posttranslational modification] 640510011915 intermolecular recognition site; other site 640510011916 dimerization interface [polypeptide binding]; other site 640510011917 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 640510011918 Walker A motif; other site 640510011919 ATP binding site [chemical binding]; other site 640510011920 Walker B motif; other site 640510011921 arginine finger; other site 640510011922 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 640510011923 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640510011924 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 640510011925 dimer interface [polypeptide binding]; other site 640510011926 phosphorylation site [posttranslational modification] 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 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 640510011932 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 640510011933 dimer interface [polypeptide binding]; other site 640510011934 phosphorylation site [posttranslational modification] 640510011935 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510011936 ATP binding site [chemical binding]; other site 640510011937 Mg2+ binding site [ion binding]; other site 640510011938 G-X-G motif; other site 640510011939 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510011940 osmolarity response regulator; Provisional; Region: ompR; PRK09468 640510011941 active site 640510011942 phosphorylation site [posttranslational modification] 640510011943 intermolecular recognition site; other site 640510011944 dimerization interface [polypeptide binding]; other site 640510011945 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 640510011946 DNA binding site [nucleotide binding] 640510011947 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 640510011948 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640510011949 HlyD family secretion protein; Region: HlyD_3; pfam13437 640510011950 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 640510011951 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 640510011952 Predicted transcriptional regulators [Transcription]; Region: COG1695 640510011953 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 640510011954 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 640510011955 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 640510011956 FAD binding pocket [chemical binding]; other site 640510011957 FAD binding motif [chemical binding]; other site 640510011958 phosphate binding motif [ion binding]; other site 640510011959 NAD binding pocket [chemical binding]; other site 640510011960 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 640510011961 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510011962 putative substrate translocation pore; other site 640510011963 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 640510011964 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 640510011965 substrate binding site [chemical binding]; other site 640510011966 oxyanion hole (OAH) forming residues; other site 640510011967 trimer interface [polypeptide binding]; other site 640510011968 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 640510011969 enoyl-CoA hydratase; Provisional; Region: PRK09076 640510011970 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 640510011971 substrate binding site [chemical binding]; other site 640510011972 oxyanion hole (OAH) forming residues; other site 640510011973 trimer interface [polypeptide binding]; other site 640510011974 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 640510011975 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 640510011976 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 640510011977 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 640510011978 tetrameric interface [polypeptide binding]; other site 640510011979 NAD binding site [chemical binding]; other site 640510011980 catalytic residues [active] 640510011981 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 640510011982 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_1; cd05974 640510011983 active site 640510011984 acyl-activating enzyme (AAE) consensus motif; other site 640510011985 putative CoA binding site [chemical binding]; other site 640510011986 AMP binding site [chemical binding]; other site 640510011987 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 640510011988 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640510011989 active site 640510011990 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640510011991 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 640510011992 trimer interface [polypeptide binding]; other site 640510011993 eyelet of channel; other site 640510011994 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 640510011995 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640510011996 Amidohydrolase; Region: Amidohydro_2; pfam04909 640510011997 3-hydroxyanthranilate 3,4-dioxygenase; Provisional; Region: PRK13264 640510011998 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 640510011999 homotrimer interaction site [polypeptide binding]; other site 640510012000 putative active site [active] 640510012001 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 640510012002 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; pfam01118 640510012003 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 640510012004 DmpG-like communication domain; Region: DmpG_comm; pfam07836 640510012005 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 640510012006 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 640510012007 2-hydroxymuconic semialdehyde dehydrogenase; Region: OH_muco_semi_DH; TIGR03216 640510012008 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 640510012009 NAD binding site [chemical binding]; other site 640510012010 catalytic residues [active] 640510012011 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 640510012012 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510012013 The 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 640510012014 dimerization interface [polypeptide binding]; other site 640510012015 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 640510012016 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640510012017 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510012018 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 640510012019 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 640510012020 dimer interface [polypeptide binding]; other site 640510012021 active site residues [active] 640510012022 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 640510012023 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 640510012024 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 640510012025 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 640510012026 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 640510012027 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640510012028 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 640510012029 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 640510012030 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 640510012031 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 640510012032 Walker A motif; other site 640510012033 ATP binding site [chemical binding]; other site 640510012034 Walker B motif; other site 640510012035 arginine finger; other site 640510012036 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 640510012037 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 640510012038 catalytic loop [active] 640510012039 iron binding site [ion binding]; other site 640510012040 Protein of unknown function (DUF1653); Region: DUF1653; cl01949 640510012041 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 640510012042 YheO-like PAS domain; Region: PAS_6; pfam08348 640510012043 HTH domain; Region: HTH_22; pfam13309 640510012044 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 640510012045 rRNA binding site [nucleotide binding]; other site 640510012046 predicted 30S ribosome binding site; other site 640510012047 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 640510012048 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510012049 active site 640510012050 phosphorylation site [posttranslational modification] 640510012051 intermolecular recognition site; other site 640510012052 dimerization interface [polypeptide binding]; other site 640510012053 ANTAR domain; Region: ANTAR; pfam03861 640510012054 NMT1-like family; Region: NMT1_2; pfam13379 640510012055 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 640510012056 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 640510012057 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 640510012058 dimer interface [polypeptide binding]; other site 640510012059 phosphorylation site [posttranslational modification] 640510012060 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510012061 ATP binding site [chemical binding]; other site 640510012062 Mg2+ binding site [ion binding]; other site 640510012063 G-X-G motif; other site 640510012064 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 640510012065 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510012066 active site 640510012067 phosphorylation site [posttranslational modification] 640510012068 intermolecular recognition site; other site 640510012069 dimerization interface [polypeptide binding]; other site 640510012070 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 640510012071 DNA binding site [nucleotide binding] 640510012072 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 640510012073 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 640510012074 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 640510012075 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510012076 dimer interface [polypeptide binding]; other site 640510012077 conserved gate region; other site 640510012078 ABC-ATPase subunit interface; other site 640510012079 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510012080 dimer interface [polypeptide binding]; other site 640510012081 conserved gate region; other site 640510012082 putative PBP binding loops; other site 640510012083 ABC-ATPase subunit interface; other site 640510012084 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 640510012085 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 640510012086 Walker A/P-loop; other site 640510012087 ATP binding site [chemical binding]; other site 640510012088 Q-loop/lid; other site 640510012089 ABC transporter signature motif; other site 640510012090 Walker B; other site 640510012091 D-loop; other site 640510012092 H-loop/switch region; other site 640510012093 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640510012094 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 640510012095 trimer interface [polypeptide binding]; other site 640510012096 eyelet of channel; other site 640510012097 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 640510012098 rhamnose ABC transporter, rhamnose-binding protein; Region: RhaS; TIGR02637 640510012099 ligand binding site [chemical binding]; other site 640510012100 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640510012101 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 640510012102 TM-ABC transporter signature motif; other site 640510012103 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640510012104 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 640510012105 TM-ABC transporter signature motif; other site 640510012106 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 640510012107 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 640510012108 Walker A/P-loop; other site 640510012109 ATP binding site [chemical binding]; other site 640510012110 Q-loop/lid; other site 640510012111 ABC transporter signature motif; other site 640510012112 Walker B; other site 640510012113 D-loop; other site 640510012114 H-loop/switch region; other site 640510012115 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 640510012116 Amidohydrolase; Region: Amidohydro_2; pfam04909 640510012117 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 640510012118 Domain of unknown function (DUF718); Region: DUF718; pfam05336 640510012119 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 640510012120 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510012121 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 640510012122 putative dimerization interface [polypeptide binding]; other site 640510012123 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640510012124 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510012125 NAD(P) binding site [chemical binding]; other site 640510012126 active site 640510012127 L-rhamnonate dehydratase; Provisional; Region: PRK15440 640510012128 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 640510012129 putative active site pocket [active] 640510012130 putative metal binding site [ion binding]; other site 640510012131 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 640510012132 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510012133 putative substrate translocation pore; other site 640510012134 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510012135 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640510012136 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510012137 NAD(P) binding site [chemical binding]; other site 640510012138 active site 640510012139 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510012140 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510012141 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 640510012142 substrate binding pocket [chemical binding]; other site 640510012143 dimerization interface [polypeptide binding]; other site 640510012144 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 640510012145 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 640510012146 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 640510012147 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640510012148 active site 640510012149 metal binding site [ion binding]; metal-binding site 640510012150 Glyoxalase-like domain; Region: Glyoxalase_2; pfam12681 640510012151 (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 640510012152 active site 640510012153 catalytic site [active] 640510012154 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 640510012155 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640510012156 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 640510012157 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 640510012158 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 640510012159 shikimate binding site; other site 640510012160 NAD(P) binding site [chemical binding]; other site 640510012161 H-NS histone family; Region: Histone_HNS; pfam00816 640510012162 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 640510012163 Low molecular weight phosphatase family; Region: LMWPc; cl00105 640510012164 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 640510012165 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 640510012166 HSP70 interaction site [polypeptide binding]; other site 640510012167 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 640510012168 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 640510012169 indole acetimide hydrolase; Validated; Region: PRK07488 640510012170 Amidase; Region: Amidase; pfam01425 640510012171 CDP-diacylglycerol pyrophosphatase; Region: CDH; pfam02611 640510012172 Sulfatase; Region: Sulfatase; cl17466 640510012173 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640510012174 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 640510012175 trimer interface [polypeptide binding]; other site 640510012176 eyelet of channel; other site 640510012177 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 640510012178 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510012179 active site 640510012180 phosphorylation site [posttranslational modification] 640510012181 intermolecular recognition site; other site 640510012182 dimerization interface [polypeptide binding]; other site 640510012183 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 640510012184 DNA binding site [nucleotide binding] 640510012185 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 640510012186 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640510012187 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 640510012188 dimer interface [polypeptide binding]; other site 640510012189 phosphorylation site [posttranslational modification] 640510012190 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510012191 ATP binding site [chemical binding]; other site 640510012192 Mg2+ binding site [ion binding]; other site 640510012193 G-X-G motif; other site 640510012194 Uncharacterized conserved protein [Function unknown]; Region: COG3391 640510012195 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 640510012196 active site 640510012197 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 640510012198 hypothetical protein; Validated; Region: PRK08238 640510012199 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 640510012200 phosphoribose diphosphate:decaprenyl-phosphate phosphoribosyltransferase; Provisional; Region: PRK12324 640510012201 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 640510012202 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 640510012203 putative di-iron ligands [ion binding]; other site 640510012204 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510012205 C factor cell-cell signaling protein; Provisional; Region: PRK09009 640510012206 NAD(P) binding site [chemical binding]; other site 640510012207 active site 640510012208 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510012209 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510012210 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 640510012211 putative substrate binding pocket [chemical binding]; other site 640510012212 putative dimerization interface [polypeptide binding]; other site 640510012213 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 640510012214 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510012215 The 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 640510012216 dimerization interface [polypeptide binding]; other site 640510012217 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 640510012218 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 640510012219 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 640510012220 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640510012221 Walker A/P-loop; other site 640510012222 ATP binding site [chemical binding]; other site 640510012223 Q-loop/lid; other site 640510012224 ABC transporter signature motif; other site 640510012225 Walker B; other site 640510012226 D-loop; other site 640510012227 H-loop/switch region; other site 640510012228 TOBE domain; Region: TOBE_2; pfam08402 640510012229 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 640510012230 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510012231 dimer interface [polypeptide binding]; other site 640510012232 conserved gate region; other site 640510012233 putative PBP binding loops; other site 640510012234 ABC-ATPase subunit interface; other site 640510012235 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 640510012236 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510012237 dimer interface [polypeptide binding]; other site 640510012238 conserved gate region; other site 640510012239 putative PBP binding loops; other site 640510012240 ABC-ATPase subunit interface; other site 640510012241 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640510012242 hydroxyglutarate oxidase; Provisional; Region: PRK11728 640510012243 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 640510012244 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 640510012245 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640510012246 hydroxyglutarate oxidase; Provisional; Region: PRK11728 640510012247 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 640510012248 homotrimer interaction site [polypeptide binding]; other site 640510012249 putative active site [active] 640510012250 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 640510012251 MgtC family; Region: MgtC; pfam02308 640510012252 RNA polymerase sigma-70 factor, TIGR02957 family; Region: SigX4 640510012253 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640510012254 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 640510012255 DNA binding residues [nucleotide binding] 640510012256 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510012257 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510012258 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 640510012259 putative effector binding pocket; other site 640510012260 dimerization interface [polypeptide binding]; other site 640510012261 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510012262 NADH(P)-binding; Region: NAD_binding_10; pfam13460 640510012263 NAD(P) binding site [chemical binding]; other site 640510012264 active site 640510012265 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640510012266 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640510012267 metal binding site [ion binding]; metal-binding site 640510012268 active site 640510012269 I-site; other site 640510012270 Tannase and feruloyl esterase; Region: Tannase; pfam07519 640510012271 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640510012272 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 640510012273 eyelet of channel; other site 640510012274 trimer interface [polypeptide binding]; other site 640510012275 putative 3-hydroxyphenylpropionic transporter MhpT; Provisional; Region: PRK11551 640510012276 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510012277 putative substrate translocation pore; other site 640510012278 p-hydroxycinnamoyl CoA hydratase/lyase; Validated; Region: PRK09120 640510012279 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 640510012280 substrate binding site [chemical binding]; other site 640510012281 oxyanion hole (OAH) forming residues; other site 640510012282 trimer interface [polypeptide binding]; other site 640510012283 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640510012284 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 640510012285 NAD(P) binding site [chemical binding]; other site 640510012286 catalytic residues [active] 640510012287 feruloyl-CoA synthase; Reviewed; Region: PRK08180 640510012288 Feruloyl-CoA synthetase (FCS); Region: FCS; cd05921 640510012289 acyl-activating enzyme (AAE) consensus motif; other site 640510012290 putative AMP binding site [chemical binding]; other site 640510012291 putative active site [active] 640510012292 putative CoA binding site [chemical binding]; other site 640510012293 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 640510012294 Isochorismatase family; Region: Isochorismatase; pfam00857 640510012295 catalytic triad [active] 640510012296 dimer interface [polypeptide binding]; other site 640510012297 conserved cis-peptide bond; other site 640510012298 Acyltransferase family; Region: Acyl_transf_3; pfam01757 640510012299 MEDS: MEthanogen/methylotroph, DcmR Sensory domain; Region: MEDS; pfam14417 640510012300 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640510012301 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 640510012302 dimer interface [polypeptide binding]; other site 640510012303 phosphorylation site [posttranslational modification] 640510012304 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510012305 ATP binding site [chemical binding]; other site 640510012306 G-X-G motif; other site 640510012307 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510012308 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 640510012309 active site 640510012310 phosphorylation site [posttranslational modification] 640510012311 intermolecular recognition site; other site 640510012312 dimerization interface [polypeptide binding]; other site 640510012313 TupA-like ATPgrasp; Region: ATPgrasp_TupA; pfam14305 640510012314 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 640510012315 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 640510012316 active site 640510012317 Pleckstrin homology-like domain; Region: PH-like; cl17171 640510012318 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 640510012319 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 640510012320 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 640510012321 catalytic site [active] 640510012322 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510012323 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510012324 The 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 640510012325 dimerization interface [polypeptide binding]; other site 640510012326 ATP adenylyltransferase (5',5'''-P-1,P-4-tetraphosphate phosphorylase II) [Nucleotide transport and metabolism]; Region: APA2; COG4360 640510012327 ATP adenylyltransferase; Region: ATP_transf; pfam09830 640510012328 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640510012329 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 640510012330 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 640510012331 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 640510012332 substrate binding pocket [chemical binding]; other site 640510012333 membrane-bound complex binding site; other site 640510012334 hinge residues; other site 640510012335 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 640510012336 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 640510012337 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 640510012338 YheO-like PAS domain; Region: PAS_6; pfam08348 640510012339 HTH domain; Region: HTH_22; pfam13309 640510012340 von Willebrand factor type A domain; Region: VWA_2; pfam13519 640510012341 metal ion-dependent adhesion site (MIDAS); other site 640510012342 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 640510012343 binding surface 640510012344 TPR motif; other site 640510012345 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 640510012346 metal ion-dependent adhesion site (MIDAS); other site 640510012347 Protein of unknown function DUF58; Region: DUF58; pfam01882 640510012348 MoxR-like ATPases [General function prediction only]; Region: COG0714 640510012349 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 640510012350 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510012351 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510012352 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 640510012353 putative dimerization interface [polypeptide binding]; other site 640510012354 quinoprotein dehydrogenase-associated probable ABC transporter substrate-binding protein; Region: ABC_peri_MoxJ_2; TIGR03871 640510012355 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 640510012356 substrate binding pocket [chemical binding]; other site 640510012357 membrane-bound complex binding site; other site 640510012358 hinge residues; other site 640510012359 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 640510012360 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 640510012361 Large subunit of methanol dehydrogenase (moxF); Region: PQQ_MDH; cd10278 640510012362 Trp docking motif [polypeptide binding]; other site 640510012363 dimer interface [polypeptide binding]; other site 640510012364 active site 640510012365 small subunit binding site [polypeptide binding]; other site 640510012366 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 640510012367 aromatic arch; other site 640510012368 DCoH dimer interaction site [polypeptide binding]; other site 640510012369 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 640510012370 DCoH tetramer interaction site [polypeptide binding]; other site 640510012371 substrate binding site [chemical binding]; other site 640510012372 Predicted archaeal sugar kinases [General function prediction only]; Region: COG1907 640510012373 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 640510012374 Methylene-tetrahydromethanopterin dehydrogenase, N-terminal; Region: Mpt_N; pfam09176 640510012375 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 640510012376 NAD(P) binding pocket [chemical binding]; other site 640510012377 Predicted ATP-dependent carboligase related to biotin carboxylase [General function prediction only]; Region: COG2232 640510012378 ATP-grasp domain; Region: ATP-grasp_4; cl17255 640510012379 N(5),N(10)-methenyltetrahydromethanopterin cyclohydrolase; Provisional; Region: PRK02264 640510012380 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 640510012381 trimer interface I [polypeptide binding]; other site 640510012382 putative substrate binding pocket [chemical binding]; other site 640510012383 trimer interface II [polypeptide binding]; other site 640510012384 alpha-L-glutamate ligases, RimK family; Region: rimK_fam; TIGR00768 640510012385 ATP-grasp domain; Region: ATP-grasp_4; cl17255 640510012386 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 640510012387 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 640510012388 Formaldehyde-activating enzyme (Fae); Region: Fae; pfam08714 640510012389 Dihydroneopterin aldolase; Region: FolB; smart00905 640510012390 active site 640510012391 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 640510012392 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 640510012393 Walker A motif; other site 640510012394 ATP binding site [chemical binding]; other site 640510012395 Walker B motif; other site 640510012396 arginine finger; other site 640510012397 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 640510012398 Archaeal flavoproteins [Energy production and conversion]; Region: COG1036 640510012399 Flavoprotein; Region: Flavoprotein; cl08021 640510012400 dihydropteroate synthase-related protein; Region: TIGR00284 640510012401 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 640510012402 substrate binding pocket [chemical binding]; other site 640510012403 dimer interface [polypeptide binding]; other site 640510012404 inhibitor binding site; inhibition site 640510012405 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 640510012406 intersubunit interface [polypeptide binding]; other site 640510012407 active site 640510012408 zinc binding site [ion binding]; other site 640510012409 Na+ binding site [ion binding]; other site 640510012410 transketolase; Reviewed; Region: PRK12753 640510012411 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 640510012412 TPP-binding site [chemical binding]; other site 640510012413 dimer interface [polypeptide binding]; other site 640510012414 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 640510012415 PYR/PP interface [polypeptide binding]; other site 640510012416 dimer interface [polypeptide binding]; other site 640510012417 TPP binding site [chemical binding]; other site 640510012418 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 640510012419 phosphoribulokinase; Provisional; Region: PRK15453 640510012420 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 640510012421 AMP binding site [chemical binding]; other site 640510012422 metal binding site [ion binding]; metal-binding site 640510012423 active site 640510012424 probable Rubsico expression protein CbbX; Region: cbbX_cfxQ; TIGR02880 640510012425 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 640510012426 Walker A motif; other site 640510012427 ATP binding site [chemical binding]; other site 640510012428 Walker B motif; other site 640510012429 arginine finger; other site 640510012430 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 640510012431 multimerization interface [polypeptide binding]; other site 640510012432 ribulose bisophosphate carboxylase; Reviewed; Region: rbcL; PRK04208 640510012433 Ribulose bisphosphate carboxylase large chain, Form I; Region: RuBisCO_large_I; cd08212 640510012434 homodimer interface [polypeptide binding]; other site 640510012435 active site 640510012436 heterodimer interface [polypeptide binding]; other site 640510012437 catalytic residue [active] 640510012438 metal binding site [ion binding]; metal-binding site 640510012439 coenzyme PQQ synthesis protein PqqA; Provisional; Region: pqqA; PRK00284 640510012440 Protein of unknown function (DUF447); Region: DUF447; pfam04289 640510012441 hypothetical protein; Provisional; Region: PRK02227 640510012442 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 640510012443 nucleotide binding site [chemical binding]; other site 640510012444 substrate binding site [chemical binding]; other site 640510012445 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 640510012446 nucleotide binding site [chemical binding]; other site 640510012447 Predicted ATP-utilizing enzyme (ATP-grasp superfamily) [General function prediction only]; Region: COG1821 640510012448 ATP-grasp domain; Region: ATP-grasp_4; cl17255 640510012449 hisA/hisF family protein; Region: hisAF_rel; TIGR00734 640510012450 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 640510012451 active site 640510012452 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 640510012453 formylmethanofuran dehydrogenase subunit B; Region: one_C_dehyd_B; TIGR03129 640510012454 molybdopterin cofactor binding site; other site 640510012455 formylmethanofuran dehydrogenase subunit A; Region: one_C_dehyd_A; TIGR03121 640510012456 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 640510012457 active site 640510012458 formylmethanofuran--tetrahydromethanopterin formyltransferase; Provisional; Region: PRK02114 640510012459 Formylmethanofuran-tetrahydromethanopterin formyltransferase; Region: FTR; pfam01913 640510012460 FTR, proximal lobe; Region: FTR_C; pfam02741 640510012461 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 640510012462 putative subunit interface; other site 640510012463 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 640510012464 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 640510012465 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 640510012466 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 640510012467 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 640510012468 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 640510012469 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 640510012470 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 640510012471 FeS/SAM binding site; other site 640510012472 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 640510012473 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640510012474 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510012475 active site 640510012476 phosphorylation site [posttranslational modification] 640510012477 intermolecular recognition site; other site 640510012478 dimerization interface [polypeptide binding]; other site 640510012479 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 640510012480 DNA binding residues [nucleotide binding] 640510012481 dimerization interface [polypeptide binding]; other site 640510012482 Histidine kinase; Region: HisKA_3; pfam07730 640510012483 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510012484 ATP binding site [chemical binding]; other site 640510012485 Mg2+ binding site [ion binding]; other site 640510012486 G-X-G motif; other site 640510012487 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 640510012488 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 640510012489 N-terminal plug; other site 640510012490 ligand-binding site [chemical binding]; other site 640510012491 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 640510012492 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 640510012493 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 640510012494 structural tetrad; other site 640510012495 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 640510012496 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 640510012497 phosphoglycolate phosphatase; Provisional; Region: PRK13222 640510012498 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 640510012499 motif II; other site 640510012500 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640510012501 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 640510012502 trimer interface [polypeptide binding]; other site 640510012503 eyelet of channel; other site 640510012504 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 640510012505 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 640510012506 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 640510012507 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 640510012508 ATP-grasp domain; Region: ATP-grasp_4; cl17255 640510012509 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 640510012510 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 640510012511 carboxyltransferase (CT) interaction site; other site 640510012512 biotinylation site [posttranslational modification]; other site 640510012513 enoyl-CoA hydratase; Provisional; Region: PRK05995 640510012514 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 640510012515 substrate binding site [chemical binding]; other site 640510012516 oxyanion hole (OAH) forming residues; other site 640510012517 trimer interface [polypeptide binding]; other site 640510012518 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 640510012519 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 640510012520 isovaleryl-CoA dehydrogenase; Region: PLN02519 640510012521 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 640510012522 substrate binding site [chemical binding]; other site 640510012523 FAD binding site [chemical binding]; other site 640510012524 catalytic base [active] 640510012525 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640510012526 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640510012527 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 640510012528 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 640510012529 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 640510012530 Cl- selectivity filter; other site 640510012531 Cl- binding residues [ion binding]; other site 640510012532 pore gating glutamate residue; other site 640510012533 dimer interface [polypeptide binding]; other site 640510012534 Transcriptional regulators [Transcription]; Region: MarR; COG1846 640510012535 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 640510012536 thiamine pyrophosphate protein; Provisional; Region: PRK08273 640510012537 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 640510012538 PYR/PP interface [polypeptide binding]; other site 640510012539 dimer interface [polypeptide binding]; other site 640510012540 tetramer interface [polypeptide binding]; other site 640510012541 TPP binding site [chemical binding]; other site 640510012542 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 640510012543 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 640510012544 TPP-binding site [chemical binding]; other site 640510012545 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 640510012546 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 640510012547 putative active site pocket [active] 640510012548 putative metal binding site [ion binding]; other site 640510012549 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 640510012550 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 640510012551 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 640510012552 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 640510012553 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 640510012554 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 640510012555 putative NAD(P) binding site [chemical binding]; other site 640510012556 active site 640510012557 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 640510012558 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 640510012559 Cytochrome c; Region: Cytochrom_C; pfam00034 640510012560 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640510012561 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640510012562 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 640510012563 Nucleolar protein 12 (25kDa); Region: Nop25; pfam09805 640510012564 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 640510012565 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 640510012566 D-pathway; other site 640510012567 Putative ubiquinol binding site [chemical binding]; other site 640510012568 Low-spin heme (heme b) binding site [chemical binding]; other site 640510012569 Putative water exit pathway; other site 640510012570 Binuclear center (heme o3/CuB) [ion binding]; other site 640510012571 K-pathway; other site 640510012572 Putative proton exit pathway; other site 640510012573 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 640510012574 Subunit I/III interface [polypeptide binding]; other site 640510012575 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 640510012576 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 640510012577 Cytochrome c; Region: Cytochrom_C; pfam00034 640510012578 Domain of unknown function (DUF4396); Region: DUF4396; pfam14342 640510012579 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 640510012580 Paraquat-inducible protein A; Region: PqiA; pfam04403 640510012581 Paraquat-inducible protein A; Region: PqiA; pfam04403 640510012582 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 640510012583 mce related protein; Region: MCE; pfam02470 640510012584 mce related protein; Region: MCE; pfam02470 640510012585 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 640510012586 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 640510012587 Protein of unknown function (DUF330); Region: DUF330; pfam03886 640510012588 PAS domain S-box; Region: sensory_box; TIGR00229 640510012589 PAS domain; Region: PAS; smart00091 640510012590 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 640510012591 PAS domain; Region: PAS_9; pfam13426 640510012592 putative active site [active] 640510012593 heme pocket [chemical binding]; other site 640510012594 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640510012595 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640510012596 metal binding site [ion binding]; metal-binding site 640510012597 active site 640510012598 I-site; other site 640510012599 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 640510012600 VPS10 domain; Region: VPS10; smart00602 640510012601 Ubiquitin-like proteins; Region: UBQ; cl00155 640510012602 charged pocket; other site 640510012603 hydrophobic patch; other site 640510012604 short chain dehydrogenase; Provisional; Region: PRK06180 640510012605 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 640510012606 NADP binding site [chemical binding]; other site 640510012607 active site 640510012608 steroid binding site; other site 640510012609 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510012610 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510012611 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 640510012612 putative effector binding pocket; other site 640510012613 putative dimerization interface [polypeptide binding]; other site 640510012614 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 640510012615 S-adenosylmethionine binding site [chemical binding]; other site 640510012616 HD domain protein, cyanamide hydratase family; Region: cyanamide_fam; TIGR03401 640510012617 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 640510012618 putative FMN binding site [chemical binding]; other site 640510012619 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640510012620 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 640510012621 trimer interface [polypeptide binding]; other site 640510012622 eyelet of channel; other site 640510012623 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 640510012624 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640510012625 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 640510012626 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 640510012627 catalytic loop [active] 640510012628 iron binding site [ion binding]; other site 640510012629 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 640510012630 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 640510012631 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 640510012632 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 640510012633 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 640510012634 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 640510012635 alpha subunit interface [polypeptide binding]; other site 640510012636 active site 640510012637 substrate binding site [chemical binding]; other site 640510012638 Fe binding site [ion binding]; other site 640510012639 Transcriptional regulators [Transcription]; Region: GntR; COG1802 640510012640 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510012641 DNA-binding site [nucleotide binding]; DNA binding site 640510012642 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 640510012643 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 640510012644 Zn2+ binding site [ion binding]; other site 640510012645 Mg2+ binding site [ion binding]; other site 640510012646 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 640510012647 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510012648 DNA-binding site [nucleotide binding]; DNA binding site 640510012649 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 640510012650 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510012651 homodimer interface [polypeptide binding]; other site 640510012652 catalytic residue [active] 640510012653 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 640510012654 putative FMN binding site [chemical binding]; other site 640510012655 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510012656 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510012657 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 640510012658 putative substrate binding pocket [chemical binding]; other site 640510012659 putative dimerization interface [polypeptide binding]; other site 640510012660 Protein of unknown function DUF72; Region: DUF72; pfam01904 640510012661 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 640510012662 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 640510012663 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 640510012664 IHF dimer interface [polypeptide binding]; other site 640510012665 IHF - DNA interface [nucleotide binding]; other site 640510012666 long-chain-fatty-acid--CoA ligase; Provisional; Region: PRK12492 640510012667 Predicted signal transduction protein containing a membrane domain, an EAL and a GGDEF domain [Signal transduction mechanisms]; Region: COG5001 640510012668 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640510012669 metal binding site [ion binding]; metal-binding site 640510012670 active site 640510012671 I-site; other site 640510012672 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 640510012673 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 640510012674 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640510012675 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510012676 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 640510012677 dimerization interface [polypeptide binding]; other site 640510012678 substrate binding pocket [chemical binding]; other site 640510012679 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510012680 putative substrate translocation pore; other site 640510012681 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640510012682 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 640510012683 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 640510012684 The 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 640510012685 Cupin domain; Region: Cupin_2; cl17218 640510012686 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 640510012687 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 640510012688 putative NAD(P) binding site [chemical binding]; other site 640510012689 putative substrate binding site [chemical binding]; other site 640510012690 catalytic Zn binding site [ion binding]; other site 640510012691 structural Zn binding site [ion binding]; other site 640510012692 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 640510012693 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 640510012694 Sulfate transporter family; Region: Sulfate_transp; pfam00916 640510012695 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 640510012696 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640510012697 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 640510012698 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 640510012699 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 640510012700 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 640510012701 Protein of unknown function (DUF2891); Region: DUF2891; pfam11199 640510012702 PRC-barrel domain; Region: PRC; pfam05239 640510012703 DNA polymerase II; Reviewed; Region: PRK05762 640510012704 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 640510012705 active site 640510012706 catalytic site [active] 640510012707 substrate binding site [chemical binding]; other site 640510012708 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 640510012709 active site 640510012710 metal-binding site 640510012711 Phosphoesterase family; Region: Phosphoesterase; pfam04185 640510012712 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 640510012713 putative DNA binding site [nucleotide binding]; other site 640510012714 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_6; cd08899 640510012715 putative hydrophobic ligand binding site [chemical binding]; other site 640510012716 Uncharacterized conserved protein [Function unknown]; Region: COG5649 640510012717 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 640510012718 TPR repeat; Region: TPR_11; pfam13414 640510012719 binding surface 640510012720 TPR motif; other site 640510012721 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 640510012722 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 640510012723 binding surface 640510012724 TPR motif; other site 640510012725 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 640510012726 TPR motif; other site 640510012727 binding surface 640510012728 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 640510012729 binding surface 640510012730 TPR motif; other site 640510012731 Tetratricopeptide repeat; Region: TPR_12; pfam13424 640510012732 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 640510012733 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 640510012734 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 640510012735 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 640510012736 N-terminal plug; other site 640510012737 ligand-binding site [chemical binding]; other site 640510012738 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 640510012739 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 640510012740 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 640510012741 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 640510012742 Uncharacterized protein conserved in bacteria (DUF2322); Region: DUF2322; pfam10084 640510012743 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 640510012744 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 640510012745 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 640510012746 catalytic residues [active] 640510012747 short chain dehydrogenase; Provisional; Region: PRK07109 640510012748 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 640510012749 putative NAD(P) binding site [chemical binding]; other site 640510012750 active site 640510012751 thiamine pyrophosphate protein; Provisional; Region: PRK08273 640510012752 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 640510012753 PYR/PP interface [polypeptide binding]; other site 640510012754 dimer interface [polypeptide binding]; other site 640510012755 tetramer interface [polypeptide binding]; other site 640510012756 TPP binding site [chemical binding]; other site 640510012757 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 640510012758 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 640510012759 TPP-binding site [chemical binding]; other site 640510012760 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 640510012761 RAB proteins geranylgeranyltransferase component A (RAB escort protein) [Posttranslational modification, protein turnover, chaperones]; Region: MRS6; cl17678 640510012762 glutathionine S-transferase; Provisional; Region: PRK10542 640510012763 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 640510012764 C-terminal domain interface [polypeptide binding]; other site 640510012765 GSH binding site (G-site) [chemical binding]; other site 640510012766 dimer interface [polypeptide binding]; other site 640510012767 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 640510012768 dimer interface [polypeptide binding]; other site 640510012769 substrate binding pocket (H-site) [chemical binding]; other site 640510012770 N-terminal domain interface [polypeptide binding]; other site 640510012771 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 640510012772 ligand binding site [chemical binding]; other site 640510012773 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 640510012774 dimerization interface [polypeptide binding]; other site 640510012775 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640510012776 dimer interface [polypeptide binding]; other site 640510012777 putative CheW interface [polypeptide binding]; other site 640510012778 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 640510012779 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 640510012780 ligand binding site [chemical binding]; other site 640510012781 flexible hinge region; other site 640510012782 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 640510012783 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 640510012784 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640510012785 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 640510012786 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640510012787 ligand binding site [chemical binding]; other site 640510012788 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 640510012789 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 640510012790 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 640510012791 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 640510012792 ligand binding site [chemical binding]; other site 640510012793 flexible hinge region; other site 640510012794 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 640510012795 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510012796 dimer interface [polypeptide binding]; other site 640510012797 conserved gate region; other site 640510012798 putative PBP binding loops; other site 640510012799 ABC-ATPase subunit interface; other site 640510012800 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 640510012801 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510012802 dimer interface [polypeptide binding]; other site 640510012803 conserved gate region; other site 640510012804 putative PBP binding loops; other site 640510012805 ABC-ATPase subunit interface; other site 640510012806 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 640510012807 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 640510012808 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 640510012809 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 640510012810 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 640510012811 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 640510012812 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 640510012813 Walker A/P-loop; other site 640510012814 ATP binding site [chemical binding]; other site 640510012815 Q-loop/lid; other site 640510012816 ABC transporter signature motif; other site 640510012817 Walker B; other site 640510012818 D-loop; other site 640510012819 H-loop/switch region; other site 640510012820 TOBE domain; Region: TOBE; pfam03459 640510012821 TOBE domain; Region: TOBE_2; pfam08402 640510012822 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640510012823 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640510012824 DNA binding site [nucleotide binding] 640510012825 domain linker motif; other site 640510012826 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 640510012827 dimerization interface [polypeptide binding]; other site 640510012828 ligand binding site [chemical binding]; other site 640510012829 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 640510012830 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 640510012831 ligand binding site [chemical binding]; other site 640510012832 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640510012833 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 640510012834 TM-ABC transporter signature motif; other site 640510012835 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 640510012836 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 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 MarR family; Region: MarR_2; pfam12802 640510012845 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 640510012846 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 640510012847 nucleotide binding site [chemical binding]; other site 640510012848 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 640510012849 Transglycosylase; Region: Transgly; cl17702 640510012850 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 640510012851 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510012852 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510012853 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 640510012854 putative dimerization interface [polypeptide binding]; other site 640510012855 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 640510012856 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 640510012857 inhibitor site; inhibition site 640510012858 active site 640510012859 dimer interface [polypeptide binding]; other site 640510012860 catalytic residue [active] 640510012861 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 640510012862 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640510012863 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640510012864 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640510012865 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510012866 D-galactonate transporter; Region: 2A0114; TIGR00893 640510012867 putative substrate translocation pore; other site 640510012868 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510012869 shikimate 5-dehydrogenase; Reviewed; Region: PRK12549 640510012870 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 640510012871 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 640510012872 shikimate binding site; other site 640510012873 NAD(P) binding site [chemical binding]; other site 640510012874 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 640510012875 Dehydroquinase class II; Region: DHquinase_II; pfam01220 640510012876 active site 640510012877 trimer interface [polypeptide binding]; other site 640510012878 dimer interface [polypeptide binding]; other site 640510012879 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 640510012880 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 640510012881 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 640510012882 dimer interface [polypeptide binding]; other site 640510012883 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 640510012884 active site 640510012885 Fe binding site [ion binding]; other site 640510012886 PAS fold; Region: PAS_4; pfam08448 640510012887 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 640510012888 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510012889 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 640510012890 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 640510012891 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 640510012892 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 640510012893 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640510012894 hydroxyglutarate oxidase; Provisional; Region: PRK11728 640510012895 hydroxyproline-2-epimerase; Provisional; Region: PRK13970 640510012896 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 640510012897 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 640510012898 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 640510012899 inhibitor site; inhibition site 640510012900 active site 640510012901 dimer interface [polypeptide binding]; other site 640510012902 catalytic residue [active] 640510012903 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 640510012904 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510012905 active site 640510012906 phosphorylation site [posttranslational modification] 640510012907 intermolecular recognition site; other site 640510012908 dimerization interface [polypeptide binding]; other site 640510012909 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 640510012910 DNA binding site [nucleotide binding] 640510012911 metabolite-proton symporter; Region: 2A0106; TIGR00883 640510012912 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510012913 putative substrate translocation pore; other site 640510012914 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510012915 putative substrate translocation pore; other site 640510012916 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510012917 Predicted membrane protein [Function unknown]; Region: COG2259 640510012918 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 640510012919 SnoaL-like domain; Region: SnoaL_2; pfam12680 640510012920 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 640510012921 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 640510012922 non-specific DNA binding site [nucleotide binding]; other site 640510012923 salt bridge; other site 640510012924 sequence-specific DNA binding site [nucleotide binding]; other site 640510012925 Predicted transporter component [General function prediction only]; Region: COG2391 640510012926 Sulphur transport; Region: Sulf_transp; pfam04143 640510012927 transcriptional activator FlhD; Provisional; Region: PRK02909 640510012928 transcriptional activator FlhC; Provisional; Region: PRK12860 640510012929 manganese transport protein MntH; Reviewed; Region: PRK00701 640510012930 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 640510012931 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 640510012932 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 640510012933 Flavin binding site [chemical binding]; other site 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 ABC-ATPase subunit interface; other site 640510012936 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 640510012937 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 640510012938 Walker A/P-loop; other site 640510012939 ATP binding site [chemical binding]; other site 640510012940 Q-loop/lid; other site 640510012941 ABC transporter signature motif; other site 640510012942 Walker B; other site 640510012943 D-loop; other site 640510012944 H-loop/switch region; other site 640510012945 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 640510012946 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 640510012947 active site 640510012948 non-prolyl cis peptide bond; other site 640510012949 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 640510012950 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640510012951 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 640510012952 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 640510012953 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640510012954 HlyD family secretion protein; Region: HlyD_3; pfam13437 640510012955 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 640510012956 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 640510012957 substrate binding pocket [chemical binding]; other site 640510012958 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510012959 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510012960 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 640510012961 putative effector binding pocket; other site 640510012962 putative dimerization interface [polypeptide binding]; other site 640510012963 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640510012964 Purine nucleoside permease (NUP); Region: NUP; pfam06516 640510012965 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 640510012966 Cation efflux family; Region: Cation_efflux; pfam01545 640510012967 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 640510012968 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 640510012969 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 640510012970 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 640510012971 active site 640510012972 Zn binding site [ion binding]; other site 640510012973 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 640510012974 EamA-like transporter family; Region: EamA; cl17759 640510012975 4-aminobutyrate aminotransferase; Provisional; Region: PRK07495 640510012976 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 640510012977 inhibitor-cofactor binding pocket; inhibition site 640510012978 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510012979 catalytic residue [active] 640510012980 succinic semialdehyde dehydrogenase; Region: PLN02278 640510012981 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 640510012982 tetramerization interface [polypeptide binding]; other site 640510012983 NAD(P) binding site [chemical binding]; other site 640510012984 catalytic residues [active] 640510012985 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640510012986 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640510012987 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 640510012988 conserved cys residue [active] 640510012989 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510012990 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 640510012991 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 640510012992 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 640510012993 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07066 640510012994 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 640510012995 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 640510012996 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 640510012997 active site 640510012998 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 640510012999 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 640510013000 active site 640510013001 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640510013002 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510013003 ATP binding site [chemical binding]; other site 640510013004 G-X-G motif; other site 640510013005 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510013006 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 640510013007 active site 640510013008 phosphorylation site [posttranslational modification] 640510013009 intermolecular recognition site; other site 640510013010 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 640510013011 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 640510013012 motif II; other site 640510013013 Protein of unknown function (DUF2894); Region: DUF2894; pfam11445 640510013014 hypothetical protein; Provisional; Region: PRK09040 640510013015 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640510013016 ligand binding site [chemical binding]; other site 640510013017 Domain of unknown function (DUF802); Region: DUF802; pfam05650 640510013018 Domain of unknown function (DUF802); Region: DUF802; pfam05650 640510013019 Protein of unknown function (DUF3348); Region: DUF3348; pfam11828 640510013020 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 640510013021 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 640510013022 non-specific DNA binding site [nucleotide binding]; other site 640510013023 salt bridge; other site 640510013024 sequence-specific DNA binding site [nucleotide binding]; other site 640510013025 Cupin domain; Region: Cupin_2; pfam07883 640510013026 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510013027 metabolite-proton symporter; Region: 2A0106; TIGR00883 640510013028 putative substrate translocation pore; other site 640510013029 amidase; Provisional; Region: PRK07486 640510013030 Amidase; Region: Amidase; pfam01425 640510013031 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 640510013032 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640510013033 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640510013034 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640510013035 metal binding site [ion binding]; metal-binding site 640510013036 active site 640510013037 I-site; other site 640510013038 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 640510013039 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 640510013040 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510013041 The 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 640510013042 dimerization interface [polypeptide binding]; other site 640510013043 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 640510013044 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 640510013045 Na binding site [ion binding]; other site 640510013046 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 640510013047 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 640510013048 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 640510013049 Histidine kinase; Region: HisKA_3; pfam07730 640510013050 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510013051 ATP binding site [chemical binding]; other site 640510013052 Mg2+ binding site [ion binding]; other site 640510013053 G-X-G motif; other site 640510013054 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640510013055 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510013056 active site 640510013057 phosphorylation site [posttranslational modification] 640510013058 intermolecular recognition site; other site 640510013059 dimerization interface [polypeptide binding]; other site 640510013060 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 640510013061 DNA binding residues [nucleotide binding] 640510013062 dimerization interface [polypeptide binding]; other site 640510013063 H-NS histone family; Region: Histone_HNS; pfam00816 640510013064 H-NS histone family; Region: Histone_HNS; pfam00816 640510013065 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 640510013066 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 640510013067 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 640510013068 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 640510013069 Predicted amidohydrolase [General function prediction only]; Region: COG0388 640510013070 active site 640510013071 catalytic triad [active] 640510013072 dimer interface [polypeptide binding]; other site 640510013073 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 640510013074 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 640510013075 ATP binding site [chemical binding]; other site 640510013076 putative Mg++ binding site [ion binding]; other site 640510013077 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 640510013078 nucleotide binding region [chemical binding]; other site 640510013079 ATP-binding site [chemical binding]; other site 640510013080 DEAD/H associated; Region: DEAD_assoc; pfam08494 640510013081 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 640510013082 putative active site [active] 640510013083 putative metal binding site [ion binding]; other site 640510013084 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 640510013085 FAD binding domain; Region: FAD_binding_4; pfam01565 640510013086 Berberine and berberine like; Region: BBE; pfam08031 640510013087 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 640510013088 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 640510013089 putative deacylase active site [active] 640510013090 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 640510013091 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640510013092 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 640510013093 trimer interface [polypeptide binding]; other site 640510013094 eyelet of channel; other site 640510013095 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 640510013096 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 640510013097 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 640510013098 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 640510013099 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 640510013100 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 640510013101 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 640510013102 Uncharacterized conserved protein [Function unknown]; Region: COG2308 640510013103 IHF dimer interface [polypeptide binding]; other site 640510013104 Bacterial DNA-binding protein; Region: Bac_DNA_binding; pfam00216 640510013105 IHF - DNA interface [nucleotide binding]; other site 640510013106 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 640510013107 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510013108 DNA-binding site [nucleotide binding]; DNA binding site 640510013109 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 640510013110 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510013111 homodimer interface [polypeptide binding]; other site 640510013112 catalytic residue [active] 640510013113 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 640510013114 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 640510013115 non-specific DNA binding site [nucleotide binding]; other site 640510013116 salt bridge; other site 640510013117 sequence-specific DNA binding site [nucleotide binding]; other site 640510013118 Cupin domain; Region: Cupin_2; pfam07883 640510013119 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 640510013120 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 640510013121 peptide binding site [polypeptide binding]; other site 640510013122 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 640510013123 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510013124 dimer interface [polypeptide binding]; other site 640510013125 conserved gate region; other site 640510013126 putative PBP binding loops; other site 640510013127 ABC-ATPase subunit interface; other site 640510013128 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 640510013129 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510013130 dimer interface [polypeptide binding]; other site 640510013131 conserved gate region; other site 640510013132 putative PBP binding loops; other site 640510013133 ABC-ATPase subunit interface; other site 640510013134 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 640510013135 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640510013136 Walker A/P-loop; other site 640510013137 ATP binding site [chemical binding]; other site 640510013138 Q-loop/lid; other site 640510013139 ABC transporter signature motif; other site 640510013140 Walker B; other site 640510013141 D-loop; other site 640510013142 H-loop/switch region; other site 640510013143 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640510013144 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 640510013145 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640510013146 Walker A/P-loop; other site 640510013147 ATP binding site [chemical binding]; other site 640510013148 Q-loop/lid; other site 640510013149 ABC transporter signature motif; other site 640510013150 Walker B; other site 640510013151 D-loop; other site 640510013152 H-loop/switch region; other site 640510013153 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640510013154 outer membrane porin, OprD family; Region: OprD; pfam03573 640510013155 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640510013156 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 640510013157 dimerization interface [polypeptide binding]; other site 640510013158 putative Zn2+ binding site [ion binding]; other site 640510013159 putative DNA binding site [nucleotide binding]; other site 640510013160 Bacterial transcriptional regulator; Region: IclR; pfam01614 640510013161 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 640510013162 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640510013163 Walker A/P-loop; other site 640510013164 ATP binding site [chemical binding]; other site 640510013165 Q-loop/lid; other site 640510013166 ABC transporter signature motif; other site 640510013167 Walker B; other site 640510013168 D-loop; other site 640510013169 H-loop/switch region; other site 640510013170 TOBE domain; Region: TOBE_2; pfam08402 640510013171 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 640510013172 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510013173 dimer interface [polypeptide binding]; other site 640510013174 conserved gate region; other site 640510013175 putative PBP binding loops; other site 640510013176 ABC-ATPase subunit interface; other site 640510013177 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 640510013178 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510013179 dimer interface [polypeptide binding]; other site 640510013180 conserved gate region; other site 640510013181 putative PBP binding loops; other site 640510013182 ABC-ATPase subunit interface; other site 640510013183 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 640510013184 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 640510013185 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 640510013186 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640510013187 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 640510013188 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 640510013189 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 640510013190 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 640510013191 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 640510013192 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 640510013193 active site 640510013194 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 640510013195 active site 640510013196 catalytic motif [active] 640510013197 Zn binding site [ion binding]; other site 640510013198 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 640510013199 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 640510013200 Nucleoside recognition; Region: Gate; pfam07670 640510013201 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 640510013202 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 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 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 640510013209 DNA binding residues [nucleotide binding] 640510013210 dimerization interface [polypeptide binding]; other site 640510013211 Response regulator receiver domain; Region: Response_reg; pfam00072 640510013212 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510013213 active site 640510013214 phosphorylation site [posttranslational modification] 640510013215 intermolecular recognition site; other site 640510013216 dimerization interface [polypeptide binding]; other site 640510013217 PAS domain S-box; Region: sensory_box; TIGR00229 640510013218 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 640510013219 putative active site [active] 640510013220 heme pocket [chemical binding]; other site 640510013221 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 640510013222 Histidine kinase; Region: HisKA_3; pfam07730 640510013223 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510013224 ATP binding site [chemical binding]; other site 640510013225 Mg2+ binding site [ion binding]; other site 640510013226 G-X-G motif; other site 640510013227 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640510013228 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 640510013229 dimer interface [polypeptide binding]; other site 640510013230 phosphorylation site [posttranslational modification] 640510013231 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510013232 ATP binding site [chemical binding]; other site 640510013233 G-X-G motif; other site 640510013234 Response regulator receiver domain; Region: Response_reg; pfam00072 640510013235 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510013236 active site 640510013237 phosphorylation site [posttranslational modification] 640510013238 intermolecular recognition site; other site 640510013239 dimerization interface [polypeptide binding]; other site 640510013240 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 640510013241 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 640510013242 S-adenosylmethionine binding site [chemical binding]; other site 640510013243 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 640510013244 Ligand Binding Site [chemical binding]; other site 640510013245 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 640510013246 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 640510013247 HPP family; Region: HPP; pfam04982 640510013248 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 640510013249 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 640510013250 MarR family; Region: MarR_2; pfam12802 640510013251 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 640510013252 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 640510013253 Cl- selectivity filter; other site 640510013254 Cl- binding residues [ion binding]; other site 640510013255 pore gating glutamate residue; other site 640510013256 dimer interface [polypeptide binding]; other site 640510013257 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 640510013258 Protein of unknown function, DUF488; Region: DUF488; pfam04343 640510013259 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640510013260 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 640510013261 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510013262 putative substrate translocation pore; other site 640510013263 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 640510013264 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640510013265 HlyD family secretion protein; Region: HlyD_3; pfam13437 640510013266 Transcriptional regulators [Transcription]; Region: MarR; COG1846 640510013267 MarR family; Region: MarR_2; pfam12802 640510013268 Transcriptional regulators [Transcription]; Region: MarR; COG1846 640510013269 MarR family; Region: MarR_2; pfam12802 640510013270 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 640510013271 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 640510013272 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 640510013273 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 640510013274 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 640510013275 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 640510013276 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 640510013277 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 640510013278 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 640510013279 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 640510013280 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 640510013281 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4307 640510013282 Uncharacterized protein conserved in bacteria (DUF2248); Region: DUF2248; pfam10005 640510013283 Protein of unknown function (DUF3443); Region: DUF3443; pfam11925 640510013284 Protein of unknown function (DUF2844); Region: DUF2844; pfam11005 640510013285 Phasin protein; Region: Phasin_2; pfam09361 640510013286 Domain of unknown function (DUF4410); Region: DUF4410; pfam14366 640510013287 Response regulator receiver domain; Region: Response_reg; pfam00072 640510013288 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510013289 active site 640510013290 phosphorylation site [posttranslational modification] 640510013291 intermolecular recognition site; other site 640510013292 dimerization interface [polypeptide binding]; other site 640510013293 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640510013294 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640510013295 DNA binding site [nucleotide binding] 640510013296 domain linker motif; other site 640510013297 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 640510013298 putative dimerization interface [polypeptide binding]; other site 640510013299 putative ligand binding site [chemical binding]; other site 640510013300 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 640510013301 active site 640510013302 phosphorylation site [posttranslational modification] 640510013303 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 640510013304 dimerization domain swap beta strand [polypeptide binding]; other site 640510013305 regulatory protein interface [polypeptide binding]; other site 640510013306 active site 640510013307 regulatory phosphorylation site [posttranslational modification]; other site 640510013308 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 640510013309 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 640510013310 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 640510013311 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 640510013312 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 640510013313 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 640510013314 putative substrate binding site [chemical binding]; other site 640510013315 putative ATP binding site [chemical binding]; other site 640510013316 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 640510013317 active site 640510013318 P-loop; other site 640510013319 phosphorylation site [posttranslational modification] 640510013320 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 640510013321 active site 640510013322 P-loop; other site 640510013323 phosphorylation site [posttranslational modification] 640510013324 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 640510013325 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 640510013326 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 640510013327 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 640510013328 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 640510013329 catalytic residues [active] 640510013330 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 640510013331 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 640510013332 catalytic residues [active] 640510013333 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640510013334 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510013335 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 640510013336 dimerization interface [polypeptide binding]; other site 640510013337 substrate binding pocket [chemical binding]; other site 640510013338 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 640510013339 active site 1 [active] 640510013340 dimer interface [polypeptide binding]; other site 640510013341 hexamer interface [polypeptide binding]; other site 640510013342 active site 2 [active] 640510013343 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640510013344 classical (c) SDRs; Region: SDR_c; cd05233 640510013345 NAD(P) binding site [chemical binding]; other site 640510013346 active site 640510013347 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 640510013348 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640510013349 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 640510013350 dimerization interface [polypeptide binding]; other site 640510013351 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 640510013352 dimer interface [polypeptide binding]; other site 640510013353 phosphorylation site [posttranslational modification] 640510013354 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510013355 ATP binding site [chemical binding]; other site 640510013356 Mg2+ binding site [ion binding]; other site 640510013357 G-X-G motif; other site 640510013358 osmolarity response regulator; Provisional; Region: ompR; PRK09468 640510013359 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510013360 active site 640510013361 phosphorylation site [posttranslational modification] 640510013362 intermolecular recognition site; other site 640510013363 dimerization interface [polypeptide binding]; other site 640510013364 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 640510013365 DNA binding site [nucleotide binding] 640510013366 Uncharacterized conserved protein [Function unknown]; Region: COG3791 640510013367 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 640510013368 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 640510013369 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 640510013370 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 640510013371 S-adenosylmethionine binding site [chemical binding]; other site 640510013372 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_2; cd08895 640510013373 putative hydrophobic ligand binding site [chemical binding]; other site 640510013374 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 640510013375 putative catalytic site [active] 640510013376 putative metal binding site [ion binding]; other site 640510013377 putative phosphate binding site [ion binding]; other site 640510013378 EamA-like transporter family; Region: EamA; pfam00892 640510013379 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 640510013380 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 640510013381 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 640510013382 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD_like; cd08296 640510013383 putative NAD(P) binding site [chemical binding]; other site 640510013384 putative substrate binding site [chemical binding]; other site 640510013385 catalytic Zn binding site [ion binding]; other site 640510013386 structural Zn binding site [ion binding]; other site 640510013387 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 640510013388 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 640510013389 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510013390 DNA-binding site [nucleotide binding]; DNA binding site 640510013391 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 640510013392 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510013393 homodimer interface [polypeptide binding]; other site 640510013394 catalytic residue [active] 640510013395 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 640510013396 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 640510013397 inhibitor-cofactor binding pocket; inhibition site 640510013398 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510013399 catalytic residue [active] 640510013400 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 640510013401 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_Arsenic_SBP_like; cd06330 640510013402 putative ligand binding site [chemical binding]; other site 640510013403 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640510013404 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 640510013405 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 640510013406 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640510013407 Cytochrome c; Region: Cytochrom_C; pfam00034 640510013408 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640510013409 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640510013410 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 640510013411 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 640510013412 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 640510013413 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 640510013414 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 640510013415 Amidohydrolase; Region: Amidohydro_5; pfam13594 640510013416 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 640510013417 active site 640510013418 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 640510013419 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 640510013420 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 640510013421 Walker A/P-loop; other site 640510013422 ATP binding site [chemical binding]; other site 640510013423 Q-loop/lid; other site 640510013424 ABC transporter signature motif; other site 640510013425 Walker B; other site 640510013426 D-loop; other site 640510013427 H-loop/switch region; other site 640510013428 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 640510013429 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 640510013430 Walker A/P-loop; other site 640510013431 ATP binding site [chemical binding]; other site 640510013432 Q-loop/lid; other site 640510013433 ABC transporter signature motif; other site 640510013434 Walker B; other site 640510013435 D-loop; other site 640510013436 H-loop/switch region; other site 640510013437 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640510013438 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 640510013439 TM-ABC transporter signature motif; other site 640510013440 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 640510013441 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 640510013442 TM-ABC transporter signature motif; other site 640510013443 Amino acid synthesis; Region: AA_synth; pfam06684 640510013444 Amino acid synthesis; Region: AA_synth; pfam06684 640510013445 hypothetical protein; Provisional; Region: PRK04334 640510013446 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640510013447 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640510013448 4-carboxymuconolactone decarboxylase; Region: decarb_PcaC; TIGR02425 640510013449 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 640510013450 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK09053 640510013451 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 640510013452 tetramer interface [polypeptide binding]; other site 640510013453 active site 640510013454 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 640510013455 3-oxoacid CoA-transferase, A subunit; Region: pcaI_scoA_fam; TIGR02429 640510013456 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510013457 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510013458 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 640510013459 substrate binding pocket [chemical binding]; other site 640510013460 dimerization interface [polypeptide binding]; other site 640510013461 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 640510013462 GTP cyclohydrolase I; Provisional; Region: PLN03044 640510013463 active site 640510013464 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 640510013465 EamA-like transporter family; Region: EamA; pfam00892 640510013466 EamA-like transporter family; Region: EamA; pfam00892 640510013467 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 640510013468 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 640510013469 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 640510013470 active site residue [active] 640510013471 Cache domain; Region: Cache_1; pfam02743 640510013472 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640510013473 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640510013474 metal binding site [ion binding]; metal-binding site 640510013475 active site 640510013476 I-site; other site 640510013477 CHAD domain; Region: CHAD; pfam05235 640510013478 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 640510013479 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 640510013480 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 640510013481 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 640510013482 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640510013483 active site 640510013484 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 640510013485 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 640510013486 protein binding site [polypeptide binding]; other site 640510013487 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 640510013488 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 640510013489 hypothetical protein; Provisional; Region: PRK07482 640510013490 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 640510013491 inhibitor-cofactor binding pocket; inhibition site 640510013492 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510013493 catalytic residue [active] 640510013494 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640510013495 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 640510013496 tetramerization interface [polypeptide binding]; other site 640510013497 NAD(P) binding site [chemical binding]; other site 640510013498 catalytic residues [active] 640510013499 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 640510013500 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 640510013501 putative DNA binding site [nucleotide binding]; other site 640510013502 putative Zn2+ binding site [ion binding]; other site 640510013503 AsnC family; Region: AsnC_trans_reg; pfam01037 640510013504 ectoine utilization protein EutE; Region: ectoine_eutE; TIGR02994 640510013505 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_2; cd06252 640510013506 putative active site [active] 640510013507 Zn binding site [ion binding]; other site 640510013508 ectoine utilization protein EutD; Region: ectoine_eutD; TIGR02993 640510013509 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 640510013510 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 640510013511 active site 640510013512 ectoine utilization protein EutC; Validated; Region: PRK08291 640510013513 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 640510013514 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 640510013515 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 640510013516 tetramer interface [polypeptide binding]; other site 640510013517 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510013518 catalytic residue [active] 640510013519 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510013520 DNA-binding site [nucleotide binding]; DNA binding site 640510013521 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 640510013522 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 640510013523 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510013524 homodimer interface [polypeptide binding]; other site 640510013525 catalytic residue [active] 640510013526 ectoine/hydroxyectoine ABC transporter solute-binding protein; Region: ectoine_ehuB; TIGR02995 640510013527 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 640510013528 substrate binding pocket [chemical binding]; other site 640510013529 membrane-bound complex binding site; other site 640510013530 hinge residues; other site 640510013531 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640510013532 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510013533 dimer interface [polypeptide binding]; other site 640510013534 conserved gate region; other site 640510013535 putative PBP binding loops; other site 640510013536 ABC-ATPase subunit interface; other site 640510013537 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640510013538 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510013539 dimer interface [polypeptide binding]; other site 640510013540 conserved gate region; other site 640510013541 putative PBP binding loops; other site 640510013542 ABC-ATPase subunit interface; other site 640510013543 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 640510013544 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 640510013545 Walker A/P-loop; other site 640510013546 ATP binding site [chemical binding]; other site 640510013547 Q-loop/lid; other site 640510013548 ABC transporter signature motif; other site 640510013549 Walker B; other site 640510013550 D-loop; other site 640510013551 H-loop/switch region; other site 640510013552 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510013553 putative transporter; Provisional; Region: PRK10504 640510013554 putative substrate translocation pore; other site 640510013555 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510013556 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 640510013557 active site 640510013558 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 640510013559 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 640510013560 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 640510013561 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 640510013562 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 640510013563 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 640510013564 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 640510013565 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 640510013566 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 640510013567 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510013568 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640510013569 serine O-acetyltransferase; Region: cysE; TIGR01172 640510013570 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 640510013571 trimer interface [polypeptide binding]; other site 640510013572 active site 640510013573 substrate binding site [chemical binding]; other site 640510013574 CoA binding site [chemical binding]; other site 640510013575 Transcriptional activator HlyU; Region: HlyU; cl02273 640510013576 Protein of unknown function (DUF3005); Region: DUF3005; pfam11448 640510013577 Lin1944 and related proteins, classical (c) SDRs; Region: Lin1944_like_SDR_c; cd11731 640510013578 putative NAD(P) binding site [chemical binding]; other site 640510013579 homodimer interface [polypeptide binding]; other site 640510013580 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 640510013581 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510013582 dimer interface [polypeptide binding]; other site 640510013583 conserved gate region; other site 640510013584 putative PBP binding loops; other site 640510013585 ABC-ATPase subunit interface; other site 640510013586 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 640510013587 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510013588 dimer interface [polypeptide binding]; other site 640510013589 conserved gate region; other site 640510013590 putative PBP binding loops; other site 640510013591 ABC-ATPase subunit interface; other site 640510013592 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 640510013593 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640510013594 Walker A/P-loop; other site 640510013595 ATP binding site [chemical binding]; other site 640510013596 Q-loop/lid; other site 640510013597 ABC transporter signature motif; other site 640510013598 Walker B; other site 640510013599 D-loop; other site 640510013600 H-loop/switch region; other site 640510013601 TOBE domain; Region: TOBE_2; pfam08402 640510013602 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 640510013603 hypothetical protein; Provisional; Region: PRK11622 640510013604 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 640510013605 Strictosidine synthase; Region: Str_synth; pfam03088 640510013606 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 640510013607 inhibitor site; inhibition site 640510013608 active site 640510013609 dimer interface [polypeptide binding]; other site 640510013610 catalytic residue [active] 640510013611 Autoinducer binding domain; Region: Autoind_bind; pfam03472 640510013612 LuxR family transcriptional regulatory, chaperone HchA-associated; Region: reg_near_HchA; TIGR03541 640510013613 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 640510013614 DNA binding residues [nucleotide binding] 640510013615 dimerization interface [polypeptide binding]; other site 640510013616 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 640510013617 non-specific DNA binding site [nucleotide binding]; other site 640510013618 salt bridge; other site 640510013619 sequence-specific DNA binding site [nucleotide binding]; other site 640510013620 Autoinducer synthetase; Region: Autoind_synth; cl17404 640510013621 Transcriptional regulators [Transcription]; Region: FadR; COG2186 640510013622 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510013623 DNA-binding site [nucleotide binding]; DNA binding site 640510013624 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 640510013625 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 640510013626 Ligand Binding Site [chemical binding]; other site 640510013627 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510013628 active site 640510013629 phosphorylation site [posttranslational modification] 640510013630 intermolecular recognition site; other site 640510013631 dimerization interface [polypeptide binding]; other site 640510013632 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 640510013633 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 640510013634 TPP-binding site [chemical binding]; other site 640510013635 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 640510013636 dimer interface [polypeptide binding]; other site 640510013637 PYR/PP interface [polypeptide binding]; other site 640510013638 TPP binding site [chemical binding]; other site 640510013639 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 640510013640 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 640510013641 dimerization interface [polypeptide binding]; other site 640510013642 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640510013643 dimer interface [polypeptide binding]; other site 640510013644 putative CheW interface [polypeptide binding]; other site 640510013645 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 640510013646 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 640510013647 ligand binding site [chemical binding]; other site 640510013648 flexible hinge region; other site 640510013649 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 640510013650 putative switch regulator; other site 640510013651 non-specific DNA interactions [nucleotide binding]; other site 640510013652 DNA binding site [nucleotide binding] 640510013653 sequence specific DNA binding site [nucleotide binding]; other site 640510013654 putative cAMP binding site [chemical binding]; other site 640510013655 5-histidylcysteine sulfoxide synthase; Region: ovoA_Nterm; TIGR04344 640510013656 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 640510013657 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640510013658 ALDH subfamily: NAD(P)+-dependent benzaldehyde dehydrogenase II, vanillin dehydrogenase, p-hydroxybenzaldehyde dehydrogenase and related proteins; Region: ALDH_BenzADH-like; cd07104 640510013659 NAD(P) binding site [chemical binding]; other site 640510013660 catalytic residues [active] 640510013661 Putative NAD(P)-binding; Region: NAD_binding_7; cl17660 640510013662 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 640510013663 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510013664 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640510013665 putative substrate translocation pore; other site 640510013666 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510013667 DNA-binding site [nucleotide binding]; DNA binding site 640510013668 Transcriptional regulators [Transcription]; Region: FadR; COG2186 640510013669 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510013670 DNA-binding site [nucleotide binding]; DNA binding site 640510013671 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 640510013672 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510013673 NAD(P) binding site [chemical binding]; other site 640510013674 active site 640510013675 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 640510013676 Retinal pigment epithelial membrane protein; Region: RPE65; pfam03055 640510013677 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 640510013678 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640510013679 active site 640510013680 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 640510013681 Acetoacetate decarboxylase (ADC); Region: ADC; pfam06314 640510013682 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640510013683 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 640510013684 NAD(P) binding site [chemical binding]; other site 640510013685 catalytic residues [active] 640510013686 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 640510013687 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 640510013688 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 640510013689 N-terminal domain of 2,4,5-trihydroxytoluene (THT) oxygenase; Region: THT_Oxygenase_N; cd07267 640510013690 3,4-dihydroxyphenylacetate 2,3-dioxygenase; Region: HpaD; TIGR02295 640510013691 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 640510013692 putative active site [active] 640510013693 putative metal binding site [ion binding]; other site 640510013694 Transcriptional regulators [Transcription]; Region: GntR; COG1802 640510013695 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510013696 DNA-binding site [nucleotide binding]; DNA binding site 640510013697 FCD domain; Region: FCD; pfam07729 640510013698 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510013699 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640510013700 putative substrate translocation pore; other site 640510013701 3-(3-hydroxyphenyl)propionate hydroxylase; Validated; Region: mhpA; PRK06183 640510013702 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 640510013703 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640510013704 C-terminal domain of type I, class II extradiol dioxygenases; catalytic domain; Region: ED_TypeI_classII_C; cd08343 640510013705 active site 640510013706 metal binding site [ion binding]; metal-binding site 640510013707 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 640510013708 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 640510013709 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 640510013710 hypothetical protein; Provisional; Region: PRK06194 640510013711 classical (c) SDRs; Region: SDR_c; cd05233 640510013712 NAD(P) binding site [chemical binding]; other site 640510013713 active site 640510013714 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640510013715 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510013716 NAD(P) binding site [chemical binding]; other site 640510013717 active site 640510013718 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 640510013719 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640510013720 active site 640510013721 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 640510013722 Retinal pigment epithelial membrane protein; Region: RPE65; pfam03055 640510013723 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 640510013724 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510013725 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640510013726 putative substrate translocation pore; other site 640510013727 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 640510013728 DNA-binding site [nucleotide binding]; DNA binding site 640510013729 Transcriptional regulators [Transcription]; Region: FadR; COG2186 640510013730 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640510013731 ALDH subfamily: NAD(P)+-dependent benzaldehyde dehydrogenase II, vanillin dehydrogenase, p-hydroxybenzaldehyde dehydrogenase and related proteins; Region: ALDH_BenzADH-like; cd07104 640510013732 NAD(P) binding site [chemical binding]; other site 640510013733 catalytic residues [active] 640510013734 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 640510013735 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 640510013736 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 640510013737 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 640510013738 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 640510013739 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 640510013740 putative DNA binding site [nucleotide binding]; other site 640510013741 putative Zn2+ binding site [ion binding]; other site 640510013742 AsnC family; Region: AsnC_trans_reg; pfam01037 640510013743 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 640510013744 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 640510013745 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510013746 dimer interface [polypeptide binding]; other site 640510013747 conserved gate region; other site 640510013748 putative PBP binding loops; other site 640510013749 ABC-ATPase subunit interface; other site 640510013750 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 640510013751 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640510013752 Walker A/P-loop; other site 640510013753 ATP binding site [chemical binding]; other site 640510013754 Q-loop/lid; other site 640510013755 ABC transporter signature motif; other site 640510013756 Walker B; other site 640510013757 D-loop; other site 640510013758 H-loop/switch region; other site 640510013759 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 640510013760 NIPSNAP; Region: NIPSNAP; pfam07978 640510013761 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 640510013762 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 640510013763 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 640510013764 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 640510013765 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 640510013766 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 640510013767 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640510013768 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 640510013769 NAD(P) binding site [chemical binding]; other site 640510013770 catalytic residues [active] 640510013771 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 640510013772 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 640510013773 nudix motif; other site 640510013774 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 640510013775 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 640510013776 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 640510013777 Amino acid synthesis; Region: AA_synth; pfam06684 640510013778 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 640510013779 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 640510013780 putative ligand binding site [chemical binding]; other site 640510013781 NAD binding site [chemical binding]; other site 640510013782 dimerization interface [polypeptide binding]; other site 640510013783 catalytic site [active] 640510013784 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640510013785 Uncharacterized conserved protein [Function unknown]; Region: COG5476 640510013786 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 640510013787 MlrC C-terminus; Region: MlrC_C; pfam07171 640510013788 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 640510013789 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510013790 putative substrate translocation pore; other site 640510013791 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510013792 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510013793 The 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 640510013794 dimerization interface [polypeptide binding]; other site 640510013795 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640510013796 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640510013797 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 640510013798 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 640510013799 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640510013800 HlyD family secretion protein; Region: HlyD_3; pfam13437 640510013801 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640510013802 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 640510013803 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 640510013804 dimerization interface [polypeptide binding]; other site 640510013805 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 640510013806 dimer interface [polypeptide binding]; other site 640510013807 phosphorylation site [posttranslational modification] 640510013808 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510013809 ATP binding site [chemical binding]; other site 640510013810 Mg2+ binding site [ion binding]; other site 640510013811 G-X-G motif; other site 640510013812 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 640510013813 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510013814 active site 640510013815 phosphorylation site [posttranslational modification] 640510013816 intermolecular recognition site; other site 640510013817 dimerization interface [polypeptide binding]; other site 640510013818 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 640510013819 DNA binding site [nucleotide binding] 640510013820 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640510013821 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 640510013822 dimer interface [polypeptide binding]; other site 640510013823 phosphorylation site [posttranslational modification] 640510013824 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510013825 ATP binding site [chemical binding]; other site 640510013826 Mg2+ binding site [ion binding]; other site 640510013827 G-X-G motif; other site 640510013828 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640510013829 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640510013830 short chain dehydrogenase; Validated; Region: PRK08264 640510013831 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510013832 NAD(P) binding site [chemical binding]; other site 640510013833 active site 640510013834 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 640510013835 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 640510013836 Phosphoesterase family; Region: Phosphoesterase; pfam04185 640510013837 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 640510013838 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 640510013839 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 640510013840 active site 640510013841 substrate binding site [chemical binding]; other site 640510013842 putative catalytic residues [active] 640510013843 FMN binding site [chemical binding]; other site 640510013844 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 640510013845 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 640510013846 active site 640510013847 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510013848 putative substrate translocation pore; other site 640510013849 H+ Antiporter protein; Region: 2A0121; TIGR00900 640510013850 benzoate transport; Region: 2A0115; TIGR00895 640510013851 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510013852 putative substrate translocation pore; other site 640510013853 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 640510013854 Amidohydrolase; Region: Amidohydro_2; pfam04909 640510013855 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640510013856 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 640510013857 trimer interface [polypeptide binding]; other site 640510013858 eyelet of channel; other site 640510013859 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 640510013860 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510013861 putative substrate translocation pore; other site 640510013862 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 640510013863 Strictosidine synthase; Region: Str_synth; pfam03088 640510013864 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 640510013865 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 640510013866 ligand binding site [chemical binding]; other site 640510013867 NAD binding site [chemical binding]; other site 640510013868 dimerization interface [polypeptide binding]; other site 640510013869 catalytic site [active] 640510013870 hypothetical protein; Validated; Region: PRK06201 640510013871 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 640510013872 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 640510013873 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640510013874 SnoaL-like domain; Region: SnoaL_2; pfam12680 640510013875 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640510013876 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510013877 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 640510013878 dimerization interface [polypeptide binding]; other site 640510013879 substrate binding pocket [chemical binding]; other site 640510013880 TIGR02594 family protein; Region: TIGR02594 640510013881 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 640510013882 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 640510013883 motif II; other site 640510013884 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510013885 putative substrate translocation pore; other site 640510013886 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640510013887 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 640510013888 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510013889 NAD(P) binding site [chemical binding]; other site 640510013890 active site 640510013891 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510013892 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510013893 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 640510013894 putative effector binding pocket; other site 640510013895 dimerization interface [polypeptide binding]; other site 640510013896 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 640510013897 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 640510013898 short chain dehydrogenase; Provisional; Region: PRK06180 640510013899 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 640510013900 NADP binding site [chemical binding]; other site 640510013901 active site 640510013902 steroid binding site; other site 640510013903 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 640510013904 nudix motif; other site 640510013905 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 640510013906 S-adenosylmethionine binding site [chemical binding]; other site 640510013907 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 640510013908 SnoaL-like domain; Region: SnoaL_2; pfam12680 640510013909 cyanate hydratase; Validated; Region: PRK02866 640510013910 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 640510013911 oligomer interface [polypeptide binding]; other site 640510013912 active site 640510013913 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 640510013914 active site clefts [active] 640510013915 zinc binding site [ion binding]; other site 640510013916 dimer interface [polypeptide binding]; other site 640510013917 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 640510013918 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510013919 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator CynR, contains the type 2 periplasmic binding fold; Region: PBP2_CynR; cd08425 640510013920 dimerization interface [polypeptide binding]; other site 640510013921 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 640510013922 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 640510013923 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 640510013924 Ferritin-CCC1, N-terminal ferritin-like diiron-binding domain; Region: Ferritin_CCC1_N; cd01044 640510013925 diiron binding motif [ion binding]; other site 640510013926 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_2; cd02433 640510013927 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 640510013928 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 640510013929 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 640510013930 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640510013931 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640510013932 metal binding site [ion binding]; metal-binding site 640510013933 active site 640510013934 I-site; other site 640510013935 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 640510013936 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 640510013937 acyl-activating enzyme (AAE) consensus motif; other site 640510013938 AMP binding site [chemical binding]; other site 640510013939 active site 640510013940 CoA binding site [chemical binding]; other site 640510013941 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 640510013942 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 640510013943 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 640510013944 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640510013945 hydroxyglutarate oxidase; Provisional; Region: PRK11728 640510013946 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510013947 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510013948 The 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 640510013949 dimerization interface [polypeptide binding]; other site 640510013950 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 640510013951 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 640510013952 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 640510013953 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 640510013954 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640510013955 dimer interface [polypeptide binding]; other site 640510013956 putative CheW interface [polypeptide binding]; other site 640510013957 Cupin; Region: Cupin_6; pfam12852 640510013958 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640510013959 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510013960 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 640510013961 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 640510013962 NADP binding site [chemical binding]; other site 640510013963 active site 640510013964 steroid binding site; other site 640510013965 LysR family transcriptional regulator; Provisional; Region: PRK14997 640510013966 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 640510013967 putative effector binding pocket; other site 640510013968 dimerization interface [polypeptide binding]; other site 640510013969 NmrA-like family; Region: NmrA; pfam05368 640510013970 NmrA (a transcriptional regulator) and HSCARG (an NADPH sensor) like proteins, atypical (a) SDRs; Region: NmrA_like_SDR_a; cd05251 640510013971 NADP binding site [chemical binding]; other site 640510013972 active site 640510013973 regulatory binding site [polypeptide binding]; other site 640510013974 hypothetical protein; Provisional; Region: PRK05939 640510013975 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 640510013976 homodimer interface [polypeptide binding]; other site 640510013977 substrate-cofactor binding pocket; other site 640510013978 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510013979 catalytic residue [active] 640510013980 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 640510013981 Esterase/lipase [General function prediction only]; Region: COG1647 640510013982 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 640510013983 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510013984 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510013985 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 640510013986 putative dimerization interface [polypeptide binding]; other site 640510013987 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 640510013988 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 640510013989 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 640510013990 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 640510013991 citrate-proton symporter; Provisional; Region: PRK15075 640510013992 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510013993 putative substrate translocation pore; other site 640510013994 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 640510013995 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 640510013996 putative active site [active] 640510013997 heme pocket [chemical binding]; other site 640510013998 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 640510013999 dimer interface [polypeptide binding]; other site 640510014000 phosphorylation site [posttranslational modification] 640510014001 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510014002 ATP binding site [chemical binding]; other site 640510014003 Mg2+ binding site [ion binding]; other site 640510014004 G-X-G motif; other site 640510014005 Response regulator receiver domain; Region: Response_reg; pfam00072 640510014006 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510014007 active site 640510014008 phosphorylation site [posttranslational modification] 640510014009 intermolecular recognition site; other site 640510014010 dimerization interface [polypeptide binding]; other site 640510014011 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 640510014012 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640510014013 TIGR03118 family protein; Region: PEPCTERM_chp_1 640510014014 PRC-barrel domain; Region: PRC; pfam05239 640510014015 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510014016 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510014017 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 640510014018 putative effector binding pocket; other site 640510014019 dimerization interface [polypeptide binding]; other site 640510014020 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 640510014021 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510014022 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 640510014023 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 640510014024 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 640510014025 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 640510014026 D-alanyl-D-alanine dipeptidase; Provisional; Region: PRK10178 640510014027 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 640510014028 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 640510014029 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 640510014030 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510014031 dimer interface [polypeptide binding]; other site 640510014032 conserved gate region; other site 640510014033 putative PBP binding loops; other site 640510014034 ABC-ATPase subunit interface; other site 640510014035 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 640510014036 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 640510014037 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510014038 dimer interface [polypeptide binding]; other site 640510014039 conserved gate region; other site 640510014040 putative PBP binding loops; other site 640510014041 ABC-ATPase subunit interface; other site 640510014042 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 640510014043 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640510014044 Walker A/P-loop; other site 640510014045 ATP binding site [chemical binding]; other site 640510014046 Q-loop/lid; other site 640510014047 ABC transporter signature motif; other site 640510014048 Walker B; other site 640510014049 D-loop; other site 640510014050 H-loop/switch region; other site 640510014051 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640510014052 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 640510014053 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640510014054 Walker A/P-loop; other site 640510014055 ATP binding site [chemical binding]; other site 640510014056 Q-loop/lid; other site 640510014057 ABC transporter signature motif; other site 640510014058 Walker B; other site 640510014059 D-loop; other site 640510014060 H-loop/switch region; other site 640510014061 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 640510014062 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 640510014063 dimerization interface [polypeptide binding]; other site 640510014064 ligand binding site [chemical binding]; other site 640510014065 Shikimate / quinate 5-dehydrogenase; Region: Shikimate_DH; pfam01488 640510014066 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640510014067 CheB methylesterase; Region: CheB_methylest; pfam01339 640510014068 PAS fold; Region: PAS; pfam00989 640510014069 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 640510014070 putative active site [active] 640510014071 heme pocket [chemical binding]; other site 640510014072 PAS domain; Region: PAS_10; pfam13596 640510014073 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 640510014074 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 640510014075 putative active site [active] 640510014076 heme pocket [chemical binding]; other site 640510014077 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 640510014078 dimer interface [polypeptide binding]; other site 640510014079 phosphorylation site [posttranslational modification] 640510014080 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510014081 ATP binding site [chemical binding]; other site 640510014082 Mg2+ binding site [ion binding]; other site 640510014083 G-X-G motif; other site 640510014084 Response regulator receiver domain; Region: Response_reg; pfam00072 640510014085 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510014086 active site 640510014087 phosphorylation site [posttranslational modification] 640510014088 intermolecular recognition site; other site 640510014089 dimerization interface [polypeptide binding]; other site 640510014090 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640510014091 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 640510014092 trimer interface [polypeptide binding]; other site 640510014093 eyelet of channel; other site 640510014094 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 640510014095 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 640510014096 active site 640510014097 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640510014098 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510014099 ATP binding site [chemical binding]; other site 640510014100 Mg2+ binding site [ion binding]; other site 640510014101 G-X-G motif; other site 640510014102 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 640510014103 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510014104 active site 640510014105 phosphorylation site [posttranslational modification] 640510014106 intermolecular recognition site; other site 640510014107 dimerization interface [polypeptide binding]; other site 640510014108 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 640510014109 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510014110 active site 640510014111 phosphorylation site [posttranslational modification] 640510014112 intermolecular recognition site; other site 640510014113 dimerization interface [polypeptide binding]; other site 640510014114 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640510014115 Coenzyme A binding pocket [chemical binding]; other site 640510014116 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 640510014117 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 640510014118 active site 640510014119 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 640510014120 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 640510014121 Surface antigen; Region: Bac_surface_Ag; pfam01103 640510014122 haemagglutination activity domain; Region: Haemagg_act; smart00912 640510014123 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 640510014124 PAS domain; Region: PAS_9; pfam13426 640510014125 putative active site [active] 640510014126 heme pocket [chemical binding]; other site 640510014127 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 640510014128 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 640510014129 putative active site [active] 640510014130 heme pocket [chemical binding]; other site 640510014131 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 640510014132 heme pocket [chemical binding]; other site 640510014133 putative active site [active] 640510014134 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 640510014135 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640510014136 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 640510014137 dimer interface [polypeptide binding]; other site 640510014138 phosphorylation site [posttranslational modification] 640510014139 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510014140 ATP binding site [chemical binding]; other site 640510014141 Mg2+ binding site [ion binding]; other site 640510014142 G-X-G motif; other site 640510014143 Response regulator receiver domain; Region: Response_reg; pfam00072 640510014144 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510014145 active site 640510014146 phosphorylation site [posttranslational modification] 640510014147 intermolecular recognition site; other site 640510014148 dimerization interface [polypeptide binding]; other site 640510014149 potassium-tellurite ethidium and proflavin transporter; Provisional; Region: PRK10764 640510014150 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 640510014151 gating phenylalanine in ion channel; other site 640510014152 ABC transporter periplasmic binding protein, urea carboxylase region; Region: ABC_peri_uca; TIGR03427 640510014153 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 640510014154 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 640510014155 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 640510014156 nitrate transport ATP-binding subunits C and D; Region: ntrCD; TIGR01184 640510014157 Walker A/P-loop; other site 640510014158 ATP binding site [chemical binding]; other site 640510014159 Q-loop/lid; other site 640510014160 ABC transporter signature motif; other site 640510014161 Walker B; other site 640510014162 D-loop; other site 640510014163 H-loop/switch region; other site 640510014164 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 640510014165 urea carboxylase-associated protein 2; Region: urea_degr_2; TIGR03425 640510014166 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 640510014167 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 640510014168 urea carboxylase; Region: urea_carbox; TIGR02712 640510014169 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 640510014170 ATP-grasp domain; Region: ATP-grasp_4; cl17255 640510014171 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 640510014172 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 640510014173 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 640510014174 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 640510014175 carboxyltransferase (CT) interaction site; other site 640510014176 biotinylation site [posttranslational modification]; other site 640510014177 allophanate hydrolase; Provisional; Region: PRK08186 640510014178 Amidase; Region: Amidase; cl11426 640510014179 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640510014180 ligand binding site [chemical binding]; other site 640510014181 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 640510014182 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 640510014183 trimer interface [polypeptide binding]; other site 640510014184 YadA-like C-terminal region; Region: YadA; pfam03895 640510014185 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 640510014186 trimer interface [polypeptide binding]; other site 640510014187 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 640510014188 trimer interface [polypeptide binding]; other site 640510014189 Haemagglutinin; Region: HIM; pfam05662 640510014190 Response regulator receiver domain; Region: Response_reg; pfam00072 640510014191 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510014192 active site 640510014193 phosphorylation site [posttranslational modification] 640510014194 intermolecular recognition site; other site 640510014195 dimerization interface [polypeptide binding]; other site 640510014196 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640510014197 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510014198 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 640510014199 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 640510014200 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640510014201 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 640510014202 dimer interface [polypeptide binding]; other site 640510014203 phosphorylation site [posttranslational modification] 640510014204 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510014205 ATP binding site [chemical binding]; other site 640510014206 Mg2+ binding site [ion binding]; other site 640510014207 G-X-G motif; other site 640510014208 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 640510014209 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 640510014210 N-terminal plug; other site 640510014211 ligand-binding site [chemical binding]; other site 640510014212 PAS domain; Region: PAS; smart00091 640510014213 putative active site [active] 640510014214 heme pocket [chemical binding]; other site 640510014215 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 640510014216 PAS fold; Region: PAS_3; pfam08447 640510014217 putative active site [active] 640510014218 heme pocket [chemical binding]; other site 640510014219 PAS domain S-box; Region: sensory_box; TIGR00229 640510014220 PAS domain S-box; Region: sensory_box; TIGR00229 640510014221 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 640510014222 putative active site [active] 640510014223 heme pocket [chemical binding]; other site 640510014224 PAS fold; Region: PAS_4; pfam08448 640510014225 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 640510014226 putative active site [active] 640510014227 heme pocket [chemical binding]; other site 640510014228 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640510014229 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640510014230 metal binding site [ion binding]; metal-binding site 640510014231 active site 640510014232 I-site; other site 640510014233 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 640510014234 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640510014235 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640510014236 metal binding site [ion binding]; metal-binding site 640510014237 active site 640510014238 I-site; other site 640510014239 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 640510014240 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 640510014241 substrate binding pocket [chemical binding]; other site 640510014242 membrane-bound complex binding site; other site 640510014243 hinge residues; other site 640510014244 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 640510014245 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 640510014246 putative dimer interface [polypeptide binding]; other site 640510014247 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640510014248 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640510014249 metal binding site [ion binding]; metal-binding site 640510014250 active site 640510014251 I-site; other site 640510014252 Uncharacterized bacterial subgroup of the Salmonella typhimurium Zn2+ transporter ZntB-like subfamily; Region: ZntB_u1; cd12834 640510014253 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 640510014254 Cl binding site [ion binding]; other site 640510014255 oligomer interface [polypeptide binding]; other site 640510014256 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 640510014257 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640510014258 dimer interface [polypeptide binding]; other site 640510014259 putative CheW interface [polypeptide binding]; other site 640510014260 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 640510014261 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640510014262 ligand binding site [chemical binding]; other site 640510014263 Leucine rich repeat; Region: LRR_8; pfam13855 640510014264 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 640510014265 Protein tyrosine kinase; Region: Pkinase_Tyr; pfam07714 640510014266 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 640510014267 active site 640510014268 ATP binding site [chemical binding]; other site 640510014269 substrate binding site [chemical binding]; other site 640510014270 activation loop (A-loop); other site 640510014271 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 640510014272 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 640510014273 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 640510014274 DNA binding site [nucleotide binding] 640510014275 active site 640510014276 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 640510014277 Cache domain; Region: Cache_2; pfam08269 640510014278 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640510014279 dimer interface [polypeptide binding]; other site 640510014280 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 640510014281 putative CheW interface [polypeptide binding]; other site 640510014282 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510014283 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640510014284 putative substrate translocation pore; other site 640510014285 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510014286 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 640510014287 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 640510014288 putative active site [active] 640510014289 catalytic residue [active] 640510014290 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 640510014291 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 640510014292 active site 640510014293 tetramer interface [polypeptide binding]; other site 640510014294 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510014295 D-galactonate transporter; Region: 2A0114; TIGR00893 640510014296 putative substrate translocation pore; other site 640510014297 Transcriptional regulators [Transcription]; Region: FadR; COG2186 640510014298 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510014299 DNA-binding site [nucleotide binding]; DNA binding site 640510014300 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 640510014301 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 640510014302 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 640510014303 Citrate transporter; Region: CitMHS; pfam03600 640510014304 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510014305 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510014306 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 640510014307 putative dimerization interface [polypeptide binding]; other site 640510014308 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 640510014309 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640510014310 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 640510014311 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 640510014312 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 640510014313 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 640510014314 Uncharacterized conserved protein [Function unknown]; Region: COG1359 640510014315 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 640510014316 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 640510014317 putative active site [active] 640510014318 metal binding site [ion binding]; metal-binding site 640510014319 Phospholipid methyltransferase; Region: PEMT; cl17370 640510014320 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 640510014321 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 640510014322 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640510014323 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 640510014324 dimer interface [polypeptide binding]; other site 640510014325 phosphorylation site [posttranslational modification] 640510014326 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510014327 ATP binding site [chemical binding]; other site 640510014328 Mg2+ binding site [ion binding]; other site 640510014329 G-X-G motif; other site 640510014330 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 640510014331 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510014332 active site 640510014333 phosphorylation site [posttranslational modification] 640510014334 intermolecular recognition site; other site 640510014335 dimerization interface [polypeptide binding]; other site 640510014336 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 640510014337 DNA binding site [nucleotide binding] 640510014338 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 640510014339 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 640510014340 membrane-bound complex binding site; other site 640510014341 hinge residues; other site 640510014342 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 640510014343 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 640510014344 Walker A/P-loop; other site 640510014345 ATP binding site [chemical binding]; other site 640510014346 Q-loop/lid; other site 640510014347 ABC transporter signature motif; other site 640510014348 Walker B; other site 640510014349 D-loop; other site 640510014350 H-loop/switch region; other site 640510014351 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 640510014352 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510014353 dimer interface [polypeptide binding]; other site 640510014354 conserved gate region; other site 640510014355 putative PBP binding loops; other site 640510014356 ABC-ATPase subunit interface; other site 640510014357 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 640510014358 binding surface 640510014359 TPR motif; other site 640510014360 Tetratricopeptide repeat; Region: TPR_12; pfam13424 640510014361 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 640510014362 binding surface 640510014363 TPR motif; other site 640510014364 TPR repeat; Region: TPR_11; pfam13414 640510014365 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 640510014366 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 640510014367 Phosphoesterase family; Region: Phosphoesterase; pfam04185 640510014368 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640510014369 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 640510014370 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 640510014371 active site lid residues [active] 640510014372 substrate binding pocket [chemical binding]; other site 640510014373 catalytic residues [active] 640510014374 substrate-Mg2+ binding site; other site 640510014375 aspartate-rich region 1; other site 640510014376 aspartate-rich region 2; other site 640510014377 MarR family; Region: MarR_2; cl17246 640510014378 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640510014379 circadian clock protein KaiC; Reviewed; Region: PRK09302 640510014380 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 640510014381 ATP binding site [chemical binding]; other site 640510014382 Walker A motif; other site 640510014383 Walker B motif; other site 640510014384 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 640510014385 ATP binding site [chemical binding]; other site 640510014386 Walker A motif; other site 640510014387 Walker B motif; other site 640510014388 Response regulator receiver domain; Region: Response_reg; pfam00072 640510014389 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510014390 active site 640510014391 phosphorylation site [posttranslational modification] 640510014392 intermolecular recognition site; other site 640510014393 dimerization interface [polypeptide binding]; other site 640510014394 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 640510014395 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640510014396 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510014397 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 640510014398 putative dimerization interface [polypeptide binding]; other site 640510014399 putative substrate binding pocket [chemical binding]; other site 640510014400 Lecithin retinol acyltransferase; Region: LRAT; pfam04970 640510014401 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 640510014402 active site 640510014403 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 640510014404 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 640510014405 Walker A motif; other site 640510014406 ATP binding site [chemical binding]; other site 640510014407 Walker B motif; other site 640510014408 arginine finger; other site 640510014409 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 640510014410 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 640510014411 ligand binding site [chemical binding]; other site 640510014412 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 640510014413 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 640510014414 ligand binding site [chemical binding]; other site 640510014415 flexible hinge region; other site 640510014416 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 640510014417 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39B; cd02418 640510014418 putative active site [active] 640510014419 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 640510014420 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640510014421 Walker A/P-loop; other site 640510014422 ATP binding site [chemical binding]; other site 640510014423 Q-loop/lid; other site 640510014424 ABC transporter signature motif; other site 640510014425 Walker B; other site 640510014426 D-loop; other site 640510014427 H-loop/switch region; other site 640510014428 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 640510014429 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 640510014430 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 640510014431 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640510014432 HlyD family secretion protein; Region: HlyD_3; pfam13437 640510014433 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 640510014434 phosphopeptide binding site; other site 640510014435 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 640510014436 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 640510014437 phosphopeptide binding site; other site 640510014438 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 640510014439 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640510014440 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 640510014441 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 640510014442 Caspase domain; Region: Peptidase_C14; pfam00656 640510014443 Uncharacterized conserved protein [Function unknown]; Region: COG1262 640510014444 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 640510014445 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 640510014446 Catalytic domain of Protein Kinases; Region: PKc; cd00180 640510014447 active site 640510014448 ATP binding site [chemical binding]; other site 640510014449 substrate binding site [chemical binding]; other site 640510014450 activation loop (A-loop); other site 640510014451 Domain of unknown function (DUF4384); Region: DUF4384; pfam14326 640510014452 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640510014453 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640510014454 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510014455 putative substrate translocation pore; other site 640510014456 Protein of unknown function (DUF3309); Region: DUF3309; pfam11752 640510014457 glucose-1-dehydrogenase; Provisional; Region: PRK08936 640510014458 glucose 1 dehydrogenase (GlcDH), classical (c) SDRs; Region: GlcDH_SDR_c; cd05358 640510014459 NAD binding site [chemical binding]; other site 640510014460 homodimer interface [polypeptide binding]; other site 640510014461 active site 640510014462 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 640510014463 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 640510014464 putative DNA binding site [nucleotide binding]; other site 640510014465 putative Zn2+ binding site [ion binding]; other site 640510014466 AsnC family; Region: AsnC_trans_reg; pfam01037 640510014467 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 640510014468 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510014469 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 640510014470 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 640510014471 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510014472 D-galactonate transporter; Region: 2A0114; TIGR00893 640510014473 putative substrate translocation pore; other site 640510014474 Protein of unknown function (DUF2783); Region: DUF2783; pfam10932 640510014475 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 640510014476 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 640510014477 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 640510014478 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640510014479 Bacterial transcriptional regulator; Region: IclR; pfam01614 640510014480 Bacterial transcriptional regulator; Region: IclR; pfam01614 640510014481 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 640510014482 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 640510014483 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 640510014484 putative active site [active] 640510014485 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 640510014486 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 640510014487 Walker A/P-loop; other site 640510014488 ATP binding site [chemical binding]; other site 640510014489 Q-loop/lid; other site 640510014490 ABC transporter signature motif; other site 640510014491 Walker B; other site 640510014492 D-loop; other site 640510014493 H-loop/switch region; other site 640510014494 TOBE domain; Region: TOBE_2; pfam08402 640510014495 short chain dehydrogenase; Provisional; Region: PRK07074 640510014496 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510014497 NAD(P) binding site [chemical binding]; other site 640510014498 active site 640510014499 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 640510014500 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 640510014501 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 640510014502 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 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 putative PBP binding loops; other site 640510014506 ABC-ATPase subunit interface; other site 640510014507 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 640510014508 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510014509 dimer interface [polypeptide binding]; other site 640510014510 conserved gate region; other site 640510014511 putative PBP binding loops; other site 640510014512 ABC-ATPase subunit interface; other site 640510014513 Protein of unknown function (DUF1330); Region: DUF1330; pfam07045 640510014514 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 640510014515 active site 640510014516 tetramer interface; other site 640510014517 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510014518 D-galactonate transporter; Region: 2A0114; TIGR00893 640510014519 putative substrate translocation pore; other site 640510014520 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510014521 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510014522 LysR substrate binding domain; Region: LysR_substrate; pfam03466 640510014523 dimerization interface [polypeptide binding]; other site 640510014524 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 640510014525 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640510014526 SAM (Sterile alpha motif ); Region: SAM_superfamily; cl15755 640510014527 enoyl-CoA hydratase; Provisional; Region: PRK06144 640510014528 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 640510014529 substrate binding site [chemical binding]; other site 640510014530 oxyanion hole (OAH) forming residues; other site 640510014531 trimer interface [polypeptide binding]; other site 640510014532 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 640510014533 Interdomain contacts; other site 640510014534 Cytokine receptor motif; other site 640510014535 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 640510014536 active site 640510014537 metal binding site [ion binding]; metal-binding site 640510014538 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640510014539 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640510014540 metal binding site [ion binding]; metal-binding site 640510014541 active site 640510014542 I-site; other site 640510014543 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 640510014544 Protein of unknown function (DUF1697); Region: DUF1697; pfam08002 640510014545 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 640510014546 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 640510014547 PQQ-like domain; Region: PQQ_2; pfam13360 640510014548 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640510014549 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 640510014550 conserved cys residue [active] 640510014551 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510014552 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 640510014553 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510014554 NAD(P) binding site [chemical binding]; other site 640510014555 active site 640510014556 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510014557 metabolite-proton symporter; Region: 2A0106; TIGR00883 640510014558 putative substrate translocation pore; other site 640510014559 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 640510014560 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640510014561 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640510014562 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 640510014563 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640510014564 HlyD family secretion protein; Region: HlyD_3; pfam13437 640510014565 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 640510014566 short chain dehydrogenase; Provisional; Region: PRK06179 640510014567 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 640510014568 NADP binding site [chemical binding]; other site 640510014569 active site 640510014570 steroid binding site; other site 640510014571 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 640510014572 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 640510014573 dimer interface [polypeptide binding]; other site 640510014574 active site 640510014575 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 640510014576 substrate binding site [chemical binding]; other site 640510014577 catalytic residue [active] 640510014578 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 640510014579 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640510014580 NAD binding site [chemical binding]; other site 640510014581 catalytic residues [active] 640510014582 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510014583 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510014584 The 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 640510014585 dimerization interface [polypeptide binding]; other site 640510014586 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]; Region: COG3970 640510014587 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 640510014588 dihydroxy-acid dehydratase; Provisional; Region: PRK13017 640510014589 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640510014590 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640510014591 DNA binding site [nucleotide binding] 640510014592 domain linker motif; other site 640510014593 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 640510014594 putative dimerization interface [polypeptide binding]; other site 640510014595 putative ligand binding site [chemical binding]; other site 640510014596 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510014597 D-galactonate transporter; Region: 2A0114; TIGR00893 640510014598 putative substrate translocation pore; other site 640510014599 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510014600 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510014601 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 640510014602 putative effector binding pocket; other site 640510014603 dimerization interface [polypeptide binding]; other site 640510014604 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 640510014605 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510014606 putative substrate translocation pore; other site 640510014607 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 640510014608 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 640510014609 dimerization interface [polypeptide binding]; other site 640510014610 ligand binding site [chemical binding]; other site 640510014611 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640510014612 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 640510014613 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 640510014614 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 640510014615 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 640510014616 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510014617 DNA-binding site [nucleotide binding]; DNA binding site 640510014618 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 640510014619 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510014620 homodimer interface [polypeptide binding]; other site 640510014621 catalytic residue [active] 640510014622 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 640510014623 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 640510014624 active site 640510014625 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 640510014626 salicylyl-CoA 5-hydroxylase; Reviewed; Region: PRK08255 640510014627 hypothetical protein; Provisional; Region: PRK07236 640510014628 hypothetical protein; Provisional; Region: PRK07236 640510014629 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 640510014630 active site 640510014631 FMN binding site [chemical binding]; other site 640510014632 substrate binding site [chemical binding]; other site 640510014633 homotetramer interface [polypeptide binding]; other site 640510014634 catalytic residue [active] 640510014635 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640510014636 classical (c) SDRs; Region: SDR_c; cd05233 640510014637 NAD(P) binding site [chemical binding]; other site 640510014638 active site 640510014639 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640510014640 MarR family; Region: MarR; pfam01047 640510014641 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 640510014642 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 640510014643 substrate binding site [chemical binding]; other site 640510014644 oxyanion hole (OAH) forming residues; other site 640510014645 trimer interface [polypeptide binding]; other site 640510014646 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 640510014647 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 640510014648 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640510014649 active site 640510014650 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 640510014651 active site 640510014652 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 640510014653 homotrimer interaction site [polypeptide binding]; other site 640510014654 putative active site [active] 640510014655 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 640510014656 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 640510014657 acyl-activating enzyme (AAE) consensus motif; other site 640510014658 AMP binding site [chemical binding]; other site 640510014659 active site 640510014660 CoA binding site [chemical binding]; other site 640510014661 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 640510014662 SnoaL-like domain; Region: SnoaL_2; pfam12680 640510014663 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510014664 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640510014665 putative substrate translocation pore; other site 640510014666 TPR repeat; Region: TPR_11; pfam13414 640510014667 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 640510014668 binding surface 640510014669 TPR motif; other site 640510014670 Tetratricopeptide repeat; Region: TPR_12; pfam13424 640510014671 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 640510014672 binding surface 640510014673 TPR motif; other site 640510014674 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 640510014675 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 640510014676 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640510014677 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 640510014678 cyclase homology domain; Region: CHD; cd07302 640510014679 nucleotidyl binding site; other site 640510014680 metal binding site [ion binding]; metal-binding site 640510014681 dimer interface [polypeptide binding]; other site 640510014682 Transposase, Mutator family; Region: Transposase_mut; pfam00872 640510014683 Histone acetyltransferase HPA2 and related acetyltransferases [Transcription / General function prediction only]; Region: WecD; COG0454 640510014684 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640510014685 Coenzyme A binding pocket [chemical binding]; other site 640510014686 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 640510014687 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 640510014688 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510014689 DNA-binding site [nucleotide binding]; DNA binding site 640510014690 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 640510014691 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510014692 homodimer interface [polypeptide binding]; other site 640510014693 catalytic residue [active] 640510014694 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 640510014695 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 640510014696 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 640510014697 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 640510014698 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 640510014699 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510014700 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 640510014701 dimerization interface [polypeptide binding]; other site 640510014702 substrate binding pocket [chemical binding]; other site 640510014703 Predicted permeases [General function prediction only]; Region: COG0679 640510014704 Domain of unknown function (DUF4337); Region: DUF4337; pfam14235 640510014705 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 640510014706 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 640510014707 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640510014708 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 640510014709 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640510014710 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 640510014711 YCII-related domain; Region: YCII; cl00999 640510014712 PAAR motif; Region: PAAR_motif; pfam05488 640510014713 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 640510014714 Dopa 4,5-dioxygenase family; Region: DOPA_dioxygen; pfam08883 640510014715 High potential iron-sulfur protein; Region: HIPIP; pfam01355 640510014716 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 640510014717 putative FMN binding site [chemical binding]; other site 640510014718 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 640510014719 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 640510014720 active site 640510014721 catalytic tetrad [active] 640510014722 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 640510014723 substrate binding site [chemical binding]; other site 640510014724 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 640510014725 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 640510014726 nucleotide binding site [chemical binding]; other site 640510014727 glucose-6-phosphate 1-dehydrogenase; Provisional; Region: PRK12853 640510014728 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 640510014729 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 640510014730 Mannosyl oligosaccharide glucosidase; Region: Glyco_hydro_63; pfam03200 640510014731 glycogen debranching enzyme, archaeal type, putative; Region: gde_arch; TIGR01561 640510014732 Glycogen debranching enzyme N terminal; Region: GDE_N; pfam12439 640510014733 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 640510014734 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 640510014735 Phosphoesterase family; Region: Phosphoesterase; pfam04185 640510014736 Domain of unknown function (DUF756); Region: DUF756; pfam05506 640510014737 Domain of unknown function (DUF756); Region: DUF756; pfam05506 640510014738 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 640510014739 active site 640510014740 Zn binding site [ion binding]; other site 640510014741 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional; Region: PRK15010 640510014742 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 640510014743 substrate binding pocket [chemical binding]; other site 640510014744 membrane-bound complex binding site; other site 640510014745 hinge residues; other site 640510014746 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 640510014747 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510014748 LysR substrate binding domain; Region: LysR_substrate; pfam03466 640510014749 dimerization interface [polypeptide binding]; other site 640510014750 Rubredoxin; Region: Rubredoxin; pfam00301 640510014751 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 640510014752 iron binding site [ion binding]; other site 640510014753 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 640510014754 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 640510014755 [2Fe-2S] cluster binding site [ion binding]; other site 640510014756 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 640510014757 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 640510014758 DXD motif; other site 640510014759 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 640510014760 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 640510014761 Protein of unknown function (DUF3562); Region: DUF3562; pfam12085 640510014762 N-methyltryptophan oxidase; Provisional; Region: solA; PRK11259 640510014763 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 640510014764 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 640510014765 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640510014766 Coenzyme A binding pocket [chemical binding]; other site 640510014767 benzoate transport; Region: 2A0115; TIGR00895 640510014768 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510014769 putative substrate translocation pore; other site 640510014770 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510014771 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 640510014772 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640510014773 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 640510014774 active site 640510014775 metal binding site [ion binding]; metal-binding site 640510014776 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 640510014777 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640510014778 putative active site [active] 640510014779 putative metal binding site [ion binding]; other site 640510014780 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640510014781 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 640510014782 NAD(P) binding site [chemical binding]; other site 640510014783 catalytic residues [active] 640510014784 L-aspartate dehydrogenase; Provisional; Region: PRK13303 640510014785 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 640510014786 Domain of unknown function DUF108; Region: DUF108; pfam01958 640510014787 hypothetical protein; Provisional; Region: PRK07064 640510014788 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 640510014789 PYR/PP interface [polypeptide binding]; other site 640510014790 dimer interface [polypeptide binding]; other site 640510014791 TPP binding site [chemical binding]; other site 640510014792 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 640510014793 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 640510014794 TPP-binding site [chemical binding]; other site 640510014795 short chain dehydrogenase; Provisional; Region: PRK07062 640510014796 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 640510014797 putative NAD(P) binding site [chemical binding]; other site 640510014798 putative active site [active] 640510014799 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 640510014800 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640510014801 Bacterial transcriptional regulator; Region: IclR; pfam01614 640510014802 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640510014803 Serine hydrolase; Region: Ser_hydrolase; cl17834 640510014804 Cupin domain; Region: Cupin_2; pfam07883 640510014805 short chain dehydrogenase; Provisional; Region: PRK12939 640510014806 classical (c) SDRs; Region: SDR_c; cd05233 640510014807 NAD(P) binding site [chemical binding]; other site 640510014808 active site 640510014809 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 640510014810 [2Fe-2S] cluster binding site [ion binding]; other site 640510014811 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640510014812 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 640510014813 trimer interface [polypeptide binding]; other site 640510014814 eyelet of channel; other site 640510014815 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 640510014816 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640510014817 Bacterial transcriptional regulator; Region: IclR; pfam01614 640510014818 Phospholipase C [Cell envelope biogenesis, outer membrane]; Region: PlcC; COG3511 640510014819 acid phosphatase, Burkholderia-type; Region: acid_phos_Burk; TIGR03397 640510014820 Protein of unknown function (DUF3564); Region: DUF3564; pfam12087 640510014821 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; pfam01223 640510014822 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 640510014823 active site 640510014824 substrate binding site [chemical binding]; other site 640510014825 Mg2+ binding site [ion binding]; other site 640510014826 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 640510014827 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 640510014828 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 640510014829 ligand binding site [chemical binding]; other site 640510014830 flexible hinge region; other site 640510014831 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 640510014832 putative switch regulator; other site 640510014833 non-specific DNA interactions [nucleotide binding]; other site 640510014834 DNA binding site [nucleotide binding] 640510014835 sequence specific DNA binding site [nucleotide binding]; other site 640510014836 putative cAMP binding site [chemical binding]; other site 640510014837 Predicted membrane protein [Function unknown]; Region: COG4539 640510014838 Predicted permeases [General function prediction only]; Region: RarD; COG2962 640510014839 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 640510014840 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 640510014841 acylphosphatase; Provisional; Region: PRK14424 640510014842 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 640510014843 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 640510014844 putative NADP binding site [chemical binding]; other site 640510014845 putative substrate binding site [chemical binding]; other site 640510014846 active site 640510014847 hopene-associated glycosyltransferase HpnB; Region: HpnB; TIGR03469 640510014848 active site 640510014849 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 640510014850 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 640510014851 LytB protein; Region: LYTB; pfam02401 640510014852 hopanoid biosynthesis associated radical SAM protein HpnH; Region: HpnH; TIGR03470 640510014853 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 640510014854 FeS/SAM binding site; other site 640510014855 Domain of unknown function (DUF3463); Region: DUF3463; pfam11946 640510014856 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 640510014857 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 640510014858 VacJ like lipoprotein; Region: VacJ; cl01073 640510014859 hypothetical protein; Provisional; Region: PRK07077 640510014860 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 640510014861 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 640510014862 Active site cavity [active] 640510014863 catalytic acid [active] 640510014864 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 640510014865 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 640510014866 active site lid residues [active] 640510014867 substrate binding pocket [chemical binding]; other site 640510014868 catalytic residues [active] 640510014869 substrate-Mg2+ binding site; other site 640510014870 aspartate-rich region 1; other site 640510014871 aspartate-rich region 2; other site 640510014872 PAS fold; Region: PAS; pfam00989 640510014873 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 640510014874 putative active site [active] 640510014875 heme pocket [chemical binding]; other site 640510014876 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640510014877 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640510014878 metal binding site [ion binding]; metal-binding site 640510014879 active site 640510014880 I-site; other site 640510014881 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 640510014882 CheC-like family; Region: CheC; pfam04509 640510014883 Response regulator receiver domain; Region: Response_reg; pfam00072 640510014884 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510014885 active site 640510014886 phosphorylation site [posttranslational modification] 640510014887 intermolecular recognition site; other site 640510014888 dimerization interface [polypeptide binding]; other site 640510014889 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640510014890 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 640510014891 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510014892 ATP binding site [chemical binding]; other site 640510014893 Mg2+ binding site [ion binding]; other site 640510014894 G-X-G motif; other site 640510014895 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 640510014896 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510014897 active site 640510014898 phosphorylation site [posttranslational modification] 640510014899 intermolecular recognition site; other site 640510014900 dimerization interface [polypeptide binding]; other site 640510014901 Predicted flavoprotein [General function prediction only]; Region: COG0431 640510014902 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 640510014903 RNA polymerase sigma factor; Provisional; Region: PRK12545 640510014904 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 640510014905 DNA binding residues [nucleotide binding] 640510014906 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3813 640510014907 Protein of unknown function (DUF1272); Region: DUF1272; pfam06906 640510014908 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 640510014909 ArsC family; Region: ArsC; pfam03960 640510014910 catalytic residues [active] 640510014911 ParA-like protein; Provisional; Region: PHA02518 640510014912 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 640510014913 P-loop; other site 640510014914 Magnesium ion binding site [ion binding]; other site 640510014915 ParB-like nuclease domain; Region: ParB; smart00470 640510014916 Initiator Replication protein; Region: Rep_3; pfam01051 640510014917 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 640510014918 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 640510014919 active site 640510014920 catalytic residues [active] 640510014921 Int/Topo IB signature motif; other site 640510014922 DNA binding site [nucleotide binding] 640510014923 Protein of unknown function (DUF2471); Region: DUF2471; pfam10616 640510014924 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 640510014925 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 640510014926 non-specific DNA binding site [nucleotide binding]; other site 640510014927 salt bridge; other site 640510014928 sequence-specific DNA binding site [nucleotide binding]; other site 640510014929 Cupin domain; Region: Cupin_2; pfam07883 640510014930 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 640510014931 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 640510014932 substrate-cofactor binding pocket; other site 640510014933 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510014934 catalytic residue [active] 640510014935 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 640510014936 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 640510014937 NAD(P) binding site [chemical binding]; other site 640510014938 YceI-like domain; Region: YceI; smart00867 640510014939 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640510014940 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640510014941 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 640510014942 SnoaL-like domain; Region: SnoaL_2; pfam12680 640510014943 CHASE3 domain; Region: CHASE3; pfam05227 640510014944 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640510014945 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640510014946 metal binding site [ion binding]; metal-binding site 640510014947 active site 640510014948 I-site; other site 640510014949 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 640510014950 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 640510014951 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 640510014952 dimerization interface [polypeptide binding]; other site 640510014953 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 640510014954 putative binding surface; other site 640510014955 active site 640510014956 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510014957 ATP binding site [chemical binding]; other site 640510014958 Mg2+ binding site [ion binding]; other site 640510014959 G-X-G motif; other site 640510014960 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 640510014961 Response regulator receiver domain; Region: Response_reg; pfam00072 640510014962 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510014963 active site 640510014964 phosphorylation site [posttranslational modification] 640510014965 intermolecular recognition site; other site 640510014966 dimerization interface [polypeptide binding]; other site 640510014967 short chain dehydrogenase; Provisional; Region: PRK07023 640510014968 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510014969 NAD(P) binding site [chemical binding]; other site 640510014970 active site 640510014971 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640510014972 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 640510014973 conserved cys residue [active] 640510014974 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510014975 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510014976 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510014977 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 640510014978 putative dimerization interface [polypeptide binding]; other site 640510014979 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 640510014980 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640510014981 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 640510014982 active site 640510014983 catalytic residues [active] 640510014984 metal binding site [ion binding]; metal-binding site 640510014985 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510014986 D-galactonate transporter; Region: 2A0114; TIGR00893 640510014987 putative substrate translocation pore; other site 640510014988 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510014989 Transcriptional regulators [Transcription]; Region: GntR; COG1802 640510014990 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510014991 DNA-binding site [nucleotide binding]; DNA binding site 640510014992 FCD domain; Region: FCD; pfam07729 640510014993 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 640510014994 homodimer interface [polypeptide binding]; other site 640510014995 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510014996 catalytic residue [active] 640510014997 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510014998 D-galactonate transporter; Region: 2A0114; TIGR00893 640510014999 putative substrate translocation pore; other site 640510015000 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 640510015001 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 640510015002 FAD binding domain; Region: FAD_binding_4; pfam01565 640510015003 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 640510015004 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510015005 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640510015006 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510015007 EamA-like transporter family; Region: EamA; pfam00892 640510015008 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 640510015009 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 640510015010 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 640510015011 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 640510015012 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 640510015013 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 640510015014 ligand binding site [chemical binding]; other site 640510015015 flexible hinge region; other site 640510015016 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 640510015017 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 640510015018 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640510015019 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 640510015020 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 640510015021 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 640510015022 active site residue [active] 640510015023 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DinB; COG2318 640510015024 DinB superfamily; Region: DinB_2; pfam12867 640510015025 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 640510015026 PAS domain; Region: PAS_9; pfam13426 640510015027 putative active site [active] 640510015028 heme pocket [chemical binding]; other site 640510015029 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 640510015030 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640510015031 dimer interface [polypeptide binding]; other site 640510015032 putative CheW interface [polypeptide binding]; other site 640510015033 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional; Region: PRK10841 640510015034 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 640510015035 dimer interface [polypeptide binding]; other site 640510015036 phosphorylation site [posttranslational modification] 640510015037 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510015038 ATP binding site [chemical binding]; other site 640510015039 Mg2+ binding site [ion binding]; other site 640510015040 G-X-G motif; other site 640510015041 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510015042 active site 640510015043 phosphorylation site [posttranslational modification] 640510015044 intermolecular recognition site; other site 640510015045 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 640510015046 homotrimer interaction site [polypeptide binding]; other site 640510015047 putative active site [active] 640510015048 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 640510015049 PAS fold; Region: PAS_4; pfam08448 640510015050 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 640510015051 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 640510015052 Walker A motif; other site 640510015053 ATP binding site [chemical binding]; other site 640510015054 Walker B motif; other site 640510015055 arginine finger; other site 640510015056 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 640510015057 Beta-lactamase; Region: Beta-lactamase; pfam00144 640510015058 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 640510015059 H-NS histone family; Region: Histone_HNS; pfam00816 640510015060 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 640510015061 Formaldehyde-activating enzyme (Fae); Region: Fae; pfam08714 640510015062 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 640510015063 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 640510015064 active site 640510015065 catalytic tetrad [active] 640510015066 succinic semialdehyde dehydrogenase; Region: PLN02278 640510015067 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 640510015068 tetramerization interface [polypeptide binding]; other site 640510015069 NAD(P) binding site [chemical binding]; other site 640510015070 catalytic residues [active] 640510015071 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510015072 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 640510015073 putative substrate translocation pore; other site 640510015074 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 640510015075 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 640510015076 G1 box; other site 640510015077 putative GEF interaction site [polypeptide binding]; other site 640510015078 GTP/Mg2+ binding site [chemical binding]; other site 640510015079 Switch I region; other site 640510015080 G2 box; other site 640510015081 G3 box; other site 640510015082 Switch II region; other site 640510015083 G4 box; other site 640510015084 G5 box; other site 640510015085 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 640510015086 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640510015087 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510015088 The 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 640510015089 dimerization interface [polypeptide binding]; other site 640510015090 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 640510015091 CoA binding domain; Region: CoA_binding_2; pfam13380 640510015092 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 640510015093 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 640510015094 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 640510015095 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640510015096 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 640510015097 Bacterial transcriptional regulator; Region: IclR; pfam01614 640510015098 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 640510015099 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 640510015100 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 640510015101 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 640510015102 active site 640510015103 catalytic tetrad [active] 640510015104 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 640510015105 Amidohydrolase; Region: Amidohydro_2; pfam04909 640510015106 active site 640510015107 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 640510015108 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 640510015109 NAD binding site [chemical binding]; other site 640510015110 homotetramer interface [polypeptide binding]; other site 640510015111 homodimer interface [polypeptide binding]; other site 640510015112 active site 640510015113 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 640510015114 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 640510015115 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 640510015116 CoenzymeA binding site [chemical binding]; other site 640510015117 subunit interaction site [polypeptide binding]; other site 640510015118 PHB binding site; other site 640510015119 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 640510015120 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 640510015121 dimer interface [polypeptide binding]; other site 640510015122 ligand binding site [chemical binding]; other site 640510015123 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 640510015124 dimerization interface [polypeptide binding]; other site 640510015125 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640510015126 dimer interface [polypeptide binding]; other site 640510015127 putative CheW interface [polypeptide binding]; other site 640510015128 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 640510015129 DNA-binding site [nucleotide binding]; DNA binding site 640510015130 RNA-binding motif; other site 640510015131 dimerization interface [polypeptide binding]; other site 640510015132 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 640510015133 putative active cleft [active] 640510015134 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 640510015135 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 640510015136 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 640510015137 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 640510015138 Cache domain; Region: Cache_1; pfam02743 640510015139 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 640510015140 dimerization interface [polypeptide binding]; other site 640510015141 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 640510015142 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640510015143 dimer interface [polypeptide binding]; other site 640510015144 putative CheW interface [polypeptide binding]; other site 640510015145 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 640510015146 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 640510015147 metal-binding site [ion binding] 640510015148 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 640510015149 Uncharacterized conserved protein [Function unknown]; Region: COG5361 640510015150 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 640510015151 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 640510015152 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 640510015153 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 640510015154 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 640510015155 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 640510015156 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 640510015157 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510015158 DNA-binding site [nucleotide binding]; DNA binding site 640510015159 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 640510015160 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510015161 homodimer interface [polypeptide binding]; other site 640510015162 catalytic residue [active] 640510015163 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 640510015164 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640510015165 Walker A/P-loop; other site 640510015166 ATP binding site [chemical binding]; other site 640510015167 Q-loop/lid; other site 640510015168 ABC transporter signature motif; other site 640510015169 Walker B; other site 640510015170 D-loop; other site 640510015171 H-loop/switch region; other site 640510015172 TOBE domain; Region: TOBE_2; pfam08402 640510015173 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510015174 dimer interface [polypeptide binding]; other site 640510015175 conserved gate region; other site 640510015176 putative PBP binding loops; other site 640510015177 ABC-ATPase subunit interface; other site 640510015178 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 640510015179 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510015180 dimer interface [polypeptide binding]; other site 640510015181 conserved gate region; other site 640510015182 putative PBP binding loops; other site 640510015183 ABC-ATPase subunit interface; other site 640510015184 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640510015185 ligand binding site [chemical binding]; other site 640510015186 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640510015187 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510015188 active site 640510015189 phosphorylation site [posttranslational modification] 640510015190 intermolecular recognition site; other site 640510015191 dimerization interface [polypeptide binding]; other site 640510015192 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 640510015193 DNA binding residues [nucleotide binding] 640510015194 dimerization interface [polypeptide binding]; other site 640510015195 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 640510015196 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 640510015197 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 640510015198 N-acetyl-D-glucosamine binding site [chemical binding]; other site 640510015199 catalytic residue [active] 640510015200 TadE-like protein; Region: TadE; pfam07811 640510015201 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 640510015202 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 640510015203 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 640510015204 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 640510015205 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 640510015206 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 640510015207 phosphopeptide binding site; other site 640510015208 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 640510015209 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 640510015210 ATP binding site [chemical binding]; other site 640510015211 Walker A motif; other site 640510015212 hexamer interface [polypeptide binding]; other site 640510015213 Walker B motif; other site 640510015214 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 640510015215 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 640510015216 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 640510015217 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 640510015218 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 640510015219 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 640510015220 trimer interface [polypeptide binding]; other site 640510015221 YadA-like C-terminal region; Region: YadA; pfam03895 640510015222 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640510015223 ligand binding site [chemical binding]; other site 640510015224 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640510015225 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510015226 active site 640510015227 phosphorylation site [posttranslational modification] 640510015228 intermolecular recognition site; other site 640510015229 dimerization interface [polypeptide binding]; other site 640510015230 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 640510015231 DNA binding residues [nucleotide binding] 640510015232 dimerization interface [polypeptide binding]; other site 640510015233 aconitate hydratase; Provisional; Region: acnA; PRK12881 640510015234 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 640510015235 substrate binding site [chemical binding]; other site 640510015236 ligand binding site [chemical binding]; other site 640510015237 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 640510015238 substrate binding site [chemical binding]; other site 640510015239 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 640510015240 2-methylcitrate dehydratase; Region: prpD; TIGR02330 640510015241 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 640510015242 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 640510015243 dimer interface [polypeptide binding]; other site 640510015244 active site 640510015245 citrylCoA binding site [chemical binding]; other site 640510015246 oxalacetate/citrate binding site [chemical binding]; other site 640510015247 coenzyme A binding site [chemical binding]; other site 640510015248 catalytic triad [active] 640510015249 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 640510015250 malate dehydrogenase; Provisional; Region: PRK05442 640510015251 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 640510015252 NAD(P) binding site [chemical binding]; other site 640510015253 dimer interface [polypeptide binding]; other site 640510015254 malate binding site [chemical binding]; other site 640510015255 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 640510015256 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510015257 DNA-binding site [nucleotide binding]; DNA binding site 640510015258 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 640510015259 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 640510015260 Iron-sulfur protein interface; other site 640510015261 proximal quinone binding site [chemical binding]; other site 640510015262 SdhD (CybS) interface [polypeptide binding]; other site 640510015263 proximal heme binding site [chemical binding]; other site 640510015264 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 640510015265 SdhC subunit interface [polypeptide binding]; other site 640510015266 proximal heme binding site [chemical binding]; other site 640510015267 cardiolipin binding site; other site 640510015268 Iron-sulfur protein interface; other site 640510015269 proximal quinone binding site [chemical binding]; other site 640510015270 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 640510015271 L-aspartate oxidase; Provisional; Region: PRK06175 640510015272 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 640510015273 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 640510015274 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 640510015275 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 640510015276 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 640510015277 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 640510015278 dimer interface [polypeptide binding]; other site 640510015279 active site 640510015280 citrylCoA binding site [chemical binding]; other site 640510015281 NADH binding [chemical binding]; other site 640510015282 cationic pore residues; other site 640510015283 oxalacetate/citrate binding site [chemical binding]; other site 640510015284 coenzyme A binding site [chemical binding]; other site 640510015285 catalytic triad [active] 640510015286 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 640510015287 Helix-turn-helix domain; Region: HTH_18; pfam12833 640510015288 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510015289 Protein of unknown function (DUF1479); Region: DUF1479; pfam07350 640510015290 Predicted membrane protein [Function unknown]; Region: COG2261 640510015291 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 640510015292 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 640510015293 substrate binding site [chemical binding]; other site 640510015294 ligand binding site [chemical binding]; other site 640510015295 Predicted small secreted protein [Function unknown]; Region: COG5510 640510015296 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 640510015297 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 640510015298 substrate binding site [chemical binding]; other site 640510015299 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 640510015300 tartrate dehydrogenase; Region: TTC; TIGR02089 640510015301 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 640510015302 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 640510015303 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 640510015304 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 640510015305 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 640510015306 dimerization interface 3.5A [polypeptide binding]; other site 640510015307 active site 640510015308 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 640510015309 active site 640510015310 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 640510015311 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 640510015312 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510015313 catalytic residue [active] 640510015314 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 640510015315 DNA methylase; Region: N6_N4_Mtase; pfam01555 640510015316 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 640510015317 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 640510015318 substrate binding site [chemical binding]; other site 640510015319 active site 640510015320 catalytic residues [active] 640510015321 heterodimer interface [polypeptide binding]; other site 640510015322 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 640510015323 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 640510015324 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 640510015325 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 640510015326 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 640510015327 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 640510015328 Sporulation related domain; Region: SPOR; pfam05036 640510015329 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 640510015330 Colicin V production protein; Region: Colicin_V; pfam02674 640510015331 amidophosphoribosyltransferase; Provisional; Region: PRK09246 640510015332 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 640510015333 active site 640510015334 tetramer interface [polypeptide binding]; other site 640510015335 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 640510015336 active site 640510015337 Cupin domain; Region: Cupin_2; cl17218 640510015338 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510015339 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640510015340 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510015341 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 640510015342 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 640510015343 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640510015344 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 640510015345 dimer interface [polypeptide binding]; other site 640510015346 phosphorylation site [posttranslational modification] 640510015347 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 640510015348 Domain of unknown function DUF21; Region: DUF21; pfam01595 640510015349 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 640510015350 Transporter associated domain; Region: CorC_HlyC; smart01091 640510015351 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 640510015352 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 640510015353 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 640510015354 active site 640510015355 catalytic site [active] 640510015356 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 640510015357 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 640510015358 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 640510015359 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 640510015360 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 640510015361 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 640510015362 catalytic site [active] 640510015363 active site 640510015364 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 640510015365 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 640510015366 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 640510015367 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 640510015368 active site 640510015369 catalytic site [active] 640510015370 glycogen branching enzyme; Provisional; Region: PRK05402 640510015371 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 640510015372 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 640510015373 active site 640510015374 catalytic site [active] 640510015375 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 640510015376 trehalose synthase; Region: treS_nterm; TIGR02456 640510015377 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 640510015378 active site 640510015379 catalytic site [active] 640510015380 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 640510015381 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 640510015382 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 640510015383 active site 640510015384 catalytic site [active] 640510015385 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 640510015386 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 640510015387 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 640510015388 active site 640510015389 homodimer interface [polypeptide binding]; other site 640510015390 catalytic site [active] 640510015391 acceptor binding site [chemical binding]; other site 640510015392 Protein of unknown function (DUF1345); Region: DUF1345; pfam07077 640510015393 PrpA and PrpB, metallophosphatase domain; Region: MPP_PrpA_PrpB; cd07424 640510015394 active site 640510015395 metal binding site [ion binding]; metal-binding site 640510015396 RES domain; Region: RES; smart00953 640510015397 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 640510015398 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510015399 The 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 640510015400 dimerization interface [polypeptide binding]; other site 640510015401 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 640510015402 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 640510015403 dimer interface [polypeptide binding]; other site 640510015404 hexamer interface [polypeptide binding]; other site 640510015405 active site 2 [active] 640510015406 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 640510015407 TOBE domain; Region: TOBE; cl01440 640510015408 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 640510015409 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640510015410 thiamine ABC transporter, ATP-binding protein; Region: thiQ; TIGR01277 640510015411 Walker A/P-loop; other site 640510015412 ATP binding site [chemical binding]; other site 640510015413 Q-loop/lid; other site 640510015414 ABC transporter signature motif; other site 640510015415 Walker B; other site 640510015416 D-loop; other site 640510015417 H-loop/switch region; other site 640510015418 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510015419 dimer interface [polypeptide binding]; other site 640510015420 conserved gate region; other site 640510015421 putative PBP binding loops; other site 640510015422 ABC-ATPase subunit interface; other site 640510015423 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 640510015424 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 640510015425 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 640510015426 active site 640510015427 Esterase PHB depolymerase; Region: Esterase_phd; pfam10503 640510015428 Protein of unknown function (DUF3563); Region: DUF3563; pfam12086 640510015429 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 640510015430 DNA photolyase; Region: DNA_photolyase; pfam00875 640510015431 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 640510015432 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 640510015433 putative active site [active] 640510015434 putative substrate binding site [chemical binding]; other site 640510015435 ATP binding site [chemical binding]; other site 640510015436 AMP nucleosidase; Provisional; Region: PRK08292 640510015437 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 640510015438 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 640510015439 Chromate transporter; Region: Chromate_transp; pfam02417 640510015440 Chromate transporter; Region: Chromate_transp; pfam02417 640510015441 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640510015442 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510015443 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 640510015444 dimerization interface [polypeptide binding]; other site 640510015445 substrate binding pocket [chemical binding]; other site 640510015446 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 640510015447 DNA polymerase I; Provisional; Region: PRK05755 640510015448 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 640510015449 active site 640510015450 metal binding site 1 [ion binding]; metal-binding site 640510015451 putative 5' ssDNA interaction site; other site 640510015452 metal binding site 3; metal-binding site 640510015453 metal binding site 2 [ion binding]; metal-binding site 640510015454 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 640510015455 putative DNA binding site [nucleotide binding]; other site 640510015456 putative metal binding site [ion binding]; other site 640510015457 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 640510015458 active site 640510015459 catalytic site [active] 640510015460 substrate binding site [chemical binding]; other site 640510015461 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 640510015462 active site 640510015463 DNA binding site [nucleotide binding] 640510015464 catalytic site [active] 640510015465 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 640510015466 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640510015467 Dienelactone hydrolase family; Region: DLH; pfam01738 640510015468 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 640510015469 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 640510015470 active site residue [active] 640510015471 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 640510015472 active site residue [active] 640510015473 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 640510015474 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 640510015475 [2Fe-2S] cluster binding site [ion binding]; other site 640510015476 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 640510015477 alpha subunit interface [polypeptide binding]; other site 640510015478 active site 640510015479 substrate binding site [chemical binding]; other site 640510015480 Fe binding site [ion binding]; other site 640510015481 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 640510015482 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 640510015483 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 640510015484 substrate binding pocket [chemical binding]; other site 640510015485 chain length determination region; other site 640510015486 substrate-Mg2+ binding site; other site 640510015487 catalytic residues [active] 640510015488 aspartate-rich region 1; other site 640510015489 active site lid residues [active] 640510015490 aspartate-rich region 2; other site 640510015491 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 640510015492 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 640510015493 TPP-binding site; other site 640510015494 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 640510015495 PYR/PP interface [polypeptide binding]; other site 640510015496 dimer interface [polypeptide binding]; other site 640510015497 TPP binding site [chemical binding]; other site 640510015498 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 640510015499 putative GTP cyclohydrolase; Provisional; Region: PRK13674 640510015500 UGMP family protein; Validated; Region: PRK09604 640510015501 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 640510015502 HI0933-like protein; Region: HI0933_like; pfam03486 640510015503 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 640510015504 Yqey-like protein; Region: YqeY; pfam09424 640510015505 DNA primase; Validated; Region: dnaG; PRK05667 640510015506 CHC2 zinc finger; Region: zf-CHC2; pfam01807 640510015507 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 640510015508 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 640510015509 active site 640510015510 metal binding site [ion binding]; metal-binding site 640510015511 interdomain interaction site; other site 640510015512 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 640510015513 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; cl07879 640510015514 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 640510015515 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 640510015516 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 640510015517 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 640510015518 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640510015519 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 640510015520 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 640510015521 DNA binding residues [nucleotide binding] 640510015522 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 640510015523 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510015524 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 640510015525 putative dimerization interface [polypeptide binding]; other site 640510015526 Tim44 is an essential component of the machinery that mediates the translocation of nuclear-encoded proteins across the mitochondrial inner membrane; Region: Tim44; smart00978 640510015527 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 640510015528 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 640510015529 substrate binding pocket [chemical binding]; other site 640510015530 membrane-bound complex binding site; other site 640510015531 hinge residues; other site 640510015532 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640510015533 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510015534 dimer interface [polypeptide binding]; other site 640510015535 conserved gate region; other site 640510015536 ABC-ATPase subunit interface; other site 640510015537 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510015538 dimer interface [polypeptide binding]; other site 640510015539 conserved gate region; other site 640510015540 putative PBP binding loops; other site 640510015541 ABC-ATPase subunit interface; other site 640510015542 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 640510015543 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 640510015544 Walker A/P-loop; other site 640510015545 ATP binding site [chemical binding]; other site 640510015546 Q-loop/lid; other site 640510015547 ABC transporter signature motif; other site 640510015548 Walker B; other site 640510015549 D-loop; other site 640510015550 H-loop/switch region; other site 640510015551 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640510015552 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 640510015553 Bacterial transcriptional regulator; Region: IclR; pfam01614 640510015554 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 640510015555 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640510015556 Coenzyme A binding pocket [chemical binding]; other site 640510015557 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 640510015558 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 640510015559 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cl17698 640510015560 Asp-box motif; other site 640510015561 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 640510015562 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 640510015563 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 640510015564 L-aspartate oxidase; Provisional; Region: PRK06175 640510015565 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 640510015566 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 640510015567 SdhC subunit interface [polypeptide binding]; other site 640510015568 proximal heme binding site [chemical binding]; other site 640510015569 cardiolipin binding site; other site 640510015570 Iron-sulfur protein interface; other site 640510015571 proximal quinone binding site [chemical binding]; other site 640510015572 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 640510015573 Iron-sulfur protein interface; other site 640510015574 proximal quinone binding site [chemical binding]; other site 640510015575 SdhD (CybS) interface [polypeptide binding]; other site 640510015576 proximal heme binding site [chemical binding]; other site 640510015577 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 640510015578 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510015579 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 640510015580 putative dimerization interface [polypeptide binding]; other site 640510015581 putative substrate binding pocket [chemical binding]; other site 640510015582 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 640510015583 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 640510015584 dimer interface [polypeptide binding]; other site 640510015585 Trp docking motif [polypeptide binding]; other site 640510015586 active site 640510015587 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 640510015588 membrane-bound complex binding site; other site 640510015589 hinge residues; other site 640510015590 Cytochrome c; Region: Cytochrom_C; pfam00034 640510015591 coenzyme PQQ biosynthesis protein PqqD; Region: PQQ_PqqD; TIGR03859 640510015592 coenzyme PQQ synthesis protein PqqA; Provisional; Region: pqqA; PRK00284 640510015593 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 640510015594 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 640510015595 Walker A motif; other site 640510015596 ATP binding site [chemical binding]; other site 640510015597 Walker B motif; other site 640510015598 arginine finger; other site 640510015599 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 640510015600 Protein of unknown function (DUF2964); Region: DUF2964; pfam11177 640510015601 Protein of unknown function (DUF3564); Region: DUF3564; pfam12087 640510015602 Cytochrome c; Region: Cytochrom_C; cl11414 640510015603 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 640510015604 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 640510015605 ligand binding site [chemical binding]; other site 640510015606 flexible hinge region; other site 640510015607 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 640510015608 putative switch regulator; other site 640510015609 non-specific DNA interactions [nucleotide binding]; other site 640510015610 DNA binding site [nucleotide binding] 640510015611 sequence specific DNA binding site [nucleotide binding]; other site 640510015612 putative cAMP binding site [chemical binding]; other site 640510015613 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640510015614 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510015615 active site 640510015616 phosphorylation site [posttranslational modification] 640510015617 intermolecular recognition site; other site 640510015618 dimerization interface [polypeptide binding]; other site 640510015619 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 640510015620 DNA binding residues [nucleotide binding] 640510015621 dimerization interface [polypeptide binding]; other site 640510015622 PAS domain S-box; Region: sensory_box; TIGR00229 640510015623 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 640510015624 putative active site [active] 640510015625 heme pocket [chemical binding]; other site 640510015626 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 640510015627 Histidine kinase; Region: HisKA_3; pfam07730 640510015628 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510015629 ATP binding site [chemical binding]; other site 640510015630 Mg2+ binding site [ion binding]; other site 640510015631 G-X-G motif; other site 640510015632 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 640510015633 Ligand Binding Site [chemical binding]; other site 640510015634 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 640510015635 Ligand Binding Site [chemical binding]; other site 640510015636 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 640510015637 Ligand Binding Site [chemical binding]; other site 640510015638 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 640510015639 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 640510015640 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 640510015641 myosin-cross-reactive antigen; Provisional; Region: PRK13977 640510015642 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 640510015643 Ligand Binding Site [chemical binding]; other site 640510015644 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 640510015645 putative FMN binding site [chemical binding]; other site 640510015646 NADPH bind site [chemical binding]; other site 640510015647 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 640510015648 FMN binding site [chemical binding]; other site 640510015649 dimer interface [polypeptide binding]; other site 640510015650 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 640510015651 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 640510015652 Beta-Casp domain; Region: Beta-Casp; smart01027 640510015653 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 640510015654 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 640510015655 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 640510015656 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 640510015657 BON domain; Region: BON; pfam04972 640510015658 BON domain; Region: BON; pfam04972 640510015659 BON domain; Region: BON; pfam04972 640510015660 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 640510015661 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 640510015662 NAD binding site [chemical binding]; other site 640510015663 substrate binding site [chemical binding]; other site 640510015664 catalytic Zn binding site [ion binding]; other site 640510015665 tetramer interface [polypeptide binding]; other site 640510015666 structural Zn binding site [ion binding]; other site 640510015667 FOG: CBS domain [General function prediction only]; Region: COG0517 640510015668 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 640510015669 BON domain; Region: BON; pfam04972 640510015670 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 640510015671 Ligand Binding Site [chemical binding]; other site 640510015672 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 640510015673 Ligand Binding Site [chemical binding]; other site 640510015674 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 640510015675 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 640510015676 N-terminal plug; other site 640510015677 ligand-binding site [chemical binding]; other site 640510015678 CsbD-like; Region: CsbD; pfam05532 640510015679 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 640510015680 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640510015681 Bacterial transcriptional regulator; Region: IclR; pfam01614 640510015682 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 640510015683 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 640510015684 active site 640510015685 catalytic tetrad [active] 640510015686 hypothetical protein; Provisional; Region: PRK07482 640510015687 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 640510015688 inhibitor-cofactor binding pocket; inhibition site 640510015689 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510015690 catalytic residue [active] 640510015691 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 640510015692 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640510015693 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 640510015694 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 640510015695 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 640510015696 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 640510015697 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 640510015698 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 640510015699 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 640510015700 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 640510015701 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640510015702 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510015703 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640510015704 putative substrate translocation pore; other site 640510015705 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 640510015706 Protein of unknown function (DUF917); Region: DUF917; pfam06032 640510015707 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 640510015708 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 640510015709 Walker A motif; other site 640510015710 ATP binding site [chemical binding]; other site 640510015711 Walker B motif; other site 640510015712 arginine finger; other site 640510015713 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 640510015714 Domain of unknown function (DUF3315); Region: DUF3315; pfam11776 640510015715 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 640510015716 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640510015717 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510015718 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 640510015719 dimerization interface [polypeptide binding]; other site 640510015720 substrate binding pocket [chemical binding]; other site 640510015721 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 640510015722 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 640510015723 FAD binding domain; Region: FAD_binding_4; pfam01565 640510015724 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 640510015725 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 640510015726 aldehyde dehydrogenase family 7 member; Region: PLN02315 640510015727 tetrameric interface [polypeptide binding]; other site 640510015728 NAD binding site [chemical binding]; other site 640510015729 catalytic residues [active] 640510015730 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640510015731 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 640510015732 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 640510015733 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510015734 homodimer interface [polypeptide binding]; other site 640510015735 catalytic residue [active] 640510015736 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640510015737 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640510015738 DNA binding site [nucleotide binding] 640510015739 domain linker motif; other site 640510015740 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 640510015741 putative ligand binding site [chemical binding]; other site 640510015742 putative dimerization interface [polypeptide binding]; other site 640510015743 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 640510015744 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 640510015745 inhibitor site; inhibition site 640510015746 active site 640510015747 dimer interface [polypeptide binding]; other site 640510015748 catalytic residue [active] 640510015749 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510015750 D-galactonate transporter; Region: 2A0114; TIGR00893 640510015751 putative substrate translocation pore; other site 640510015752 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640510015753 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 640510015754 eyelet of channel; other site 640510015755 trimer interface [polypeptide binding]; other site 640510015756 Cache domain; Region: Cache_2; pfam08269 640510015757 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 640510015758 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640510015759 dimer interface [polypeptide binding]; other site 640510015760 putative CheW interface [polypeptide binding]; other site 640510015761 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 640510015762 DNA-binding site [nucleotide binding]; DNA binding site 640510015763 RNA-binding motif; other site 640510015764 LysE type translocator; Region: LysE; cl00565 640510015765 DNA-binding protein H-NS [General function prediction only]; Region: Hns; COG2916 640510015766 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 640510015767 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 640510015768 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 640510015769 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 640510015770 heterodimer interface [polypeptide binding]; other site 640510015771 active site 640510015772 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 640510015773 heterodimer interface [polypeptide binding]; other site 640510015774 multimer interface [polypeptide binding]; other site 640510015775 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 640510015776 active site 640510015777 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 640510015778 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510015779 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 640510015780 putative dimerization interface [polypeptide binding]; other site 640510015781 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 640510015782 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 640510015783 dimer interface [polypeptide binding]; other site 640510015784 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 640510015785 active site 640510015786 Fe binding site [ion binding]; other site 640510015787 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 640510015788 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 640510015789 non-specific DNA binding site [nucleotide binding]; other site 640510015790 salt bridge; other site 640510015791 sequence-specific DNA binding site [nucleotide binding]; other site 640510015792 Cupin domain; Region: Cupin_2; pfam07883 640510015793 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 640510015794 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640510015795 dimer interface [polypeptide binding]; other site 640510015796 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 640510015797 putative CheW interface [polypeptide binding]; other site 640510015798 Polyketide cyclase / dehydrase and lipid transport; Region: Polyketide_cyc2; pfam10604 640510015799 hydrophobic ligand binding site; other site 640510015800 hypothetical protein; Provisional; Region: PRK11281 640510015801 Cache domain; Region: Cache_1; pfam02743 640510015802 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 640510015803 dimerization interface [polypeptide binding]; other site 640510015804 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 640510015805 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640510015806 dimer interface [polypeptide binding]; other site 640510015807 putative CheW interface [polypeptide binding]; other site 640510015808 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640510015809 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 640510015810 active site 640510015811 catalytic residues [active] 640510015812 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 640510015813 putative dimerization interface [polypeptide binding]; other site 640510015814 putative ligand binding site [chemical binding]; other site 640510015815 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640510015816 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640510015817 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510015818 xylose isomerase; Provisional; Region: PRK05474 640510015819 xylose isomerase; Region: xylose_isom_A; TIGR02630 640510015820 D-xylose ABC transporter, substrate-binding protein; Region: xylF; TIGR02634 640510015821 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 640510015822 putative ligand binding site [chemical binding]; other site 640510015823 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 640510015824 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 640510015825 Walker A/P-loop; other site 640510015826 ATP binding site [chemical binding]; other site 640510015827 Q-loop/lid; other site 640510015828 ABC transporter signature motif; other site 640510015829 Walker B; other site 640510015830 D-loop; other site 640510015831 H-loop/switch region; other site 640510015832 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 640510015833 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640510015834 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 640510015835 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 640510015836 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640510015837 TM-ABC transporter signature motif; other site 640510015838 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 640510015839 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 640510015840 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640510015841 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640510015842 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 640510015843 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 640510015844 catalytic loop [active] 640510015845 iron binding site [ion binding]; other site 640510015846 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 640510015847 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640510015848 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 640510015849 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640510015850 HlyD family secretion protein; Region: HlyD_3; pfam13437 640510015851 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 640510015852 Fusaric acid resistance protein family; Region: FUSC; pfam04632 640510015853 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 640510015854 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 640510015855 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 640510015856 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 640510015857 dimer interface [polypeptide binding]; other site 640510015858 phosphorylation site [posttranslational modification] 640510015859 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510015860 ATP binding site [chemical binding]; other site 640510015861 Mg2+ binding site [ion binding]; other site 640510015862 G-X-G motif; other site 640510015863 Response regulator receiver domain; Region: Response_reg; pfam00072 640510015864 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510015865 active site 640510015866 phosphorylation site [posttranslational modification] 640510015867 intermolecular recognition site; other site 640510015868 dimerization interface [polypeptide binding]; other site 640510015869 circadian clock protein KaiC; Region: circ_KaiC; TIGR02655 640510015870 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 640510015871 Walker A motif; other site 640510015872 ATP binding site [chemical binding]; other site 640510015873 Walker B motif; other site 640510015874 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 640510015875 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 640510015876 Walker A motif; other site 640510015877 Walker A motif; other site 640510015878 ATP binding site [chemical binding]; other site 640510015879 ATP binding site [chemical binding]; other site 640510015880 Walker B motif; other site 640510015881 Phosphoglycerate mutase family; Region: PGAM; smart00855 640510015882 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 640510015883 Probable cobalt transporter subunit (CbtA); Region: CbtA; cl02266 640510015884 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3826 640510015885 Uncharacterized protein conserved in bacteria (DUF2138); Region: DUF2138; pfam09909 640510015886 Protein of unknown function (DUF1175); Region: DUF1175; cl14898 640510015887 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 640510015888 MG2 domain; Region: A2M_N; pfam01835 640510015889 Alpha-2-macroglobulin family; Region: A2M; pfam00207 640510015890 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cl08267 640510015891 Predicted secreted protein [Function unknown]; Region: COG5445 640510015892 Predicted secreted protein (DUF2300); Region: DUF2300; pfam10062 640510015893 Stage II sporulation protein; Region: SpoIID; pfam08486 640510015894 Predicted secreted protein (DUF2300); Region: DUF2300; pfam10062 640510015895 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4676 640510015896 Uncharacterized protein conserved in bacteria (DUF2135); Region: DUF2135; pfam09906 640510015897 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4676 640510015898 Uncharacterized protein conserved in bacteria (DUF2135); Region: DUF2135; pfam09906 640510015899 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 640510015900 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 640510015901 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 640510015902 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 640510015903 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640510015904 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 640510015905 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 640510015906 DNA binding residues [nucleotide binding] 640510015907 Transcriptional regulators [Transcription]; Region: FadR; COG2186 640510015908 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510015909 DNA-binding site [nucleotide binding]; DNA binding site 640510015910 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 640510015911 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 640510015912 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 640510015913 putative ligand binding site [chemical binding]; other site 640510015914 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 640510015915 TM-ABC transporter signature motif; other site 640510015916 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 640510015917 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 640510015918 TM-ABC transporter signature motif; other site 640510015919 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 640510015920 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 640510015921 Walker A/P-loop; other site 640510015922 ATP binding site [chemical binding]; other site 640510015923 Q-loop/lid; other site 640510015924 ABC transporter signature motif; other site 640510015925 Walker B; other site 640510015926 D-loop; other site 640510015927 H-loop/switch region; other site 640510015928 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 640510015929 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 640510015930 Walker A/P-loop; other site 640510015931 ATP binding site [chemical binding]; other site 640510015932 Q-loop/lid; other site 640510015933 ABC transporter signature motif; other site 640510015934 Walker B; other site 640510015935 D-loop; other site 640510015936 H-loop/switch region; other site 640510015937 allantoate amidohydrolase; Reviewed; Region: PRK12893 640510015938 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 640510015939 active site 640510015940 metal binding site [ion binding]; metal-binding site 640510015941 dimer interface [polypeptide binding]; other site 640510015942 Uncharacterized conserved protein [Function unknown]; Region: COG5476 640510015943 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 640510015944 MlrC C-terminus; Region: MlrC_C; pfam07171 640510015945 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 640510015946 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 640510015947 active site 640510015948 benzoate transport; Region: 2A0115; TIGR00895 640510015949 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510015950 putative substrate translocation pore; other site 640510015951 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 640510015952 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510015953 DNA-binding site [nucleotide binding]; DNA binding site 640510015954 UTRA domain; Region: UTRA; pfam07702 640510015955 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640510015956 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510015957 putative substrate translocation pore; other site 640510015958 Predicted permease; Region: DUF318; cl17795 640510015959 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 640510015960 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 640510015961 active site residue [active] 640510015962 selenophosphate synthetase; Provisional; Region: PRK00943 640510015963 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 640510015964 dimerization interface [polypeptide binding]; other site 640510015965 putative ATP binding site [chemical binding]; other site 640510015966 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 640510015967 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 640510015968 PYR/PP interface [polypeptide binding]; other site 640510015969 dimer interface [polypeptide binding]; other site 640510015970 TPP binding site [chemical binding]; other site 640510015971 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 640510015972 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 640510015973 TPP-binding site [chemical binding]; other site 640510015974 dimer interface [polypeptide binding]; other site 640510015975 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510015976 D-galactonate transporter; Region: 2A0114; TIGR00893 640510015977 putative substrate translocation pore; other site 640510015978 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640510015979 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510015980 NAD(P) binding site [chemical binding]; other site 640510015981 active site 640510015982 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640510015983 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510015984 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 640510015985 dimerization interface [polypeptide binding]; other site 640510015986 substrate binding pocket [chemical binding]; other site 640510015987 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 640510015988 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640510015989 Walker A/P-loop; other site 640510015990 ATP binding site [chemical binding]; other site 640510015991 Q-loop/lid; other site 640510015992 ABC transporter signature motif; other site 640510015993 Walker B; other site 640510015994 D-loop; other site 640510015995 H-loop/switch region; other site 640510015996 Protein of unknown function (DUF3005); Region: DUF3005; pfam11448 640510015997 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 640510015998 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 640510015999 TadE-like protein; Region: TadE; pfam07811 640510016000 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 640510016001 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 640510016002 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 640510016003 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 640510016004 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 640510016005 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 640510016006 ATP binding site [chemical binding]; other site 640510016007 Walker A motif; other site 640510016008 hexamer interface [polypeptide binding]; other site 640510016009 Walker B motif; other site 640510016010 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 640510016011 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 640510016012 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 640510016013 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 640510016014 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 640510016015 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 640510016016 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 640510016017 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 640510016018 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 640510016019 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 640510016020 Walker A motif; other site 640510016021 ATP binding site [chemical binding]; other site 640510016022 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 640510016023 Flp/Fap pilin component; Region: Flp_Fap; pfam04964 640510016024 Flp/Fap pilin component; Region: Flp_Fap; pfam04964 640510016025 succinic semialdehyde dehydrogenase; Region: PLN02278 640510016026 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 640510016027 tetramerization interface [polypeptide binding]; other site 640510016028 NAD(P) binding site [chemical binding]; other site 640510016029 catalytic residues [active] 640510016030 benzoate transport; Region: 2A0115; TIGR00895 640510016031 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510016032 putative substrate translocation pore; other site 640510016033 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510016034 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_7; cd06910 640510016035 putative active site [active] 640510016036 Zn binding site [ion binding]; other site 640510016037 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 640510016038 tartrate dehydrogenase; Region: TTC; TIGR02089 640510016039 transcriptional activator TtdR; Provisional; Region: PRK09801 640510016040 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510016041 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 640510016042 putative effector binding pocket; other site 640510016043 putative dimerization interface [polypeptide binding]; other site 640510016044 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 640510016045 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 640510016046 putative DNA binding site [nucleotide binding]; other site 640510016047 putative Zn2+ binding site [ion binding]; other site 640510016048 AsnC family; Region: AsnC_trans_reg; pfam01037 640510016049 hypothetical protein; Provisional; Region: PRK05965 640510016050 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 640510016051 inhibitor-cofactor binding pocket; inhibition site 640510016052 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510016053 catalytic residue [active] 640510016054 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 640510016055 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 640510016056 putative ligand binding site [chemical binding]; other site 640510016057 NAD binding site [chemical binding]; other site 640510016058 dimerization interface [polypeptide binding]; other site 640510016059 catalytic site [active] 640510016060 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 640510016061 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640510016062 Coenzyme A binding pocket [chemical binding]; other site 640510016063 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640510016064 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 640510016065 NAD(P) binding site [chemical binding]; other site 640510016066 catalytic residues [active] 640510016067 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 640510016068 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 640510016069 motif II; other site 640510016070 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 640510016071 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640510016072 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 640510016073 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 640510016074 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 640510016075 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510016076 dimer interface [polypeptide binding]; other site 640510016077 conserved gate region; other site 640510016078 putative PBP binding loops; other site 640510016079 ABC-ATPase subunit interface; other site 640510016080 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 640510016081 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510016082 dimer interface [polypeptide binding]; other site 640510016083 conserved gate region; other site 640510016084 ABC-ATPase subunit interface; other site 640510016085 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 640510016086 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640510016087 Walker A/P-loop; other site 640510016088 ATP binding site [chemical binding]; other site 640510016089 Q-loop/lid; other site 640510016090 ABC transporter signature motif; other site 640510016091 Walker B; other site 640510016092 D-loop; other site 640510016093 H-loop/switch region; other site 640510016094 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640510016095 Walker A/P-loop; other site 640510016096 ATP binding site [chemical binding]; other site 640510016097 Q-loop/lid; other site 640510016098 ABC transporter signature motif; other site 640510016099 Walker B; other site 640510016100 D-loop; other site 640510016101 H-loop/switch region; other site 640510016102 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640510016103 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 640510016104 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 640510016105 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 640510016106 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 640510016107 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640510016108 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 640510016109 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 640510016110 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510016111 Propionate catabolism activator; Region: PrpR_N; pfam06506 640510016112 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 640510016113 PAS domain; Region: PAS; smart00091 640510016114 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 640510016115 Walker A motif; other site 640510016116 ATP binding site [chemical binding]; other site 640510016117 Walker B motif; other site 640510016118 arginine finger; other site 640510016119 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 640510016120 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 640510016121 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 640510016122 dimer interface [polypeptide binding]; other site 640510016123 active site 640510016124 citrylCoA binding site [chemical binding]; other site 640510016125 oxalacetate/citrate binding site [chemical binding]; other site 640510016126 coenzyme A binding site [chemical binding]; other site 640510016127 catalytic triad [active] 640510016128 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 640510016129 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 640510016130 substrate binding site [chemical binding]; other site 640510016131 ligand binding site [chemical binding]; other site 640510016132 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 640510016133 substrate binding site [chemical binding]; other site 640510016134 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 640510016135 Domain of unknown function (DUF305); Region: DUF305; cl17794 640510016136 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 640510016137 metal-binding site [ion binding] 640510016138 Tetratricopeptide repeat; Region: TPR_16; pfam13432 640510016139 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 640510016140 binding surface 640510016141 TPR motif; other site 640510016142 TPR repeat; Region: TPR_11; pfam13414 640510016143 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 640510016144 binding surface 640510016145 TPR motif; other site 640510016146 ADP-heptose:LPS heptosyl transferase I; Provisional; Region: PRK10964; cl15782 640510016147 GDP-fucose protein O-fucosyltransferase and related proteins; Region: O-FucT_like; cl16914 640510016148 GDP-Fucose binding site [chemical binding]; other site 640510016149 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 640510016150 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 640510016151 putative NAD(P) binding site [chemical binding]; other site 640510016152 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 640510016153 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640510016154 Walker A/P-loop; other site 640510016155 ATP binding site [chemical binding]; other site 640510016156 Q-loop/lid; other site 640510016157 ABC transporter signature motif; other site 640510016158 Walker B; other site 640510016159 D-loop; other site 640510016160 H-loop/switch region; other site 640510016161 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 640510016162 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 640510016163 Walker A motif; other site 640510016164 ATP binding site [chemical binding]; other site 640510016165 Walker B motif; other site 640510016166 arginine finger; other site 640510016167 Peptidase family M41; Region: Peptidase_M41; pfam01434 640510016168 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 640510016169 OpgC protein; Region: OpgC_C; pfam10129 640510016170 Tannase and feruloyl esterase; Region: Tannase; pfam07519 640510016171 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 640510016172 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 640510016173 Walker A/P-loop; other site 640510016174 ATP binding site [chemical binding]; other site 640510016175 Q-loop/lid; other site 640510016176 ABC transporter signature motif; other site 640510016177 Walker B; other site 640510016178 D-loop; other site 640510016179 H-loop/switch region; other site 640510016180 ABC-2 type transporter; Region: ABC2_membrane; cl17235 640510016181 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 640510016182 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 640510016183 Autoinducer binding domain; Region: Autoind_bind; pfam03472 640510016184 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 640510016185 DNA binding residues [nucleotide binding] 640510016186 dimerization interface [polypeptide binding]; other site 640510016187 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 640510016188 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510016189 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510016190 Protein of unknown function (DUF3830); Region: DUF3830; pfam12903 640510016191 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 640510016192 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 640510016193 YadA-like C-terminal region; Region: YadA; pfam03895 640510016194 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 640510016195 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510016196 shikimate transporter; Provisional; Region: PRK09952 640510016197 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510016198 putative substrate translocation pore; other site 640510016199 Transcriptional regulators [Transcription]; Region: GntR; COG1802 640510016200 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510016201 DNA-binding site [nucleotide binding]; DNA binding site 640510016202 FCD domain; Region: FCD; pfam07729 640510016203 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 640510016204 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 640510016205 PYR/PP interface [polypeptide binding]; other site 640510016206 dimer interface [polypeptide binding]; other site 640510016207 TPP binding site [chemical binding]; other site 640510016208 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 640510016209 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 640510016210 TPP-binding site; other site 640510016211 dimer interface [polypeptide binding]; other site 640510016212 formyl-coenzyme A transferase; Provisional; Region: PRK05398 640510016213 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640510016214 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 640510016215 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 640510016216 CoA binding domain; Region: CoA_binding_2; pfam13380 640510016217 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 640510016218 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 640510016219 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 640510016220 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 640510016221 Autophagy protein Apg6; Region: APG6; pfam04111 640510016222 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510016223 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510016224 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 640510016225 putative dimerization interface [polypeptide binding]; other site 640510016226 oxalate/formate antiporter; Region: oxa_formateAnti; TIGR04259 640510016227 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510016228 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510016229 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 640510016230 putative dimerization interface [polypeptide binding]; other site 640510016231 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640510016232 Pseudomonas fluorescens 4-hydroxymuconic semialdehyde dehydrogenase-like; Region: ALDH_HMSADH_HapE; cd07115 640510016233 NAD(P) binding site [chemical binding]; other site 640510016234 catalytic residues [active] 640510016235 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 640510016236 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 640510016237 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 640510016238 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 640510016239 Uncharacterized conserved protein [Function unknown]; Region: COG1739 640510016240 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 640510016241 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 640510016242 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 640510016243 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 640510016244 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 640510016245 putative catalytic residue [active] 640510016246 Protein of unknown function (DUF2866); Region: DUF2866; pfam11065 640510016247 Protein of unknown function, DUF484; Region: DUF484; cl17449 640510016248 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640510016249 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640510016250 metal binding site [ion binding]; metal-binding site 640510016251 active site 640510016252 I-site; other site 640510016253 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 640510016254 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 640510016255 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 640510016256 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 640510016257 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 640510016258 HAMP domain; Region: HAMP; pfam00672 640510016259 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640510016260 dimer interface [polypeptide binding]; other site 640510016261 putative CheW interface [polypeptide binding]; other site 640510016262 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 640510016263 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 640510016264 tetramer interface [polypeptide binding]; other site 640510016265 active site 640510016266 Mg2+/Mn2+ binding site [ion binding]; other site 640510016267 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 640510016268 active site 640510016269 metal-binding site 640510016270 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 640510016271 phosphonopyruvate decarboxylase; Region: Ppyr-DeCO2ase; TIGR03297 640510016272 PYR/PP interface [polypeptide binding]; other site 640510016273 dimer interface [polypeptide binding]; other site 640510016274 TPP binding site [chemical binding]; other site 640510016275 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 640510016276 TPP-binding site; other site 640510016277 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 640510016278 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640510016279 catalytic residue [active] 640510016280 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12650 640510016281 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 640510016282 Domain of unknown function (DUF4130; Region: DUF4130; cl14836 640510016283 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 640510016284 Fe-S cluster binding site [ion binding]; other site 640510016285 active site 640510016286 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 640510016287 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 640510016288 Ligand binding site; other site 640510016289 metal-binding site 640510016290 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 640510016291 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 640510016292 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640510016293 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 640510016294 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 640510016295 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 640510016296 catalytic loop [active] 640510016297 iron binding site [ion binding]; other site 640510016298 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 640510016299 3HB-oligomer hydrolase (3HBOH); Region: 3HBOH; pfam10605 640510016300 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 640510016301 putative catalytic site [active] 640510016302 putative phosphate binding site [ion binding]; other site 640510016303 active site 640510016304 metal binding site A [ion binding]; metal-binding site 640510016305 DNA binding site [nucleotide binding] 640510016306 putative AP binding site [nucleotide binding]; other site 640510016307 putative metal binding site B [ion binding]; other site 640510016308 flagellar motor protein MotB; Validated; Region: motB; PRK09041 640510016309 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 640510016310 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640510016311 ligand binding site [chemical binding]; other site 640510016312 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 640510016313 flagellar motor stator protein MotA; Region: MotA1; TIGR03818 640510016314 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4320 640510016315 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; pfam10009 640510016316 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 640510016317 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 640510016318 NodB motif; other site 640510016319 active site 640510016320 catalytic site [active] 640510016321 metal binding site [ion binding]; metal-binding site 640510016322 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 640510016323 classical (c) SDRs; Region: SDR_c; cd05233 640510016324 NAD(P) binding site [chemical binding]; other site 640510016325 active site 640510016326 Oxidoreductase-like protein, N-terminal; Region: Oxidored-like; pfam09791 640510016327 NAD-dependent deacetylase; Provisional; Region: PRK05333 640510016328 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 640510016329 Protein of unknown function (DUF938); Region: DUF938; pfam06080 640510016330 Methyltransferase domain; Region: Methyltransf_23; pfam13489 640510016331 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 640510016332 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 640510016333 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 640510016334 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640510016335 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 640510016336 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 640510016337 Cupin domain; Region: Cupin_2; cl17218 640510016338 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 640510016339 Peptidase family M23; Region: Peptidase_M23; pfam01551 640510016340 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 640510016341 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 640510016342 tetramer interface [polypeptide binding]; other site 640510016343 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510016344 catalytic residue [active] 640510016345 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510016346 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510016347 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 640510016348 homodimer interface [polypeptide binding]; other site 640510016349 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 640510016350 active site pocket [active] 640510016351 cell density-dependent motility repressor; Provisional; Region: PRK10082 640510016352 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510016353 The 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 640510016354 dimerization interface [polypeptide binding]; other site 640510016355 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 640510016356 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 640510016357 aspartate racemase; Region: asp_race; TIGR00035 640510016358 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; pfam01177 640510016359 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 640510016360 aspartate racemase; Region: asp_race; TIGR00035 640510016361 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 640510016362 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510016363 The 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 640510016364 dimerization interface [polypeptide binding]; other site 640510016365 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 640510016366 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640510016367 Walker A/P-loop; other site 640510016368 ATP binding site [chemical binding]; other site 640510016369 Q-loop/lid; other site 640510016370 ABC transporter signature motif; other site 640510016371 Walker B; other site 640510016372 D-loop; other site 640510016373 H-loop/switch region; other site 640510016374 TOBE domain; Region: TOBE_2; pfam08402 640510016375 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 640510016376 Haloacid dehalogenase superfamily, subfamily IA, variant 2 with 3rd motif like haloacid dehalogenase; Region: HAD-SF-IA-v2; TIGR01493 640510016377 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 640510016378 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640510016379 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510016380 dimer interface [polypeptide binding]; other site 640510016381 conserved gate region; other site 640510016382 putative PBP binding loops; other site 640510016383 ABC-ATPase subunit interface; other site 640510016384 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 640510016385 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510016386 dimer interface [polypeptide binding]; other site 640510016387 conserved gate region; other site 640510016388 putative PBP binding loops; other site 640510016389 ABC-ATPase subunit interface; other site 640510016390 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 640510016391 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640510016392 NAD binding site [chemical binding]; other site 640510016393 catalytic residues [active] 640510016394 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 640510016395 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 640510016396 hypothetical protein; Provisional; Region: PRK11622 640510016397 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 640510016398 RNA polymerase sigma factor; Provisional; Region: PRK11922 640510016399 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 640510016400 DNA binding residues [nucleotide binding] 640510016401 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 640510016402 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 640510016403 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 640510016404 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510016405 putative substrate translocation pore; other site 640510016406 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 640510016407 tartrate dehydrogenase; Region: TTC; TIGR02089 640510016408 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510016409 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 640510016410 putative effector binding pocket; other site 640510016411 putative dimerization interface [polypeptide binding]; other site 640510016412 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640510016413 C-20 methyltransferase BchU; Region: C20_methyl_CrtF; TIGR02716 640510016414 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 640510016415 S-adenosylmethionine binding site [chemical binding]; other site 640510016416 sensor protein QseC; Provisional; Region: PRK10337 640510016417 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 640510016418 dimer interface [polypeptide binding]; other site 640510016419 phosphorylation site [posttranslational modification] 640510016420 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510016421 Mg2+ binding site [ion binding]; other site 640510016422 G-X-G motif; other site 640510016423 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 640510016424 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510016425 active site 640510016426 phosphorylation site [posttranslational modification] 640510016427 intermolecular recognition site; other site 640510016428 dimerization interface [polypeptide binding]; other site 640510016429 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 640510016430 DNA binding site [nucleotide binding] 640510016431 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640510016432 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4705 640510016433 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 640510016434 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 640510016435 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 640510016436 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640510016437 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 640510016438 trimer interface [polypeptide binding]; other site 640510016439 eyelet of channel; other site 640510016440 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 640510016441 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 640510016442 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 640510016443 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 640510016444 active site 640510016445 Zn binding site [ion binding]; other site 640510016446 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional; Region: PRK15010 640510016447 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 640510016448 substrate binding pocket [chemical binding]; other site 640510016449 membrane-bound complex binding site; other site 640510016450 hinge residues; other site 640510016451 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 640510016452 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 640510016453 HAMP domain; Region: HAMP; pfam00672 640510016454 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640510016455 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640510016456 metal binding site [ion binding]; metal-binding site 640510016457 active site 640510016458 I-site; other site 640510016459 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 640510016460 Guanylate kinase; Region: Guanylate_kin; pfam00625 640510016461 active site 640510016462 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 640510016463 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 640510016464 metal binding site [ion binding]; metal-binding site 640510016465 putative dimer interface [polypeptide binding]; other site 640510016466 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 640510016467 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 640510016468 Bacterial transcriptional regulator; Region: IclR; pfam01614 640510016469 Transcriptional regulators [Transcription]; Region: FadR; COG2186 640510016470 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510016471 DNA-binding site [nucleotide binding]; DNA binding site 640510016472 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 640510016473 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 640510016474 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 640510016475 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 640510016476 putative aldolase; Validated; Region: PRK08130 640510016477 intersubunit interface [polypeptide binding]; other site 640510016478 active site 640510016479 Zn2+ binding site [ion binding]; other site 640510016480 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 640510016481 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510016482 putative substrate translocation pore; other site 640510016483 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 640510016484 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 640510016485 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 640510016486 putative NAD(P) binding site [chemical binding]; other site 640510016487 active site 640510016488 putative substrate binding site [chemical binding]; other site 640510016489 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 640510016490 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 640510016491 dimer interface [polypeptide binding]; other site 640510016492 active site 640510016493 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 640510016494 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640510016495 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 640510016496 dimer interface [polypeptide binding]; other site 640510016497 phosphorylation site [posttranslational modification] 640510016498 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510016499 ATP binding site [chemical binding]; other site 640510016500 Mg2+ binding site [ion binding]; other site 640510016501 G-X-G motif; other site 640510016502 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510016503 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 640510016504 putative effector binding pocket; other site 640510016505 putative dimerization interface [polypeptide binding]; other site 640510016506 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 640510016507 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 640510016508 active site 640510016509 catalytic tetrad [active] 640510016510 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510016511 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 640510016512 putative substrate binding pocket [chemical binding]; other site 640510016513 putative dimerization interface [polypeptide binding]; other site 640510016514 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 640510016515 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 640510016516 Predicted esterase [General function prediction only]; Region: COG0627 640510016517 S-formylglutathione hydrolase; Region: PLN02442 640510016518 aspartate carbamoyltransferase; Provisional; Region: PRK11891 640510016519 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 640510016520 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 640510016521 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 640510016522 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 640510016523 dimer interface [polypeptide binding]; other site 640510016524 active site 640510016525 catalytic residue [active] 640510016526 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 640510016527 Peptidase family M23; Region: Peptidase_M23; pfam01551 640510016528 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 640510016529 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 640510016530 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 640510016531 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640510016532 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640510016533 metal binding site [ion binding]; metal-binding site 640510016534 active site 640510016535 I-site; other site 640510016536 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 640510016537 Predicted metalloprotease [General function prediction only]; Region: COG2321 640510016538 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 640510016539 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 640510016540 active site residue [active] 640510016541 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 640510016542 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 640510016543 conserved cys residue [active] 640510016544 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510016545 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4320 640510016546 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; pfam10009 640510016547 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 640510016548 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 640510016549 Sulfate transporter family; Region: Sulfate_transp; pfam00916 640510016550 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 640510016551 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 640510016552 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510016553 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510016554 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 640510016555 putative dimerization interface [polypeptide binding]; other site 640510016556 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 640510016557 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640510016558 putative metal binding site [ion binding]; other site 640510016559 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 640510016560 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 640510016561 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 640510016562 HlyD family secretion protein; Region: HlyD_3; pfam13437 640510016563 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640510016564 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 640510016565 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510016566 active site 640510016567 phosphorylation site [posttranslational modification] 640510016568 intermolecular recognition site; other site 640510016569 dimerization interface [polypeptide binding]; other site 640510016570 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 640510016571 DNA binding site [nucleotide binding] 640510016572 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 640510016573 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 640510016574 dimer interface [polypeptide binding]; other site 640510016575 phosphorylation site [posttranslational modification] 640510016576 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510016577 ATP binding site [chemical binding]; other site 640510016578 Mg2+ binding site [ion binding]; other site 640510016579 G-X-G motif; other site 640510016580 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 640510016581 active site 640510016582 DNA polymerase IV; Validated; Region: PRK02406 640510016583 DNA binding site [nucleotide binding] 640510016584 Uncharacterized conserved protein [Function unknown]; Region: COG2353 640510016585 YceI-like domain; Region: YceI; smart00867 640510016586 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 640510016587 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 640510016588 transmembrane helices; other site 640510016589 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 640510016590 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 640510016591 pseudo EF-hand loop; other site 640510016592 peptide binding pocket; other site 640510016593 Ca2+ binding site [ion binding]; other site 640510016594 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640510016595 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 640510016596 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640510016597 HlyD family secretion protein; Region: HlyD_3; pfam13437 640510016598 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 640510016599 osmolarity response regulator; Provisional; Region: ompR; PRK09468 640510016600 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510016601 active site 640510016602 phosphorylation site [posttranslational modification] 640510016603 intermolecular recognition site; other site 640510016604 dimerization interface [polypeptide binding]; other site 640510016605 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 640510016606 DNA binding site [nucleotide binding] 640510016607 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 640510016608 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 640510016609 dimerization interface [polypeptide binding]; other site 640510016610 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 640510016611 dimer interface [polypeptide binding]; other site 640510016612 phosphorylation site [posttranslational modification] 640510016613 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510016614 ATP binding site [chemical binding]; other site 640510016615 Mg2+ binding site [ion binding]; other site 640510016616 G-X-G motif; other site 640510016617 PAS fold; Region: PAS_4; pfam08448 640510016618 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 640510016619 PAS fold; Region: PAS_3; pfam08447 640510016620 putative active site [active] 640510016621 heme pocket [chemical binding]; other site 640510016622 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 640510016623 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640510016624 dimer interface [polypeptide binding]; other site 640510016625 phosphorylation site [posttranslational modification] 640510016626 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510016627 ATP binding site [chemical binding]; other site 640510016628 G-X-G motif; other site 640510016629 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 640510016630 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510016631 active site 640510016632 phosphorylation site [posttranslational modification] 640510016633 intermolecular recognition site; other site 640510016634 dimerization interface [polypeptide binding]; other site 640510016635 Response regulator receiver domain; Region: Response_reg; pfam00072 640510016636 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510016637 active site 640510016638 phosphorylation site [posttranslational modification] 640510016639 intermolecular recognition site; other site 640510016640 dimerization interface [polypeptide binding]; other site 640510016641 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4320 640510016642 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; pfam10009 640510016643 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 640510016644 binding surface 640510016645 TPR motif; other site 640510016646 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 640510016647 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 640510016648 TPR motif; other site 640510016649 binding surface 640510016650 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 640510016651 TPR motif; other site 640510016652 binding surface 640510016653 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 640510016654 TPR motif; other site 640510016655 binding surface 640510016656 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 640510016657 endo-1,4-D-glucanase; Provisional; Region: PRK11097 640510016658 cellulose synthase regulator protein; Provisional; Region: PRK11114 640510016659 cellulose synthase catalytic subunit (UDP-forming); Region: CelA; TIGR03030 640510016660 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 640510016661 DXD motif; other site 640510016662 PilZ domain; Region: PilZ; pfam07238 640510016663 cellulose synthase operon protein YhjQ; Region: cellulose_yhjQ; TIGR03371 640510016664 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 640510016665 P-loop; other site 640510016666 Magnesium ion binding site [ion binding]; other site 640510016667 Cellulose synthase subunit D; Region: Cellsynth_D; pfam03500 640510016668 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640510016669 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640510016670 metal binding site [ion binding]; metal-binding site 640510016671 active site 640510016672 I-site; other site 640510016673 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 640510016674 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 640510016675 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 640510016676 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 640510016677 putative substrate binding pocket [chemical binding]; other site 640510016678 trimer interface [polypeptide binding]; other site 640510016679 The Class III extradiol dioxygenase, homoprotocatechuate 2,3-dioxygenase, catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate; Region: HPCD; cd07370 640510016680 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 640510016681 putative active site [active] 640510016682 putative metal binding site [ion binding]; other site 640510016683 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase; Region: HpaE; TIGR02299 640510016684 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 640510016685 NAD binding site [chemical binding]; other site 640510016686 catalytic residues [active] 640510016687 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 640510016688 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 640510016689 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 640510016690 MarR family; Region: MarR_2; cl17246 640510016691 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640510016692 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510016693 metabolite-proton symporter; Region: 2A0106; TIGR00883 640510016694 putative substrate translocation pore; other site 640510016695 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 640510016696 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 640510016697 tetrameric interface [polypeptide binding]; other site 640510016698 NAD binding site [chemical binding]; other site 640510016699 catalytic residues [active] 640510016700 H+ Antiporter protein; Region: 2A0121; TIGR00900 640510016701 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510016702 putative substrate translocation pore; other site 640510016703 Isochorismatase family; Region: Isochorismatase; pfam00857 640510016704 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 640510016705 catalytic triad [active] 640510016706 conserved cis-peptide bond; other site 640510016707 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640510016708 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 640510016709 putative DNA binding site [nucleotide binding]; other site 640510016710 putative Zn2+ binding site [ion binding]; other site 640510016711 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640510016712 metal binding site [ion binding]; metal-binding site 640510016713 active site 640510016714 I-site; other site 640510016715 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 640510016716 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 640510016717 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 640510016718 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 640510016719 N-terminal plug; other site 640510016720 ligand-binding site [chemical binding]; other site 640510016721 CsbD-like; Region: CsbD; pfam05532 640510016722 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 640510016723 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 640510016724 NAD binding site [chemical binding]; other site 640510016725 catalytic Zn binding site [ion binding]; other site 640510016726 structural Zn binding site [ion binding]; other site 640510016727 DEAD-like helicases superfamily; Region: DEXDc; smart00487 640510016728 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 640510016729 ATP binding site [chemical binding]; other site 640510016730 putative Mg++ binding site [ion binding]; other site 640510016731 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 640510016732 nucleotide binding region [chemical binding]; other site 640510016733 ATP-binding site [chemical binding]; other site 640510016734 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 640510016735 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 640510016736 NAD binding site [chemical binding]; other site 640510016737 putative substrate binding site 2 [chemical binding]; other site 640510016738 putative substrate binding site 1 [chemical binding]; other site 640510016739 active site 640510016740 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 640510016741 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640510016742 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 640510016743 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 640510016744 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 640510016745 putative active site [active] 640510016746 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 640510016747 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 640510016748 active site 640510016749 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 640510016750 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 640510016751 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 640510016752 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 640510016753 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 640510016754 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 640510016755 putative active site [active] 640510016756 D,D-heptose 1,7-bisphosphate phosphatase; Region: GmhB_yaeD; TIGR00213 640510016757 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 640510016758 active site 640510016759 motif I; other site 640510016760 motif II; other site 640510016761 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 640510016762 D-inositol-3-phosphate glycosyltransferase; Region: mycothiol_MshA; TIGR03449 640510016763 putative ADP-binding pocket [chemical binding]; other site 640510016764 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 640510016765 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 640510016766 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640510016767 Walker A/P-loop; other site 640510016768 ATP binding site [chemical binding]; other site 640510016769 Q-loop/lid; other site 640510016770 ABC transporter signature motif; other site 640510016771 Walker B; other site 640510016772 Protein of unknown function (DUF1822); Region: DUF1822; pfam08852 640510016773 D-loop; other site 640510016774 H-loop/switch region; other site 640510016775 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510016776 Response regulator receiver domain; Region: Response_reg; pfam00072 640510016777 active site 640510016778 phosphorylation site [posttranslational modification] 640510016779 intermolecular recognition site; other site 640510016780 dimerization interface [polypeptide binding]; other site 640510016781 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 640510016782 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 640510016783 active site 640510016784 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 640510016785 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 640510016786 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 640510016787 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 640510016788 Phophatidylserine decarboxylase; Region: PSDC; pfam12588 640510016789 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; pfam02666 640510016790 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 640510016791 dimanganese center [ion binding]; other site 640510016792 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 640510016793 dimerization interface [polypeptide binding]; other site 640510016794 metal binding site [ion binding]; metal-binding site 640510016795 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 640510016796 nudix motif; other site 640510016797 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 640510016798 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 640510016799 Trp docking motif [polypeptide binding]; other site 640510016800 putative active site [active] 640510016801 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 640510016802 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 640510016803 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 640510016804 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 640510016805 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 640510016806 putative molybdopterin cofactor binding site [chemical binding]; other site 640510016807 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 640510016808 putative molybdopterin cofactor binding site; other site 640510016809 Hemerythrin-like domain; Region: Hr-like; cd12108 640510016810 NAD synthetase; Reviewed; Region: nadE; PRK02628 640510016811 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 640510016812 multimer interface [polypeptide binding]; other site 640510016813 active site 640510016814 catalytic triad [active] 640510016815 protein interface 1 [polypeptide binding]; other site 640510016816 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 640510016817 homodimer interface [polypeptide binding]; other site 640510016818 NAD binding pocket [chemical binding]; other site 640510016819 ATP binding pocket [chemical binding]; other site 640510016820 Mg binding site [ion binding]; other site 640510016821 active-site loop [active] 640510016822 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 640510016823 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640510016824 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 640510016825 Coenzyme A binding pocket [chemical binding]; other site 640510016826 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640510016827 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640510016828 Cytochrome c; Region: Cytochrom_C; pfam00034 640510016829 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 640510016830 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 640510016831 Subunit I/III interface [polypeptide binding]; other site 640510016832 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 640510016833 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 640510016834 D-pathway; other site 640510016835 Putative ubiquinol binding site [chemical binding]; other site 640510016836 Low-spin heme (heme b) binding site [chemical binding]; other site 640510016837 Putative water exit pathway; other site 640510016838 Binuclear center (heme o3/CuB) [ion binding]; other site 640510016839 K-pathway; other site 640510016840 Putative proton exit pathway; other site 640510016841 Cytochrome c oxidase subunit IV; Region: Cyt_c_ox_IV; pfam12270 640510016842 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 640510016843 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 640510016844 Cytochrome c; Region: Cytochrom_C; pfam00034 640510016845 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 640510016846 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 640510016847 putative active site [active] 640510016848 heme pocket [chemical binding]; other site 640510016849 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 640510016850 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 640510016851 putative active site [active] 640510016852 heme pocket [chemical binding]; other site 640510016853 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 640510016854 dimer interface [polypeptide binding]; other site 640510016855 phosphorylation site [posttranslational modification] 640510016856 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510016857 ATP binding site [chemical binding]; other site 640510016858 Mg2+ binding site [ion binding]; other site 640510016859 G-X-G motif; other site 640510016860 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 640510016861 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510016862 active site 640510016863 phosphorylation site [posttranslational modification] 640510016864 intermolecular recognition site; other site 640510016865 dimerization interface [polypeptide binding]; other site 640510016866 Response regulator receiver domain; Region: Response_reg; pfam00072 640510016867 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510016868 active site 640510016869 phosphorylation site [posttranslational modification] 640510016870 intermolecular recognition site; other site 640510016871 dimerization interface [polypeptide binding]; other site 640510016872 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 640510016873 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 640510016874 putative dimer interface [polypeptide binding]; other site 640510016875 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 640510016876 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 640510016877 putative dimer interface [polypeptide binding]; other site 640510016878 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 640510016879 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640510016880 putative ADP-binding pocket [chemical binding]; other site 640510016881 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 640510016882 Uncharacterized conserved protein [Function unknown]; Region: COG3791 640510016883 Putative ParB-like nuclease; Region: ParBc_2; cl17538 640510016884 Low affinity iron permease; Region: Iron_permease; pfam04120 640510016885 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 640510016886 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 640510016887 GAF domain; Region: GAF; pfam01590 640510016888 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 640510016889 PAS fold; Region: PAS_3; pfam08447 640510016890 putative active site [active] 640510016891 heme pocket [chemical binding]; other site 640510016892 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 640510016893 dimer interface [polypeptide binding]; other site 640510016894 phosphorylation site [posttranslational modification] 640510016895 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510016896 ATP binding site [chemical binding]; other site 640510016897 Mg2+ binding site [ion binding]; other site 640510016898 G-X-G motif; other site 640510016899 Response regulator receiver domain; Region: Response_reg; pfam00072 640510016900 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510016901 active site 640510016902 phosphorylation site [posttranslational modification] 640510016903 intermolecular recognition site; other site 640510016904 dimerization interface [polypeptide binding]; other site 640510016905 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 640510016906 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640510016907 Coenzyme A binding pocket [chemical binding]; other site 640510016908 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 640510016909 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 640510016910 FMN binding site [chemical binding]; other site 640510016911 active site 640510016912 substrate binding site [chemical binding]; other site 640510016913 catalytic residue [active] 640510016914 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 640510016915 putative DNA binding site [nucleotide binding]; other site 640510016916 dimerization interface [polypeptide binding]; other site 640510016917 putative Zn2+ binding site [ion binding]; other site 640510016918 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 640510016919 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510016920 PAS domain S-box; Region: sensory_box; TIGR00229 640510016921 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 640510016922 putative active site [active] 640510016923 heme pocket [chemical binding]; other site 640510016924 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 640510016925 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 640510016926 hexamer interface [polypeptide binding]; other site 640510016927 ligand binding site [chemical binding]; other site 640510016928 putative active site [active] 640510016929 NAD(P) binding site [chemical binding]; other site 640510016930 RNA polymerase sigma factor; Reviewed; Region: PRK05602 640510016931 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640510016932 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 640510016933 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4102 640510016934 Helix-Turn-Helix DNA binding domain of the transcription regulators NolA and AlbR; Region: HTH_NolA-AlbR; cd04788 640510016935 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 640510016936 DNA binding residues [nucleotide binding] 640510016937 putative dimer interface [polypeptide binding]; other site 640510016938 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 640510016939 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 640510016940 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640510016941 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 640510016942 trimer interface [polypeptide binding]; other site 640510016943 eyelet of channel; other site 640510016944 Cupin domain; Region: Cupin_2; cl17218 640510016945 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 640510016946 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640510016947 catalytic residue [active] 640510016948 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510016949 metabolite-proton symporter; Region: 2A0106; TIGR00883 640510016950 putative substrate translocation pore; other site 640510016951 hypothetical protein; Provisional; Region: PRK07079 640510016952 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_2; cd05679 640510016953 metal binding site [ion binding]; metal-binding site 640510016954 putative dimer interface [polypeptide binding]; other site 640510016955 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510016956 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510016957 The 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 640510016958 dimerization interface [polypeptide binding]; other site 640510016959 dihydroxy-acid dehydratase; Validated; Region: PRK06131 640510016960 hypothetical protein; Validated; Region: PRK08245 640510016961 hypothetical protein; Validated; Region: PRK06201 640510016962 D-galactonate transporter; Region: 2A0114; TIGR00893 640510016963 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510016964 putative substrate translocation pore; other site 640510016965 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640510016966 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640510016967 DNA binding site [nucleotide binding] 640510016968 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 640510016969 putative ligand binding site [chemical binding]; other site 640510016970 putative dimerization interface [polypeptide binding]; other site 640510016971 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 640510016972 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 640510016973 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 640510016974 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 640510016975 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 640510016976 D-pathway; other site 640510016977 Putative ubiquinol binding site [chemical binding]; other site 640510016978 Low-spin heme (heme b) binding site [chemical binding]; other site 640510016979 Putative water exit pathway; other site 640510016980 Binuclear center (heme o3/CuB) [ion binding]; other site 640510016981 K-pathway; other site 640510016982 Putative proton exit pathway; other site 640510016983 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 640510016984 Subunit I/III interface [polypeptide binding]; other site 640510016985 Subunit III/IV interface [polypeptide binding]; other site 640510016986 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 640510016987 TupA-like ATPgrasp; Region: ATPgrasp_TupA; pfam14305 640510016988 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640510016989 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 640510016990 conserved cys residue [active] 640510016991 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510016992 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510016993 tyrosine kinase; Provisional; Region: PRK11519 640510016994 Chain length determinant protein; Region: Wzz; pfam02706 640510016995 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 640510016996 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 640510016997 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 640510016998 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640510016999 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 640510017000 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 640510017001 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 640510017002 active site 640510017003 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 640510017004 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 640510017005 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640510017006 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 640510017007 putative ADP-binding pocket [chemical binding]; other site 640510017008 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 640510017009 active site 640510017010 O-Antigen ligase; Region: Wzy_C; pfam04932 640510017011 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 640510017012 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 640510017013 Substrate binding site; other site 640510017014 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 640510017015 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 640510017016 Bacterial sugar transferase; Region: Bac_transf; pfam02397 640510017017 Sugar-transfer associated ATP-grasp; Region: ATPgrasp_ST; pfam14397 640510017018 Phasin protein; Region: Phasin_2; pfam09361 640510017019 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 640510017020 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640510017021 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 640510017022 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 640510017023 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 640510017024 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 640510017025 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 640510017026 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 640510017027 Walker A/P-loop; other site 640510017028 ATP binding site [chemical binding]; other site 640510017029 Q-loop/lid; other site 640510017030 ABC transporter signature motif; other site 640510017031 Walker B; other site 640510017032 D-loop; other site 640510017033 H-loop/switch region; other site 640510017034 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 640510017035 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640510017036 HlyD family secretion protein; Region: HlyD_3; pfam13437 640510017037 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640510017038 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640510017039 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 640510017040 hypothetical protein; Provisional; Region: PRK06486 640510017041 intersubunit interface [polypeptide binding]; other site 640510017042 active site 640510017043 Zn2+ binding site [ion binding]; other site 640510017044 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 640510017045 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 640510017046 motif II; other site 640510017047 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510017048 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510017049 The 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 640510017050 dimerization interface [polypeptide binding]; other site 640510017051 SnoaL-like domain; Region: SnoaL_2; pfam12680 640510017052 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 640510017053 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 640510017054 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 640510017055 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 640510017056 Protein of unknown function (DUF330); Region: DUF330; pfam03886 640510017057 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 640510017058 mce related protein; Region: MCE; pfam02470 640510017059 mce related protein; Region: MCE; pfam02470 640510017060 mce related protein; Region: MCE; pfam02470 640510017061 Paraquat-inducible protein A; Region: PqiA; pfam04403 640510017062 Paraquat-inducible protein A; Region: PqiA; pfam04403 640510017063 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 640510017064 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 640510017065 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 640510017066 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 640510017067 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 640510017068 active site 640510017069 LssY C-terminus; Region: LssY_C; pfam14067 640510017070 Organic hydroperoxide reductase [Secondary metabolites biosynthesis, transport and catabolism]; Region: osmC; COG1764 640510017071 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 640510017072 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 640510017073 putative DNA binding site [nucleotide binding]; other site 640510017074 putative Zn2+ binding site [ion binding]; other site 640510017075 AsnC family; Region: AsnC_trans_reg; pfam01037 640510017076 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 640510017077 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 640510017078 hypothetical protein; Provisional; Region: PRK02237 640510017079 Domain of unknown function (DUF1993); Region: DUF1993; pfam09351 640510017080 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cd11377 640510017081 peptidase domain interface [polypeptide binding]; other site 640510017082 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 640510017083 active site 640510017084 catalytic triad [active] 640510017085 calcium binding site [ion binding]; other site 640510017086 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 640510017087 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 640510017088 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 640510017089 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 640510017090 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 640510017091 homodimer interface [polypeptide binding]; other site 640510017092 NAD binding pocket [chemical binding]; other site 640510017093 ATP binding pocket [chemical binding]; other site 640510017094 Mg binding site [ion binding]; other site 640510017095 active-site loop [active] 640510017096 ABC1 family; Region: ABC1; cl17513 640510017097 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 640510017098 Amidohydrolase; Region: Amidohydro_2; pfam04909 640510017099 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 640510017100 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510017101 putative substrate translocation pore; other site 640510017102 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 640510017103 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640510017104 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 640510017105 active site 640510017106 catalytic residues [active] 640510017107 metal binding site [ion binding]; metal-binding site 640510017108 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 640510017109 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640510017110 Bacterial transcriptional regulator; Region: IclR; pfam01614 640510017111 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 640510017112 SnoaL-like domain; Region: SnoaL_3; pfam13474 640510017113 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 640510017114 PAS domain S-box; Region: sensory_box; TIGR00229 640510017115 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 640510017116 putative active site [active] 640510017117 heme pocket [chemical binding]; other site 640510017118 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640510017119 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 640510017120 dimer interface [polypeptide binding]; other site 640510017121 phosphorylation site [posttranslational modification] 640510017122 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510017123 ATP binding site [chemical binding]; other site 640510017124 Mg2+ binding site [ion binding]; other site 640510017125 G-X-G motif; other site 640510017126 Response regulator receiver domain; Region: Response_reg; pfam00072 640510017127 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510017128 active site 640510017129 phosphorylation site [posttranslational modification] 640510017130 intermolecular recognition site; other site 640510017131 dimerization interface [polypeptide binding]; other site 640510017132 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 640510017133 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 640510017134 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 640510017135 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 640510017136 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 640510017137 protein binding site [polypeptide binding]; other site 640510017138 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 640510017139 protein binding site [polypeptide binding]; other site 640510017140 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640510017141 classical (c) SDRs; Region: SDR_c; cd05233 640510017142 NAD(P) binding site [chemical binding]; other site 640510017143 active site 640510017144 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 640510017145 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640510017146 catalytic residue [active] 640510017147 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 640510017148 BON domain; Region: BON; pfam04972 640510017149 BON domain; Region: BON; pfam04972 640510017150 BON domain; Region: BON; pfam04972 640510017151 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 640510017152 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 640510017153 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 640510017154 AAA domain; Region: AAA_33; pfam13671 640510017155 active site 640510017156 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 640510017157 putative FMN binding site [chemical binding]; other site 640510017158 NADPH bind site [chemical binding]; other site 640510017159 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 640510017160 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 640510017161 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 640510017162 Uncharacterized conserved protein [Function unknown]; Region: COG2128 640510017163 Cupin domain; Region: Cupin_2; pfam07883 640510017164 OsmC-like protein; Region: OsmC; cl00767 640510017165 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510017166 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510017167 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 640510017168 putative effector binding pocket; other site 640510017169 dimerization interface [polypeptide binding]; other site 640510017170 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 640510017171 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 640510017172 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 640510017173 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 640510017174 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 640510017175 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 640510017176 Surface antigen; Region: Bac_surface_Ag; pfam01103 640510017177 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 640510017178 Organic solvent tolerance protein; Region: OstA_C; pfam04453 640510017179 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640510017180 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 640510017181 Protein of unknown function (DUF3182); Region: DUF3182; pfam11379 640510017182 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 640510017183 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 640510017184 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 640510017185 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 640510017186 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 640510017187 2-aminoethylphosphonate ABC transport system, ATP-binding component PhnT; Region: PhnT; TIGR03258 640510017188 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640510017189 Walker A/P-loop; other site 640510017190 ATP binding site [chemical binding]; other site 640510017191 Q-loop/lid; other site 640510017192 ABC transporter signature motif; other site 640510017193 Walker B; other site 640510017194 D-loop; other site 640510017195 H-loop/switch region; other site 640510017196 TOBE domain; Region: TOBE_2; pfam08402 640510017197 2-aminoethylphosphonate transport system permease PhnU; Provisional; Region: PRK15050 640510017198 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510017199 dimer interface [polypeptide binding]; other site 640510017200 conserved gate region; other site 640510017201 putative PBP binding loops; other site 640510017202 ABC-ATPase subunit interface; other site 640510017203 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510017204 dimer interface [polypeptide binding]; other site 640510017205 conserved gate region; other site 640510017206 ABC-ATPase subunit interface; other site 640510017207 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 640510017208 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510017209 DNA-binding site [nucleotide binding]; DNA binding site 640510017210 FCD domain; Region: FCD; pfam07729 640510017211 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 640510017212 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 640510017213 putative phosphonoacetaldehyde dehydrogenase; Region: PhnAcAld_DH; TIGR03250 640510017214 Streptomyces putative phosphonoformaldehyde dehydrogenase PhpJ-like; Region: ALDH_PhpJ; cd07146 640510017215 NAD(P) binding site [chemical binding]; other site 640510017216 catalytic residues [active] 640510017217 phosphonate degradation operons associated HDIG domain protein; Region: Phn-HD; TIGR03276 640510017218 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 640510017219 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 640510017220 putative active site [active] 640510017221 putative metal binding site [ion binding]; other site 640510017222 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 640510017223 putative FMN binding site [chemical binding]; other site 640510017224 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 640510017225 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 640510017226 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640510017227 putative ligand binding site [chemical binding]; other site 640510017228 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 640510017229 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 640510017230 Walker A/P-loop; other site 640510017231 ATP binding site [chemical binding]; other site 640510017232 Q-loop/lid; other site 640510017233 ABC transporter signature motif; other site 640510017234 Walker B; other site 640510017235 D-loop; other site 640510017236 H-loop/switch region; other site 640510017237 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 640510017238 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 640510017239 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640510017240 TM-ABC transporter signature motif; other site 640510017241 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 640510017242 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640510017243 TM-ABC transporter signature motif; other site 640510017244 benzoate transport; Region: 2A0115; TIGR00895 640510017245 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510017246 putative substrate translocation pore; other site 640510017247 hypothetical protein; Provisional; Region: PRK05463 640510017248 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510017249 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510017250 The 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 640510017251 dimerization interface [polypeptide binding]; other site 640510017252 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 640510017253 malonate decarboxylase, epsilon subunit; Region: malonate_mdcH; TIGR03131 640510017254 phosphoribosyl-dephospho-CoA transferase; Provisional; Region: PRK01293 640510017255 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; pfam10620 640510017256 malonate decarboxylase, gamma subunit; Region: malonate_gamma; TIGR03134 640510017257 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189 640510017258 malonate decarboxylase subunit delta; Provisional; Region: PRK01220 640510017259 triphosphoribosyl-dephospho-CoA synthase; Validated; Region: PRK01237 640510017260 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 640510017261 Coenzyme A transferase; Region: CoA_trans; cl17247 640510017262 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 640510017263 Transcriptional regulators [Transcription]; Region: GntR; COG1802 640510017264 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510017265 DNA-binding site [nucleotide binding]; DNA binding site 640510017266 FCD domain; Region: FCD; pfam07729 640510017267 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 640510017268 EamA-like transporter family; Region: EamA; pfam00892 640510017269 EamA-like transporter family; Region: EamA; pfam00892 640510017270 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510017271 The 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 640510017272 dimerization interface [polypeptide binding]; other site 640510017273 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 640510017274 N-acetyltransferase; Region: Acetyltransf_2; pfam00797 640510017275 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 640510017276 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 640510017277 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 640510017278 substrate binding pocket [chemical binding]; other site 640510017279 membrane-bound complex binding site; other site 640510017280 hinge residues; other site 640510017281 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640510017282 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510017283 dimer interface [polypeptide binding]; other site 640510017284 conserved gate region; other site 640510017285 putative PBP binding loops; other site 640510017286 ABC-ATPase subunit interface; other site 640510017287 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510017288 dimer interface [polypeptide binding]; other site 640510017289 conserved gate region; other site 640510017290 putative PBP binding loops; other site 640510017291 ABC-ATPase subunit interface; other site 640510017292 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 640510017293 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 640510017294 Walker A/P-loop; other site 640510017295 ATP binding site [chemical binding]; other site 640510017296 Q-loop/lid; other site 640510017297 ABC transporter signature motif; other site 640510017298 Walker B; other site 640510017299 D-loop; other site 640510017300 H-loop/switch region; other site 640510017301 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 640510017302 active sites [active] 640510017303 tetramer interface [polypeptide binding]; other site 640510017304 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 640510017305 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510017306 DNA-binding site [nucleotide binding]; DNA binding site 640510017307 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 640510017308 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 640510017309 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510017310 DNA-binding site [nucleotide binding]; DNA binding site 640510017311 UTRA domain; Region: UTRA; pfam07702 640510017312 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 640510017313 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 640510017314 Walker A/P-loop; other site 640510017315 ATP binding site [chemical binding]; other site 640510017316 Q-loop/lid; other site 640510017317 ABC transporter signature motif; other site 640510017318 Walker B; other site 640510017319 D-loop; other site 640510017320 H-loop/switch region; other site 640510017321 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510017322 dimer interface [polypeptide binding]; other site 640510017323 conserved gate region; other site 640510017324 putative PBP binding loops; other site 640510017325 ABC-ATPase subunit interface; other site 640510017326 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640510017327 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510017328 dimer interface [polypeptide binding]; other site 640510017329 conserved gate region; other site 640510017330 putative PBP binding loops; other site 640510017331 ABC-ATPase subunit interface; other site 640510017332 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 640510017333 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 640510017334 substrate binding pocket [chemical binding]; other site 640510017335 membrane-bound complex binding site; other site 640510017336 hinge residues; other site 640510017337 oxidase reductase; Provisional; Region: PTZ00273 640510017338 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 640510017339 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 640510017340 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 640510017341 FAD binding domain; Region: FAD_binding_4; pfam01565 640510017342 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 640510017343 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 640510017344 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 640510017345 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 640510017346 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 640510017347 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640510017348 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 640510017349 dimer interface [polypeptide binding]; other site 640510017350 phosphorylation site [posttranslational modification] 640510017351 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510017352 ATP binding site [chemical binding]; other site 640510017353 Mg2+ binding site [ion binding]; other site 640510017354 G-X-G motif; other site 640510017355 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 640510017356 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510017357 active site 640510017358 phosphorylation site [posttranslational modification] 640510017359 intermolecular recognition site; other site 640510017360 dimerization interface [polypeptide binding]; other site 640510017361 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640510017362 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510017363 active site 640510017364 phosphorylation site [posttranslational modification] 640510017365 intermolecular recognition site; other site 640510017366 dimerization interface [polypeptide binding]; other site 640510017367 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 640510017368 DNA binding residues [nucleotide binding] 640510017369 dimerization interface [polypeptide binding]; other site 640510017370 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 640510017371 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 640510017372 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 640510017373 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 640510017374 extended (e) SDRs; Region: SDR_e; cd08946 640510017375 NAD(P) binding site [chemical binding]; other site 640510017376 active site 640510017377 substrate binding site [chemical binding]; other site 640510017378 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510017379 D-galactonate transporter; Region: 2A0114; TIGR00893 640510017380 putative substrate translocation pore; other site 640510017381 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 640510017382 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 640510017383 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 640510017384 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 640510017385 tartronate semialdehyde reductase; Provisional; Region: PRK15059 640510017386 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 640510017387 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 640510017388 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 640510017389 dimer interface [polypeptide binding]; other site 640510017390 NADP binding site [chemical binding]; other site 640510017391 catalytic residues [active] 640510017392 Transcriptional regulators [Transcription]; Region: FadR; COG2186 640510017393 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510017394 DNA-binding site [nucleotide binding]; DNA binding site 640510017395 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 640510017396 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510017397 D-galactonate transporter; Region: 2A0114; TIGR00893 640510017398 putative substrate translocation pore; other site 640510017399 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510017400 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 640510017401 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 640510017402 putative active site [active] 640510017403 catalytic residue [active] 640510017404 galactarate dehydratase; Region: galactar-dH20; TIGR03248 640510017405 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 640510017406 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 640510017407 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 640510017408 extended (e) SDRs; Region: SDR_e; cd08946 640510017409 NAD(P) binding site [chemical binding]; other site 640510017410 active site 640510017411 substrate binding site [chemical binding]; other site 640510017412 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 640510017413 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 640510017414 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 640510017415 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 640510017416 DctM-like transporters; Region: DctM; pfam06808 640510017417 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 640510017418 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640510017419 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 640510017420 trimer interface [polypeptide binding]; other site 640510017421 eyelet of channel; other site 640510017422 4-oxalocrotonate tautomerase; Provisional; Region: PRK00745 640510017423 active site 1 [active] 640510017424 dimer interface [polypeptide binding]; other site 640510017425 hexamer interface [polypeptide binding]; other site 640510017426 active site 2 [active] 640510017427 aldolase II superfamily protein; Provisional; Region: PRK07044 640510017428 intersubunit interface [polypeptide binding]; other site 640510017429 active site 640510017430 Zn2+ binding site [ion binding]; other site 640510017431 Urea transporter; Region: UT; cl01829 640510017432 Putative glycolipid-binding; Region: Glycolipid_bind; pfam06475 640510017433 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 640510017434 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 640510017435 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 640510017436 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 640510017437 short chain dehydrogenase; Provisional; Region: PRK07832 640510017438 classical (c) SDRs; Region: SDR_c; cd05233 640510017439 NAD(P) binding site [chemical binding]; other site 640510017440 active site 640510017441 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 640510017442 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 640510017443 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg2; cd04778 640510017444 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 640510017445 DNA binding residues [nucleotide binding] 640510017446 putative dimer interface [polypeptide binding]; other site 640510017447 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 640510017448 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640510017449 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 640510017450 Coenzyme A binding pocket [chemical binding]; other site 640510017451 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 640510017452 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 640510017453 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510017454 DNA-binding site [nucleotide binding]; DNA binding site 640510017455 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 640510017456 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510017457 homodimer interface [polypeptide binding]; other site 640510017458 catalytic residue [active] 640510017459 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 640510017460 Response regulator receiver domain; Region: Response_reg; pfam00072 640510017461 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510017462 active site 640510017463 phosphorylation site [posttranslational modification] 640510017464 intermolecular recognition site; other site 640510017465 dimerization interface [polypeptide binding]; other site 640510017466 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 640510017467 metal binding site 2 [ion binding]; metal-binding site 640510017468 putative DNA binding helix; other site 640510017469 metal binding site 1 [ion binding]; metal-binding site 640510017470 dimer interface [polypeptide binding]; other site 640510017471 structural Zn2+ binding site [ion binding]; other site 640510017472 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 640510017473 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 640510017474 putative C-terminal domain interface [polypeptide binding]; other site 640510017475 putative GSH binding site (G-site) [chemical binding]; other site 640510017476 putative dimer interface [polypeptide binding]; other site 640510017477 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 640510017478 putative N-terminal domain interface [polypeptide binding]; other site 640510017479 putative dimer interface [polypeptide binding]; other site 640510017480 putative substrate binding pocket (H-site) [chemical binding]; other site 640510017481 Part of AAA domain; Region: AAA_19; pfam13245 640510017482 Family description; Region: UvrD_C_2; pfam13538 640510017483 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 640510017484 active site 640510017485 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 640510017486 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 640510017487 dimer interface [polypeptide binding]; other site 640510017488 phosphorylation site [posttranslational modification] 640510017489 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510017490 ATP binding site [chemical binding]; other site 640510017491 Mg2+ binding site [ion binding]; other site 640510017492 G-X-G motif; other site 640510017493 Response regulator receiver domain; Region: Response_reg; pfam00072 640510017494 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510017495 active site 640510017496 phosphorylation site [posttranslational modification] 640510017497 intermolecular recognition site; other site 640510017498 dimerization interface [polypeptide binding]; other site 640510017499 BetR domain; Region: BetR; pfam08667 640510017500 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510017501 active site 640510017502 phosphorylation site [posttranslational modification] 640510017503 intermolecular recognition site; other site 640510017504 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640510017505 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 640510017506 putative diguanylate cyclase; Provisional; Region: PRK13561 640510017507 ornithine cyclodeaminase; Validated; Region: PRK07340 640510017508 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 640510017509 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 640510017510 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 640510017511 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 640510017512 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 640510017513 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 640510017514 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 640510017515 type VI secretion lipoprotein, VC_A0113 family; Region: VI_chp_3; TIGR03352 640510017516 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 640510017517 TPR motif; other site 640510017518 binding surface 640510017519 Protein of unknown function (DUF770); Region: DUF770; pfam05591 640510017520 type VI secretion protein, EvpB/VC_A0108 family; Region: VI_chp_2; TIGR03355 640510017521 Protein of unknown function (DUF877); Region: DUF877; pfam05943 640510017522 Protein of unknown function (DUF796); Region: DUF796; pfam05638 640510017523 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3518 640510017524 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 640510017525 type VI secretion protein, VC_A0110 family; Region: VI_chp_6; TIGR03359 640510017526 type VI secretion protein, VC_A0111 family; Region: VI_chp_1; TIGR03347 640510017527 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 640510017528 Clp amino terminal domain; Region: Clp_N; pfam02861 640510017529 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 640510017530 Walker A motif; other site 640510017531 ATP binding site [chemical binding]; other site 640510017532 Walker B motif; other site 640510017533 arginine finger; other site 640510017534 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 640510017535 Walker A motif; other site 640510017536 ATP binding site [chemical binding]; other site 640510017537 Walker B motif; other site 640510017538 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 640510017539 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 640510017540 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 640510017541 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 640510017542 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640510017543 ligand binding site [chemical binding]; other site 640510017544 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; cl01611 640510017545 Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]; Region: IcmF; COG3523 640510017546 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 640510017547 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 640510017548 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 640510017549 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 640510017550 Inosine-uridine preferring nucleoside hydrolase; Region: IU_nuc_hydro; pfam01156 640510017551 active site 640510017552 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510017553 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510017554 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 640510017555 putative effector binding pocket; other site 640510017556 putative dimerization interface [polypeptide binding]; other site 640510017557 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 640510017558 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 640510017559 putative NAD(P) binding site [chemical binding]; other site 640510017560 putative substrate binding site [chemical binding]; other site 640510017561 catalytic Zn binding site [ion binding]; other site 640510017562 structural Zn binding site [ion binding]; other site 640510017563 dimer interface [polypeptide binding]; other site 640510017564 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 640510017565 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640510017566 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510017567 PAS domain; Region: PAS_9; pfam13426 640510017568 PAS domain; Region: PAS_9; pfam13426 640510017569 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640510017570 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640510017571 metal binding site [ion binding]; metal-binding site 640510017572 active site 640510017573 I-site; other site 640510017574 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 640510017575 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 640510017576 putative ligand binding site [chemical binding]; other site 640510017577 NAD binding site [chemical binding]; other site 640510017578 catalytic site [active] 640510017579 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 640510017580 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640510017581 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 640510017582 dimerization interface [polypeptide binding]; other site 640510017583 PAS domain S-box; Region: sensory_box; TIGR00229 640510017584 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 640510017585 putative active site [active] 640510017586 heme pocket [chemical binding]; other site 640510017587 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 640510017588 Histidine kinase; Region: HisKA_3; pfam07730 640510017589 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510017590 ATP binding site [chemical binding]; other site 640510017591 Mg2+ binding site [ion binding]; other site 640510017592 G-X-G motif; other site 640510017593 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 640510017594 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 640510017595 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 640510017596 active site 640510017597 dimer interface [polypeptide binding]; other site 640510017598 effector binding site; other site 640510017599 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 640510017600 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 640510017601 Predicted esterase [General function prediction only]; Region: COG0627 640510017602 OpgC protein; Region: OpgC_C; pfam10129 640510017603 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640510017604 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 640510017605 trimer interface [polypeptide binding]; other site 640510017606 eyelet of channel; other site 640510017607 Protein of unknown function (DUF3465); Region: DUF3465; pfam11948 640510017608 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 640510017609 Peptidase family M23; Region: Peptidase_M23; pfam01551 640510017610 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640510017611 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 640510017612 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 640510017613 catalytic loop [active] 640510017614 iron binding site [ion binding]; other site 640510017615 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 640510017616 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 640510017617 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640510017618 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 640510017619 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640510017620 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640510017621 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640510017622 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640510017623 Cytochrome c; Region: Cytochrom_C; pfam00034 640510017624 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640510017625 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510017626 dimer interface [polypeptide binding]; other site 640510017627 conserved gate region; other site 640510017628 putative PBP binding loops; other site 640510017629 ABC-ATPase subunit interface; other site 640510017630 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510017631 dimer interface [polypeptide binding]; other site 640510017632 conserved gate region; other site 640510017633 putative PBP binding loops; other site 640510017634 ABC-ATPase subunit interface; other site 640510017635 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 640510017636 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 640510017637 substrate binding pocket [chemical binding]; other site 640510017638 membrane-bound complex binding site; other site 640510017639 hinge residues; other site 640510017640 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 640510017641 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640510017642 Walker A/P-loop; other site 640510017643 ATP binding site [chemical binding]; other site 640510017644 Q-loop/lid; other site 640510017645 ABC transporter signature motif; other site 640510017646 Walker B; other site 640510017647 D-loop; other site 640510017648 H-loop/switch region; other site 640510017649 TOBE domain; Region: TOBE_2; pfam08402 640510017650 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 640510017651 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510017652 dimer interface [polypeptide binding]; other site 640510017653 conserved gate region; other site 640510017654 putative PBP binding loops; other site 640510017655 ABC-ATPase subunit interface; other site 640510017656 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 640510017657 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 640510017658 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510017659 putative PBP binding loops; other site 640510017660 dimer interface [polypeptide binding]; other site 640510017661 ABC-ATPase subunit interface; other site 640510017662 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 640510017663 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 640510017664 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640510017665 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510017666 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 640510017667 substrate binding pocket [chemical binding]; other site 640510017668 dimerization interface [polypeptide binding]; other site 640510017669 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 640510017670 BON domain; Region: BON; pfam04972 640510017671 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 640510017672 active site 640510017673 DNA binding site [nucleotide binding] 640510017674 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640510017675 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 640510017676 FOG: CBS domain [General function prediction only]; Region: COG0517 640510017677 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 640510017678 dimerization interface [polypeptide binding]; other site 640510017679 active site 640510017680 HTH-like domain; Region: HTH_21; pfam13276 640510017681 Integrase core domain; Region: rve; pfam00665 640510017682 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 640510017683 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510017684 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510017685 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 640510017686 putative effector binding pocket; other site 640510017687 putative dimerization interface [polypeptide binding]; other site 640510017688 Ketosteroid isomerase-related protein [General function prediction only]; Region: COG3631 640510017689 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 640510017690 Acyl carrier protein phosphodiesterase [Lipid metabolism]; Region: AcpD; COG1182 640510017691 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 640510017692 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640510017693 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640510017694 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 640510017695 conserved cys residue [active] 640510017696 HTH domain; Region: HTH_11; cl17392 640510017697 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510017698 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 640510017699 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 640510017700 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 640510017701 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 640510017702 dimer interface [polypeptide binding]; other site 640510017703 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 640510017704 active site 640510017705 Fe binding site [ion binding]; other site 640510017706 Electron transfer flavoprotein domain; Region: ETF; pfam01012 640510017707 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 640510017708 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 640510017709 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 640510017710 Ligand binding site [chemical binding]; other site 640510017711 Electron transfer flavoprotein domain; Region: ETF; pfam01012 640510017712 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 640510017713 FAD binding domain; Region: FAD_binding_4; pfam01565 640510017714 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510017715 D-galactonate transporter; Region: 2A0114; TIGR00893 640510017716 putative substrate translocation pore; other site 640510017717 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510017718 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510017719 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 640510017720 putative dimerization interface [polypeptide binding]; other site 640510017721 Protein of unknown function (DUF3788); Region: DUF3788; pfam12663 640510017722 Protein of unknown function, DUF417; Region: DUF417; cl01162 640510017723 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 640510017724 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 640510017725 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 640510017726 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 640510017727 C-terminal domain interface [polypeptide binding]; other site 640510017728 GSH binding site (G-site) [chemical binding]; other site 640510017729 dimer interface [polypeptide binding]; other site 640510017730 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 640510017731 dimer interface [polypeptide binding]; other site 640510017732 N-terminal domain interface [polypeptide binding]; other site 640510017733 Uncharacterized conserved protein [Function unknown]; Region: COG2128 640510017734 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 640510017735 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 640510017736 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 640510017737 dimer interface [polypeptide binding]; other site 640510017738 FMN binding site [chemical binding]; other site 640510017739 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640510017740 Cupin; Region: Cupin_6; pfam12852 640510017741 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510017742 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640510017743 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510017744 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 640510017745 classical (c) SDRs; Region: SDR_c; cd05233 640510017746 NAD(P) binding site [chemical binding]; other site 640510017747 active site 640510017748 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 640510017749 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 640510017750 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 640510017751 dimer interface [polypeptide binding]; other site 640510017752 FMN binding site [chemical binding]; other site 640510017753 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 640510017754 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510017755 DNA-binding site [nucleotide binding]; DNA binding site 640510017756 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 640510017757 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640510017758 homodimer interface [polypeptide binding]; other site 640510017759 catalytic residue [active] 640510017760 haemagglutination activity domain; Region: Haemagg_act; pfam05860 640510017761 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 640510017762 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 640510017763 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 640510017764 PPIC-type PPIASE domain; Region: Rotamase_3; pfam13616 640510017765 haemagglutination activity domain; Region: Haemagg_act; pfam05860 640510017766 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 640510017767 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640510017768 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 640510017769 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510017770 putative substrate translocation pore; other site 640510017771 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510017772 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510017773 The 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 640510017774 dimerization interface [polypeptide binding]; other site 640510017775 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640510017776 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640510017777 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640510017778 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 640510017779 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 640510017780 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640510017781 HlyD family secretion protein; Region: HlyD_3; pfam13437 640510017782 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640510017783 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640510017784 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 640510017785 Domain of unknown function DUF20; Region: UPF0118; pfam01594 640510017786 N-terminal domain of 2,4,5-trihydroxytoluene (THT) oxygenase; Region: THT_Oxygenase_N; cd07267 640510017787 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 640510017788 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640510017789 putative active site [active] 640510017790 putative metal binding site [ion binding]; other site 640510017791 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 640510017792 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 640510017793 AMP-binding domain protein; Validated; Region: PRK07529 640510017794 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 640510017795 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_4; cd05944 640510017796 acyl-activating enzyme (AAE) consensus motif; other site 640510017797 putative AMP binding site [chemical binding]; other site 640510017798 putative active site [active] 640510017799 putative CoA binding site [chemical binding]; other site 640510017800 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 640510017801 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 640510017802 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 640510017803 molybdopterin cofactor binding site; other site 640510017804 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 640510017805 molybdopterin cofactor binding site; other site 640510017806 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 640510017807 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 640510017808 PBP superfamily domain; Region: PBP_like_2; cl17296 640510017809 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 640510017810 homotrimer interaction site [polypeptide binding]; other site 640510017811 putative active site [active] 640510017812 aldehyde reductase, extended (e) SDRs; Region: AR_SDR_e; cd05227 640510017813 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 640510017814 NADP binding site [chemical binding]; other site 640510017815 putative substrate binding site [chemical binding]; other site 640510017816 active site 640510017817 Cupin; Region: Cupin_6; pfam12852 640510017818 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510017819 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640510017820 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510017821 MarR family; Region: MarR_2; cl17246 640510017822 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640510017823 benzoate transport; Region: 2A0115; TIGR00895 640510017824 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510017825 putative substrate translocation pore; other site 640510017826 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510017827 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 640510017828 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 640510017829 catalytic loop [active] 640510017830 iron binding site [ion binding]; other site 640510017831 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 640510017832 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 640510017833 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640510017834 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 640510017835 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640510017836 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640510017837 Predicted membrane protein [Function unknown]; Region: COG2259 640510017838 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 640510017839 Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes; Region: MAR; cd08177 640510017840 active site 640510017841 dimer interface [polypeptide binding]; other site 640510017842 metal binding site [ion binding]; metal-binding site 640510017843 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 640510017844 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 640510017845 chlorocatechol 1,2-dioxygenase; Region: chlorocat_1_2; TIGR02465 640510017846 dimer interface [polypeptide binding]; other site 640510017847 active site 640510017848 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510017849 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510017850 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 640510017851 putative effector binding pocket; other site 640510017852 dimerization interface [polypeptide binding]; other site 640510017853 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510017854 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510017855 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 640510017856 putative dimerization interface [polypeptide binding]; other site 640510017857 putative substrate binding pocket [chemical binding]; other site 640510017858 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510017859 metabolite-proton symporter; Region: 2A0106; TIGR00883 640510017860 putative substrate translocation pore; other site 640510017861 Tannase and feruloyl esterase; Region: Tannase; pfam07519 640510017862 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 640510017863 FtsX-like permease family; Region: FtsX; pfam02687 640510017864 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 640510017865 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 640510017866 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 640510017867 Walker A/P-loop; other site 640510017868 ATP binding site [chemical binding]; other site 640510017869 Q-loop/lid; other site 640510017870 ABC transporter signature motif; other site 640510017871 Walker B; other site 640510017872 D-loop; other site 640510017873 H-loop/switch region; other site 640510017874 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 640510017875 HlyD family secretion protein; Region: HlyD_3; pfam13437 640510017876 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510017877 NAD(P) binding site [chemical binding]; other site 640510017878 active site 640510017879 DNA-binding transcriptional activator DcuR; Provisional; Region: PRK10430 640510017880 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510017881 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640510017882 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 640510017883 Putative zinc-finger; Region: zf-HC2; pfam13490 640510017884 RNA polymerase sigma factor; Provisional; Region: PRK12547 640510017885 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640510017886 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 640510017887 DNA binding residues [nucleotide binding] 640510017888 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 640510017889 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640510017890 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640510017891 hydroxyglutarate oxidase; Provisional; Region: PRK11728 640510017892 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 640510017893 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 640510017894 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 640510017895 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 640510017896 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 640510017897 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 640510017898 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 640510017899 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 640510017900 ATP binding site [chemical binding]; other site 640510017901 putative Mg++ binding site [ion binding]; other site 640510017902 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 640510017903 nucleotide binding region [chemical binding]; other site 640510017904 ATP-binding site [chemical binding]; other site 640510017905 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 640510017906 Peptidase family M23; Region: Peptidase_M23; pfam01551 640510017907 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 640510017908 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 640510017909 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 640510017910 salt bridge; other site 640510017911 non-specific DNA binding site [nucleotide binding]; other site 640510017912 sequence-specific DNA binding site [nucleotide binding]; other site 640510017913 HipA N-terminal domain; Region: Couple_hipA; pfam13657 640510017914 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 640510017915 HipA-like N-terminal domain; Region: HipA_N; pfam07805 640510017916 HipA-like C-terminal domain; Region: HipA_C; pfam07804 640510017917 Transcriptional regulators [Transcription]; Region: GntR; COG1802 640510017918 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510017919 DNA-binding site [nucleotide binding]; DNA binding site 640510017920 FCD domain; Region: FCD; pfam07729 640510017921 Amino acid synthesis; Region: AA_synth; pfam06684 640510017922 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 640510017923 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640510017924 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 640510017925 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 640510017926 Luciferase-like monooxygenase; Region: Bac_luciferase; pfam00296 640510017927 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 640510017928 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640510017929 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 640510017930 NAD(P) binding site [chemical binding]; other site 640510017931 catalytic residues [active] 640510017932 NIPSNAP; Region: NIPSNAP; pfam07978 640510017933 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 640510017934 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 640510017935 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510017936 dimer interface [polypeptide binding]; other site 640510017937 conserved gate region; other site 640510017938 putative PBP binding loops; other site 640510017939 ABC-ATPase subunit interface; other site 640510017940 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 640510017941 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 640510017942 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 640510017943 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640510017944 Walker A/P-loop; other site 640510017945 ATP binding site [chemical binding]; other site 640510017946 Q-loop/lid; other site 640510017947 ABC transporter signature motif; other site 640510017948 Walker B; other site 640510017949 D-loop; other site 640510017950 H-loop/switch region; other site 640510017951 TOBE domain; Region: TOBE_2; pfam08402 640510017952 Transcriptional regulators [Transcription]; Region: GntR; COG1802 640510017953 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640510017954 DNA-binding site [nucleotide binding]; DNA binding site 640510017955 FCD domain; Region: FCD; pfam07729 640510017956 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 640510017957 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510017958 active site 640510017959 phosphorylation site [posttranslational modification] 640510017960 intermolecular recognition site; other site 640510017961 dimerization interface [polypeptide binding]; other site 640510017962 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 640510017963 DNA binding site [nucleotide binding] 640510017964 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 640510017965 FecR protein; Region: FecR; pfam04773 640510017966 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 640510017967 CHASE2 domain; Region: CHASE2; pfam05226 640510017968 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640510017969 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 640510017970 dimer interface [polypeptide binding]; other site 640510017971 phosphorylation site [posttranslational modification] 640510017972 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640510017973 ATP binding site [chemical binding]; other site 640510017974 Mg2+ binding site [ion binding]; other site 640510017975 G-X-G motif; other site 640510017976 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 640510017977 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 640510017978 putative FMN binding site [chemical binding]; other site 640510017979 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 640510017980 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 640510017981 catalytic triad [active] 640510017982 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 640510017983 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 640510017984 homodimer interface [polypeptide binding]; other site 640510017985 Walker A motif; other site 640510017986 ATP binding site [chemical binding]; other site 640510017987 hydroxycobalamin binding site [chemical binding]; other site 640510017988 Walker B motif; other site 640510017989 cobalamin biosynthesis protein CbiG; Provisional; Region: PRK07027 640510017990 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 640510017991 active site 640510017992 SAM binding site [chemical binding]; other site 640510017993 homodimer interface [polypeptide binding]; other site 640510017994 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 640510017995 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 640510017996 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 640510017997 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 640510017998 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 640510017999 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 640510018000 Mg-protoporyphyrin IX chelatase; Region: chlI; CHL00081 640510018001 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 640510018002 Walker A motif; other site 640510018003 ATP binding site [chemical binding]; other site 640510018004 Walker B motif; other site 640510018005 arginine finger; other site 640510018006 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 640510018007 metal ion-dependent adhesion site (MIDAS); other site 640510018008 Hydroxyneurosporene synthase (CrtC); Region: CrtC; pfam07143 640510018009 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 640510018010 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 640510018011 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 640510018012 FtsX-like permease family; Region: FtsX; pfam02687 640510018013 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 640510018014 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 640510018015 Walker A/P-loop; other site 640510018016 ATP binding site [chemical binding]; other site 640510018017 Q-loop/lid; other site 640510018018 ABC transporter signature motif; other site 640510018019 Walker B; other site 640510018020 D-loop; other site 640510018021 H-loop/switch region; other site 640510018022 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 640510018023 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 640510018024 Uncharacterized conserved protein [Function unknown]; Region: COG2128 640510018025 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 640510018026 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 640510018027 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 640510018028 motif II; other site 640510018029 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 640510018030 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 640510018031 putative NAD(P) binding site [chemical binding]; other site 640510018032 active site 640510018033 BON domain; Region: BON; pfam04972 640510018034 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640510018035 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 640510018036 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 640510018037 Walker A/P-loop; other site 640510018038 ATP binding site [chemical binding]; other site 640510018039 Q-loop/lid; other site 640510018040 ABC transporter signature motif; other site 640510018041 Walker B; other site 640510018042 D-loop; other site 640510018043 H-loop/switch region; other site 640510018044 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 640510018045 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 640510018046 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510018047 dimer interface [polypeptide binding]; other site 640510018048 conserved gate region; other site 640510018049 putative PBP binding loops; other site 640510018050 ABC-ATPase subunit interface; other site 640510018051 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640510018052 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 640510018053 conserved cys residue [active] 640510018054 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 640510018055 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 640510018056 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640510018057 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 640510018058 conserved cys residue [active] 640510018059 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 640510018060 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510018061 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 640510018062 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 640510018063 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 640510018064 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 640510018065 hydroxyglutarate oxidase; Provisional; Region: PRK11728 640510018066 Sarcosine oxidase, delta subunit family; Region: SoxD; pfam04267 640510018067 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 640510018068 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 640510018069 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 640510018070 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 640510018071 Sarcosine oxidase gamma subunit [Amino acid transport and metabolism]; Region: COG4583 640510018072 benzoate transport; Region: 2A0115; TIGR00895 640510018073 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510018074 putative substrate translocation pore; other site 640510018075 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510018076 beta-lactamase/D-alanine carboxypeptidase; Provisional; Region: ampC; PRK11289 640510018077 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 640510018078 choline dehydrogenase; Validated; Region: PRK02106 640510018079 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 640510018080 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 640510018081 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 640510018082 tetrameric interface [polypeptide binding]; other site 640510018083 NAD binding site [chemical binding]; other site 640510018084 catalytic residues [active] 640510018085 transcriptional regulator BetI; Validated; Region: PRK00767 640510018086 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640510018087 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 640510018088 formaldehyde dehydrogenase, glutathione-independent; Region: fdhA_non_GSH; TIGR02819 640510018089 Pseudomonas putida aldehyde-dismutating formaldehyde dehydrogenase (PFDH); Region: PFDH_like; cd08282 640510018090 NAD binding site [chemical binding]; other site 640510018091 catalytic Zn binding site [ion binding]; other site 640510018092 structural Zn binding site [ion binding]; other site 640510018093 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640510018094 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 640510018095 conserved cys residue [active] 640510018096 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510018097 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 640510018098 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 640510018099 dimer interface [polypeptide binding]; other site 640510018100 active site 640510018101 glycine-pyridoxal phosphate binding site [chemical binding]; other site 640510018102 folate binding site [chemical binding]; other site 640510018103 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 640510018104 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 640510018105 active site 640510018106 dimer interface [polypeptide binding]; other site 640510018107 Predicted hydrocarbon binding protein (contains V4R domain) [General function prediction only]; Region: COG1719 640510018108 The V4R (vinyl 4 reductase) domain is a predicted small molecular binding domain, that may bind to hydrocarbons; Region: V4R; smart00989 640510018109 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 640510018110 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 640510018111 putative active site [active] 640510018112 putative FMN binding site [chemical binding]; other site 640510018113 putative substrate binding site [chemical binding]; other site 640510018114 putative catalytic residue [active] 640510018115 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 640510018116 Domain of unknown function (DUF3483); Region: DUF3483; pfam11982 640510018117 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 640510018118 Cysteine-rich domain; Region: CCG; pfam02754 640510018119 Cysteine-rich domain; Region: CCG; pfam02754 640510018120 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 640510018121 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 640510018122 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 640510018123 Electron transfer flavoprotein domain; Region: ETF; pfam01012 640510018124 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 640510018125 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 640510018126 [2Fe-2S] cluster binding site [ion binding]; other site 640510018127 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 640510018128 putative alpha subunit interface [polypeptide binding]; other site 640510018129 putative active site [active] 640510018130 putative substrate binding site [chemical binding]; other site 640510018131 Fe binding site [ion binding]; other site 640510018132 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 640510018133 HCP oxidoreductase, NADH-dependent; Provisional; Region: PRK10684 640510018134 FAD binding pocket [chemical binding]; other site 640510018135 FAD binding motif [chemical binding]; other site 640510018136 phosphate binding motif [ion binding]; other site 640510018137 beta-alpha-beta structure motif; other site 640510018138 NAD binding pocket [chemical binding]; other site 640510018139 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 640510018140 catalytic loop [active] 640510018141 iron binding site [ion binding]; other site 640510018142 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 640510018143 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 640510018144 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 640510018145 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 640510018146 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 640510018147 putative active site [active] 640510018148 putative substrate binding site [chemical binding]; other site 640510018149 putative cosubstrate binding site; other site 640510018150 catalytic site [active] 640510018151 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 640510018152 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510018153 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 640510018154 dimerization interface [polypeptide binding]; other site 640510018155 substrate binding pocket [chemical binding]; other site 640510018156 choline-sulfatase; Region: chol_sulfatase; TIGR03417 640510018157 Sulfatase; Region: Sulfatase; cl17466 640510018158 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 640510018159 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 640510018160 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 640510018161 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640510018162 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 640510018163 trimer interface [polypeptide binding]; other site 640510018164 eyelet of channel; other site 640510018165 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 640510018166 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 640510018167 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 640510018168 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 640510018169 NAD(P) binding site [chemical binding]; other site 640510018170 homotetramer interface [polypeptide binding]; other site 640510018171 homodimer interface [polypeptide binding]; other site 640510018172 active site 640510018173 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 640510018174 dimerization interface [polypeptide binding]; other site 640510018175 putative DNA binding site [nucleotide binding]; other site 640510018176 putative Zn2+ binding site [ion binding]; other site 640510018177 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 640510018178 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 640510018179 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 640510018180 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 640510018181 motif II; other site 640510018182 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 640510018183 CreA protein; Region: CreA; pfam05981 640510018184 Predicted transporter component [General function prediction only]; Region: COG2391 640510018185 Sulphur transport; Region: Sulf_transp; pfam04143 640510018186 Predicted transporter component [General function prediction only]; Region: COG2391 640510018187 Sulphur transport; Region: Sulf_transp; pfam04143 640510018188 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 640510018189 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 640510018190 LemA family; Region: LemA; cl00742 640510018191 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 640510018192 Ligand Binding Site [chemical binding]; other site 640510018193 Helix-turn-helix; Region: HTH_3; pfam01381 640510018194 sequence-specific DNA binding site [nucleotide binding]; other site 640510018195 salt bridge; other site 640510018196 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; cl15276 640510018197 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 640510018198 catalytic residue [active] 640510018199 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 640510018200 non-specific DNA binding site [nucleotide binding]; other site 640510018201 salt bridge; other site 640510018202 sequence-specific DNA binding site [nucleotide binding]; other site 640510018203 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; pfam05840 640510018204 Domain of unknown function DUF87; Region: DUF87; pfam01935 640510018205 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 640510018206 catalytic residue [active] 640510018207 Phage integrase protein; Region: DUF3701; pfam12482 640510018208 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 640510018209 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 640510018210 Int/Topo IB signature motif; other site 640510018211 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 640510018212 active site 640510018213 NTP binding site [chemical binding]; other site 640510018214 metal binding triad [ion binding]; metal-binding site 640510018215 HORMA domain; Region: HORMA; pfam02301 640510018216 AAA domain; Region: AAA_25; pfam13481 640510018217 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 640510018218 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 640510018219 Walker A motif; other site 640510018220 ATP binding site [chemical binding]; other site 640510018221 Walker B motif; other site 640510018222 arginine finger; other site 640510018223 Protein of unknown function (DUF4236); Region: DUF4236; pfam14020 640510018224 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 640510018225 Protein of unknown function (DUF4011); Region: DUF4011; pfam13195 640510018226 Part of AAA domain; Region: AAA_19; pfam13245 640510018227 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 640510018228 AAA domain; Region: AAA_30; pfam13604 640510018229 AAA domain; Region: AAA_12; pfam13087 640510018230 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 640510018231 putative active site [active] 640510018232 Protein of unknown function (DUF3320); Region: DUF3320; pfam11784 640510018233 Helix-turn-helix domain; Region: HTH_39; pfam14090 640510018234 H-NS histone family; Region: Histone_HNS; pfam00816 640510018235 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 640510018236 H-NS histone family; Region: Histone_HNS; pfam00816 640510018237 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 640510018238 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 640510018239 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 640510018240 Uncharacterized conserved protein [Function unknown]; Region: COG4544 640510018241 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 640510018242 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 640510018243 dimer interface [polypeptide binding]; other site 640510018244 active site 640510018245 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 640510018246 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 640510018247 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 640510018248 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 640510018249 Electron transfer flavoprotein domain; Region: ETF; pfam01012 640510018250 Ligand binding site [chemical binding]; other site 640510018251 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 640510018252 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 640510018253 substrate binding site [chemical binding]; other site 640510018254 oxyanion hole (OAH) forming residues; other site 640510018255 trimer interface [polypeptide binding]; other site 640510018256 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 640510018257 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 640510018258 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 640510018259 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 640510018260 CoA binding domain; Region: CoA_binding_2; pfam13380 640510018261 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 640510018262 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 640510018263 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 640510018264 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640510018265 active site 640510018266 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640510018267 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510018268 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 640510018269 dimerization interface [polypeptide binding]; other site 640510018270 substrate binding pocket [chemical binding]; other site 640510018271 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 640510018272 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 640510018273 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510018274 metabolite-proton symporter; Region: 2A0106; TIGR00883 640510018275 putative substrate translocation pore; other site 640510018276 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640510018277 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 640510018278 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510018279 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640510018280 putative substrate translocation pore; other site 640510018281 hypothetical protein; Validated; Region: PRK06201 640510018282 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 640510018283 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510018284 D-galactonate transporter; Region: 2A0114; TIGR00893 640510018285 putative substrate translocation pore; other site 640510018286 substrate binding pocket [chemical binding]; other site 640510018287 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 640510018288 active site 640510018289 iron coordination sites [ion binding]; other site 640510018290 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 640510018291 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 640510018292 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 640510018293 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640510018294 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 640510018295 trimer interface [polypeptide binding]; other site 640510018296 eyelet of channel; other site 640510018297 transketolase; Reviewed; Region: PRK12753 640510018298 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 640510018299 TPP-binding site [chemical binding]; other site 640510018300 dimer interface [polypeptide binding]; other site 640510018301 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 640510018302 PYR/PP interface [polypeptide binding]; other site 640510018303 dimer interface [polypeptide binding]; other site 640510018304 TPP binding site [chemical binding]; other site 640510018305 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 640510018306 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510018307 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640510018308 NAD(P) binding site [chemical binding]; other site 640510018309 active site 640510018310 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640510018311 sorbitol dehydrogenase; Provisional; Region: PRK07067 640510018312 NAD(P) binding site [chemical binding]; other site 640510018313 active site 640510018314 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 640510018315 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 640510018316 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 640510018317 MarR family; Region: MarR_2; pfam12802 640510018318 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 640510018319 ribulokinase; Provisional; Region: PRK04123 640510018320 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 640510018321 nucleotide binding site [chemical binding]; other site 640510018322 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 640510018323 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 640510018324 Walker A/P-loop; other site 640510018325 ATP binding site [chemical binding]; other site 640510018326 Q-loop/lid; other site 640510018327 ABC transporter signature motif; other site 640510018328 Walker B; other site 640510018329 D-loop; other site 640510018330 H-loop/switch region; other site 640510018331 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 640510018332 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640510018333 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 640510018334 TM-ABC transporter signature motif; other site 640510018335 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_11; cd06321 640510018336 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640510018337 putative ligand binding site [chemical binding]; other site 640510018338 Domain of unknown function (DUF1917); Region: DUF1917; pfam08939 640510018339 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 640510018340 sequence-specific DNA binding site [nucleotide binding]; other site 640510018341 salt bridge; other site 640510018342 AAA domain; Region: AAA_22; pfam13401 640510018343 atypical (a) SDRs, subgroup 7; Region: SDR_a7; cd05262 640510018344 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 640510018345 putative NAD(P) binding site [chemical binding]; other site 640510018346 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 640510018347 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 640510018348 salt bridge; other site 640510018349 non-specific DNA binding site [nucleotide binding]; other site 640510018350 sequence-specific DNA binding site [nucleotide binding]; other site 640510018351 YCII-related domain; Region: YCII; cl00999 640510018352 Isochorismatase family; Region: Isochorismatase; pfam00857 640510018353 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 640510018354 catalytic triad [active] 640510018355 conserved cis-peptide bond; other site 640510018356 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481 640510018357 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 640510018358 DAK2 domain; Region: Dak2; cl03685 640510018359 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 640510018360 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640510018361 Walker A/P-loop; other site 640510018362 ATP binding site [chemical binding]; other site 640510018363 Q-loop/lid; other site 640510018364 ABC transporter signature motif; other site 640510018365 Walker B; other site 640510018366 D-loop; other site 640510018367 H-loop/switch region; other site 640510018368 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 640510018369 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640510018370 Walker A/P-loop; other site 640510018371 ATP binding site [chemical binding]; other site 640510018372 Q-loop/lid; other site 640510018373 ABC transporter signature motif; other site 640510018374 Walker B; other site 640510018375 D-loop; other site 640510018376 H-loop/switch region; other site 640510018377 TOBE domain; Region: TOBE_2; pfam08402 640510018378 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 640510018379 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510018380 dimer interface [polypeptide binding]; other site 640510018381 conserved gate region; other site 640510018382 putative PBP binding loops; other site 640510018383 ABC-ATPase subunit interface; other site 640510018384 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 640510018385 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640510018386 dimer interface [polypeptide binding]; other site 640510018387 conserved gate region; other site 640510018388 putative PBP binding loops; other site 640510018389 ABC-ATPase subunit interface; other site 640510018390 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 640510018391 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 640510018392 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640510018393 DNA binding site [nucleotide binding] 640510018394 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 640510018395 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640510018396 putative ligand binding site [chemical binding]; other site 640510018397 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510018398 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510018399 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 640510018400 putative effector binding pocket; other site 640510018401 dimerization interface [polypeptide binding]; other site 640510018402 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 640510018403 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 640510018404 PYR/PP interface [polypeptide binding]; other site 640510018405 dimer interface [polypeptide binding]; other site 640510018406 TPP binding site [chemical binding]; other site 640510018407 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 640510018408 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 640510018409 TPP-binding site [chemical binding]; other site 640510018410 dimer interface [polypeptide binding]; other site 640510018411 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510018412 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 640510018413 transcriptional regulator; Provisional; Region: PRK10632 640510018414 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510018415 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 640510018416 putative effector binding pocket; other site 640510018417 putative dimerization interface [polypeptide binding]; other site 640510018418 SnoaL-like domain; Region: SnoaL_3; pfam13474 640510018419 SnoaL-like domain; Region: SnoaL_2; pfam12680 640510018420 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640510018421 HlyD family secretion protein; Region: HlyD; pfam00529 640510018422 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640510018423 HlyD family secretion protein; Region: HlyD_3; pfam13437 640510018424 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 640510018425 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510018426 putative substrate translocation pore; other site 640510018427 G:T/U mismatch specific DNA glcosylase (MUG); Region: UDG_F2_MUG; cd10028 640510018428 active site 640510018429 SUMO-1 interface [polypeptide binding]; other site 640510018430 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640510018431 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 640510018432 conserved cys residue [active] 640510018433 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510018434 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 640510018435 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 640510018436 conserved cys residue [active] 640510018437 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 640510018438 dimerization interface [polypeptide binding]; other site 640510018439 putative DNA binding site [nucleotide binding]; other site 640510018440 putative Zn2+ binding site [ion binding]; other site 640510018441 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640510018442 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640510018443 putative substrate translocation pore; other site 640510018444 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640510018445 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640510018446 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 640510018447 putative effector binding pocket; other site 640510018448 dimerization interface [polypeptide binding]; other site 640510018449 H-NS histone family; Region: Histone_HNS; pfam00816 640510018450 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 640510018451 Glycoside hydrolase family 71; Region: GH71; cd11577 640510018452 putative ligand binding site [chemical binding]; other site 640510018453 putative catalytic site [active] 640510018454 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 640510018455 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640510018456 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; COG2327 640510018457 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 640510018458 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640510018459 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 640510018460 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 640510018461 Chain length determinant protein; Region: Wzz; pfam02706 640510018462 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 640510018463 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 640510018464 P loop; other site 640510018465 Nucleotide binding site [chemical binding]; other site 640510018466 DTAP/Switch II; other site 640510018467 Switch I; other site 640510018468 Low molecular weight phosphatase family; Region: LMWPc; cd00115 640510018469 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 640510018470 active site 640510018471 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 640510018472 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 640510018473 SLBB domain; Region: SLBB; pfam10531 640510018474 SLBB domain; Region: SLBB; pfam10531 640510018475 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 640510018476 Bacterial sugar transferase; Region: Bac_transf; pfam02397 640510018477 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 640510018478 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640510018479 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 640510018480 conserved cys residue [active] 640510018481 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510018482 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510018483 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640510018484 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 640510018485 conserved cys residue [active] 640510018486 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510018487 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640510018488 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 640510018489 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 640510018490 Predicted amidohydrolase [General function prediction only]; Region: COG0388 640510018491 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_2; cd07580 640510018492 putative active site [active] 640510018493 catalytic triad [active] 640510018494 putative dimer interface [polypeptide binding]; other site 640510018495 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 640510018496 Type I periplasmic-binding protein of the nitrile hydratase (NHase) system that selectively converts nitriles to corresponding amides; Region: PBP1_NHase; cd06358 640510018497 putative ligand binding site [chemical binding]; other site 640510018498 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640510018499 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 640510018500 TM-ABC transporter signature motif; other site 640510018501 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 640510018502 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 640510018503 TM-ABC transporter signature motif; other site 640510018504 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 640510018505 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 640510018506 Walker A/P-loop; other site 640510018507 ATP binding site [chemical binding]; other site 640510018508 Q-loop/lid; other site 640510018509 ABC transporter signature motif; other site 640510018510 Walker B; other site 640510018511 D-loop; other site 640510018512 H-loop/switch region; other site 640510018513 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 640510018514 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 640510018515 Walker A/P-loop; other site 640510018516 ATP binding site [chemical binding]; other site 640510018517 Q-loop/lid; other site 640510018518 ABC transporter signature motif; other site 640510018519 Walker B; other site 640510018520 D-loop; other site 640510018521 H-loop/switch region; other site 640510018522 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 640510018523 Amidase; Region: Amidase; cl11426 640510018524 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 640510018525 Periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family; Region: PBP1_AmiC; cd06357 640510018526 ligand binding site [chemical binding]; other site 640510018527 regulator interaction site; other site 640510018528 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 640510018529 ANTAR domain; Region: ANTAR; pfam03861 640510018530 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640510018531 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 640510018532 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 640510018533 DNA binding site [nucleotide binding] 640510018534 Bacterial type III secretion protein (HrpB1_HrpK); Region: HrpB1_HrpK; pfam09613 640510018535 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 640510018536 Cytochrome P450; Region: p450; cl12078 640510018537 Protein of unknown function (DUF3455); Region: DUF3455; pfam11937 640510018538 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 640510018539 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 640510018540 iron-sulfur cluster [ion binding]; other site 640510018541 [2Fe-2S] cluster binding site [ion binding]; other site 640510018542 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 640510018543 alpha subunit interface [polypeptide binding]; other site 640510018544 active site 640510018545 substrate binding site [chemical binding]; other site 640510018546 Fe binding site [ion binding]; other site 640510018547 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 640510018548 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640510018549 active site 640510018550 phosphorylation site [posttranslational modification] 640510018551 dimerization interface [polypeptide binding]; other site 640510018552 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 640510018553 DNA binding site [nucleotide binding] 640510018554 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 640510018555 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 640510018556 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 640510018557 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 640510018558 type III secretion system ATPase; Provisional; Region: PRK09099 640510018559 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 640510018560 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 640510018561 Walker A motif; other site 640510018562 ATP binding site [chemical binding]; other site 640510018563 Walker B motif; other site 640510018564 type III secretion system protein HrpB; Validated; Region: PRK09098 640510018565 Flagellar assembly protein FliH; Region: FliH; pfam02108 640510018566 type III secretion apparatus lipoprotein, YscJ/HrcJ family; Region: III_secr_YscJ; TIGR02544 640510018567 Bacterial type III secretion protein (HrpB2); Region: HrpB2; cl09721 640510018568 type III secretion protein HrpB1/HrpK; Region: HrpB1_HrpK; TIGR02561 640510018569 type III secretion system protein HrcU; Validated; Region: PRK09108 640510018570 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 640510018571 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 640510018572 FHIPEP family; Region: FHIPEP; pfam00771 640510018573 Type III secretion protein (HpaP); Region: HpaP; cl17849 640510018574 type III secretion system apparatus protein YscQ/HrcQ; Region: SpaO_YscQ; TIGR02551 640510018575 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 640510018576 type III secretion system protein YscR; Provisional; Region: PRK12797 640510018577 Type III secretory pathway, component EscS [Intracellular trafficking and secretion]; Region: EscS; COG4794 640510018578 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 640510018579 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14965 640510018580 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 640510018581 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 640510018582 substrate binding pocket [chemical binding]; other site 640510018583 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 640510018584 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 640510018585 N-acetyl-D-glucosamine binding site [chemical binding]; other site 640510018586 catalytic residue [active] 640510018587 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 640510018588 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 640510018589 substrate binding pocket [chemical binding]; other site 640510018590 membrane-bound complex binding site; other site 640510018591 hinge residues; other site 640510018592 56kDa selenium binding protein (SBP56); Region: SBP56; pfam05694 640510018593 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 640510018594 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 640510018595 Catalytic domain, repeat 1, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_1; cd09140 640510018596 putative active site [active] 640510018597 catalytic site [active] 640510018598 Catalytic domain, repeat 2, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_2; cd09143 640510018599 putative active site [active] 640510018600 catalytic site [active] 640510018601 Uncharacterized conserved protein [Function unknown]; Region: COG0398 640510018602 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 640510018603 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 640510018604 putative catalytic site [active] 640510018605 putative metal binding site [ion binding]; other site 640510018606 putative phosphate binding site [ion binding]; other site