-- dump date 20140619_012726 -- class Genbank::misc_feature -- table misc_feature_note -- id note 640512000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 640512000002 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 640512000003 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 640512000004 Walker A motif; other site 640512000005 ATP binding site [chemical binding]; other site 640512000006 Walker B motif; other site 640512000007 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 640512000008 arginine finger; other site 640512000009 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 640512000010 DnaA box-binding interface [nucleotide binding]; other site 640512000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 640512000012 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 640512000013 putative DNA binding surface [nucleotide binding]; other site 640512000014 dimer interface [polypeptide binding]; other site 640512000015 beta-clamp/clamp loader binding surface; other site 640512000016 beta-clamp/translesion DNA polymerase binding surface; other site 640512000017 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 640512000018 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512000019 ATP binding site [chemical binding]; other site 640512000020 Mg2+ binding site [ion binding]; other site 640512000021 G-X-G motif; other site 640512000022 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 640512000023 anchoring element; other site 640512000024 dimer interface [polypeptide binding]; other site 640512000025 ATP binding site [chemical binding]; other site 640512000026 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 640512000027 active site 640512000028 putative metal-binding site [ion binding]; other site 640512000029 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 640512000030 DNA-sulfur modification-associated; Region: DndB; cl17621 640512000031 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 640512000032 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 640512000033 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 640512000034 active site 640512000035 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 640512000036 Ligand Binding Site [chemical binding]; other site 640512000037 DNA phosphorothioation-associated DGQHR protein 1; Region: DGQHR_dnd_1; TIGR04172 640512000038 DGQHR domain; Region: DGQHR; TIGR03187 640512000039 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 640512000040 DGQHR domain; Region: DGQHR; TIGR03187 640512000041 DNA phosphorothioation-associated DGQHR protein 1; Region: DGQHR_dnd_1; TIGR04172 640512000042 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 640512000043 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 640512000044 non-specific DNA binding site [nucleotide binding]; other site 640512000045 salt bridge; other site 640512000046 sequence-specific DNA binding site [nucleotide binding]; other site 640512000047 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 640512000048 Integrase core domain; Region: rve; pfam00665 640512000049 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 640512000050 AAA domain; Region: AAA_22; pfam13401 640512000051 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 640512000052 Walker A motif; other site 640512000053 ATP binding site [chemical binding]; other site 640512000054 Walker B motif; other site 640512000055 TniQ; Region: TniQ; pfam06527 640512000056 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 640512000057 active site 640512000058 metal binding site [ion binding]; metal-binding site 640512000059 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 640512000060 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 640512000061 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 640512000062 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 640512000063 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4253 640512000064 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 640512000065 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 640512000066 catalytic site [active] 640512000067 PAAR motif; Region: PAAR_motif; pfam05488 640512000068 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 640512000069 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_4; pfam14281 640512000070 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 640512000071 ParB-like nuclease domain; Region: ParBc; pfam02195 640512000072 RepB plasmid partitioning protein; Region: RepB; pfam07506 640512000073 ParB-like nuclease domain; Region: ParB; smart00470 640512000074 RepB plasmid partitioning protein; Region: RepB; pfam07506 640512000075 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 640512000076 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 640512000077 catalytic residues [active] 640512000078 catalytic nucleophile [active] 640512000079 Recombinase; Region: Recombinase; pfam07508 640512000080 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 640512000081 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 640512000082 N-terminal plug; other site 640512000083 ligand-binding site [chemical binding]; other site 640512000084 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 640512000085 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 640512000086 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 640512000087 dimer interface [polypeptide binding]; other site 640512000088 decamer (pentamer of dimers) interface [polypeptide binding]; other site 640512000089 catalytic triad [active] 640512000090 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 640512000091 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 640512000092 active site residue [active] 640512000093 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 640512000094 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 640512000095 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512000096 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640512000097 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512000098 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 640512000099 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 640512000100 substrate binding pocket [chemical binding]; other site 640512000101 membrane-bound complex binding site; other site 640512000102 hinge residues; other site 640512000103 putative aminotransferase; Provisional; Region: PRK12414 640512000104 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 640512000105 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640512000106 homodimer interface [polypeptide binding]; other site 640512000107 catalytic residue [active] 640512000108 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 640512000109 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 640512000110 ATP binding site [chemical binding]; other site 640512000111 Mg++ binding site [ion binding]; other site 640512000112 motif III; other site 640512000113 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 640512000114 nucleotide binding region [chemical binding]; other site 640512000115 ATP-binding site [chemical binding]; other site 640512000116 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 640512000117 putative RNA binding site [nucleotide binding]; other site 640512000118 NAD-dependent protein deacetylases, SIR2 family [Transcription]; Region: SIR2; COG0846 640512000119 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 640512000120 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 640512000121 DNA binding residues [nucleotide binding] 640512000122 dimer interface [polypeptide binding]; other site 640512000123 putative metal binding site [ion binding]; other site 640512000124 Heavy-metal-associated domain; Region: HMA; pfam00403 640512000125 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 640512000126 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 640512000127 Soluble P-type ATPase [General function prediction only]; Region: COG4087 640512000128 Helix-turn-helix domain; Region: HTH_18; pfam12833 640512000129 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512000130 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 640512000131 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640512000132 NAD(P) binding site [chemical binding]; other site 640512000133 catalytic residues [active] 640512000134 Protein of unknown function (DUF779); Region: DUF779; pfam05610 640512000135 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 640512000136 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 640512000137 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 640512000138 ethanolamine permease; Region: 2A0305; TIGR00908 640512000139 hypothetical protein; Provisional; Region: PHA02764 640512000140 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 640512000141 CoenzymeA binding site [chemical binding]; other site 640512000142 subunit interaction site [polypeptide binding]; other site 640512000143 PHB binding site; other site 640512000144 Patatin-like phospholipase; Region: Patatin; pfam01734 640512000145 active site 640512000146 nucleophile elbow; other site 640512000147 Putative D-3-Phosphoglycerate Dehydrogenases; Region: PGDH_like_1; cd12169 640512000148 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 640512000149 dimerization interface [polypeptide binding]; other site 640512000150 NAD binding site [chemical binding]; other site 640512000151 ligand binding site [chemical binding]; other site 640512000152 catalytic site [active] 640512000153 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 640512000154 active site 640512000155 substrate-binding site [chemical binding]; other site 640512000156 metal-binding site [ion binding] 640512000157 GTP binding site [chemical binding]; other site 640512000158 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512000159 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512000160 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 640512000161 putative effector binding pocket; other site 640512000162 dimerization interface [polypeptide binding]; other site 640512000163 DNA topoisomerase III; Validated; Region: PRK08173 640512000164 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 640512000165 active site 640512000166 putative interdomain interaction site [polypeptide binding]; other site 640512000167 putative metal-binding site [ion binding]; other site 640512000168 putative nucleotide binding site [chemical binding]; other site 640512000169 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 640512000170 domain I; other site 640512000171 DNA binding groove [nucleotide binding] 640512000172 phosphate binding site [ion binding]; other site 640512000173 domain II; other site 640512000174 domain III; other site 640512000175 nucleotide binding site [chemical binding]; other site 640512000176 catalytic site [active] 640512000177 domain IV; other site 640512000178 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 640512000179 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 640512000180 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 640512000181 catalytic residues [active] 640512000182 DNA protecting protein DprA; Region: dprA; TIGR00732 640512000183 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 640512000184 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 640512000185 active site 640512000186 catalytic residues [active] 640512000187 metal binding site [ion binding]; metal-binding site 640512000188 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 640512000189 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 640512000190 substrate binding site [chemical binding]; other site 640512000191 putative active site [active] 640512000192 putative cosubstrate binding site; other site 640512000193 catalytic site [active] 640512000194 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 640512000195 substrate binding site [chemical binding]; other site 640512000196 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 640512000197 M48 family peptidase; Provisional; Region: PRK03001 640512000198 16S rRNA methyltransferase B; Provisional; Region: PRK10901 640512000199 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 640512000200 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 640512000201 S-adenosylmethionine binding site [chemical binding]; other site 640512000202 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 640512000203 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 640512000204 dimerization interface [polypeptide binding]; other site 640512000205 PAS domain; Region: PAS; smart00091 640512000206 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 640512000207 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 640512000208 dimer interface [polypeptide binding]; other site 640512000209 phosphorylation site [posttranslational modification] 640512000210 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512000211 ATP binding site [chemical binding]; other site 640512000212 Mg2+ binding site [ion binding]; other site 640512000213 G-X-G motif; other site 640512000214 Response regulator receiver domain; Region: Response_reg; pfam00072 640512000215 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512000216 active site 640512000217 phosphorylation site [posttranslational modification] 640512000218 intermolecular recognition site; other site 640512000219 dimerization interface [polypeptide binding]; other site 640512000220 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 640512000221 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 640512000222 Ligand Binding Site [chemical binding]; other site 640512000223 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 640512000224 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 640512000225 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 640512000226 active site 640512000227 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 640512000228 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 640512000229 Sel1-like repeats; Region: SEL1; smart00671 640512000230 Sel1-like repeats; Region: SEL1; smart00671 640512000231 Sel1-like repeats; Region: SEL1; smart00671 640512000232 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 640512000233 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 640512000234 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 640512000235 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 640512000236 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreD; COG2891 640512000237 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 640512000238 rod shape-determining protein MreC; Region: MreC; pfam04085 640512000239 rod shape-determining protein MreB; Provisional; Region: PRK13927 640512000240 MreB and similar proteins; Region: MreB_like; cd10225 640512000241 nucleotide binding site [chemical binding]; other site 640512000242 Mg binding site [ion binding]; other site 640512000243 putative protofilament interaction site [polypeptide binding]; other site 640512000244 RodZ interaction site [polypeptide binding]; other site 640512000245 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 640512000246 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 640512000247 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 640512000248 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 640512000249 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 640512000250 GatB domain; Region: GatB_Yqey; smart00845 640512000251 polyphosphate:nucleotide phosphotransferase, PPK2 family; Region: PPK2_rel_1; TIGR03709 640512000252 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 640512000253 putative active site [active] 640512000254 putative catalytic site [active] 640512000255 putative DNA binding site [nucleotide binding]; other site 640512000256 putative phosphate binding site [ion binding]; other site 640512000257 metal binding site A [ion binding]; metal-binding site 640512000258 putative AP binding site [nucleotide binding]; other site 640512000259 putative metal binding site B [ion binding]; other site 640512000260 Peptidase family M48; Region: Peptidase_M48; cl12018 640512000261 muropeptide transporter; Reviewed; Region: ampG; PRK11902 640512000262 AmpG-like permease; Region: 2A0125; TIGR00901 640512000263 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 640512000264 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 640512000265 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 640512000266 division inhibitor protein; Provisional; Region: slmA; PRK09480 640512000267 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640512000268 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 640512000269 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 640512000270 motif II; other site 640512000271 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 640512000272 feedback inhibition sensing region; other site 640512000273 homohexameric interface [polypeptide binding]; other site 640512000274 nucleotide binding site [chemical binding]; other site 640512000275 N-acetyl-L-glutamate binding site [chemical binding]; other site 640512000276 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 640512000277 TPR repeat; Region: TPR_11; pfam13414 640512000278 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 640512000279 binding surface 640512000280 TPR motif; other site 640512000281 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640512000282 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 640512000283 dimer interface [polypeptide binding]; other site 640512000284 phosphorylation site [posttranslational modification] 640512000285 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512000286 ATP binding site [chemical binding]; other site 640512000287 Mg2+ binding site [ion binding]; other site 640512000288 G-X-G motif; other site 640512000289 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 640512000290 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512000291 active site 640512000292 phosphorylation site [posttranslational modification] 640512000293 intermolecular recognition site; other site 640512000294 dimerization interface [polypeptide binding]; other site 640512000295 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 640512000296 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 640512000297 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 640512000298 Walker A motif; other site 640512000299 ATP binding site [chemical binding]; other site 640512000300 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 640512000301 Walker B motif; other site 640512000302 arginine finger; other site 640512000303 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 640512000304 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 640512000305 active site 640512000306 HslU subunit interaction site [polypeptide binding]; other site 640512000307 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 640512000308 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 640512000309 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 640512000310 P-loop, Walker A motif; other site 640512000311 Base recognition motif; other site 640512000312 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 640512000313 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 640512000314 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 640512000315 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 640512000316 putative RNA binding site [nucleotide binding]; other site 640512000317 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 640512000318 S-adenosylmethionine binding site [chemical binding]; other site 640512000319 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 640512000320 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 640512000321 active site 640512000322 DNA binding site [nucleotide binding] 640512000323 Int/Topo IB signature motif; other site 640512000324 Protein of unknown function, DUF484; Region: DUF484; cl17449 640512000325 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 640512000326 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 640512000327 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 640512000328 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 640512000329 putative acyl-acceptor binding pocket; other site 640512000330 S-adenosylmethionine synthetase; Validated; Region: PRK05250 640512000331 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 640512000332 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 640512000333 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 640512000334 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 640512000335 Protein of unknown function (DUF3185); Region: DUF3185; pfam11381 640512000336 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 640512000337 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 640512000338 active site 640512000339 catalytic tetrad [active] 640512000340 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 640512000341 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512000342 putative substrate translocation pore; other site 640512000343 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 640512000344 serine/threonine protein kinase; Provisional; Region: PRK11768 640512000345 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 640512000346 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 640512000347 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 640512000348 XdhC Rossmann domain; Region: XdhC_C; pfam13478 640512000349 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 640512000350 putative hydrophobic ligand binding site [chemical binding]; other site 640512000351 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 640512000352 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 640512000353 metal ion-dependent adhesion site (MIDAS); other site 640512000354 MoxR-like ATPases [General function prediction only]; Region: COG0714 640512000355 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 640512000356 Walker A motif; other site 640512000357 ATP binding site [chemical binding]; other site 640512000358 Walker B motif; other site 640512000359 arginine finger; other site 640512000360 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 640512000361 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 640512000362 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 640512000363 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 640512000364 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640512000365 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 640512000366 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 640512000367 Peptidase S8 family domain, uncharacterized subfamily 13; Region: Peptidases_S8_13; cd07496 640512000368 active site 640512000369 catalytic triad [active] 640512000370 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 640512000371 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 640512000372 binding surface 640512000373 TPR motif; other site 640512000374 TPR repeat; Region: TPR_11; pfam13414 640512000375 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 640512000376 binding surface 640512000377 TPR motif; other site 640512000378 TPR repeat; Region: TPR_11; pfam13414 640512000379 Tetratricopeptide repeat; Region: TPR_12; pfam13424 640512000380 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 640512000381 amino acid transporter; Region: 2A0306; TIGR00909 640512000382 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 640512000383 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640512000384 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512000385 active site 640512000386 phosphorylation site [posttranslational modification] 640512000387 intermolecular recognition site; other site 640512000388 dimerization interface [polypeptide binding]; other site 640512000389 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 640512000390 DNA binding residues [nucleotide binding] 640512000391 dimerization interface [polypeptide binding]; other site 640512000392 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 640512000393 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512000394 ATP binding site [chemical binding]; other site 640512000395 Mg2+ binding site [ion binding]; other site 640512000396 G-X-G motif; other site 640512000397 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 640512000398 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 640512000399 FAD binding pocket [chemical binding]; other site 640512000400 FAD binding motif [chemical binding]; other site 640512000401 phosphate binding motif [ion binding]; other site 640512000402 beta-alpha-beta structure motif; other site 640512000403 NAD binding pocket [chemical binding]; other site 640512000404 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 640512000405 putative catalytic site [active] 640512000406 putative phosphate binding site [ion binding]; other site 640512000407 putative metal binding site [ion binding]; other site 640512000408 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 640512000409 Walker A motif; other site 640512000410 ATP binding site [chemical binding]; other site 640512000411 Walker B motif; other site 640512000412 arginine finger; other site 640512000413 Predicted dehydrogenase [General function prediction only]; Region: COG0579 640512000414 hydroxyglutarate oxidase; Provisional; Region: PRK11728 640512000415 High potential iron-sulfur protein; Region: HIPIP; pfam01355 640512000416 citrate-proton symporter; Provisional; Region: PRK15075 640512000417 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512000418 putative substrate translocation pore; other site 640512000419 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 640512000420 Amidase; Region: Amidase; cl11426 640512000421 Dienelactone hydrolase family; Region: DLH; pfam01738 640512000422 Nitronate monooxygenase; Region: NMO; pfam03060 640512000423 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 640512000424 FMN binding site [chemical binding]; other site 640512000425 substrate binding site [chemical binding]; other site 640512000426 putative catalytic residue [active] 640512000427 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 640512000428 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 640512000429 dimerization interface [polypeptide binding]; other site 640512000430 ligand binding site [chemical binding]; other site 640512000431 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 640512000432 H-NS histone family; Region: Histone_HNS; pfam00816 640512000433 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 640512000434 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 640512000435 Cation efflux family; Region: Cation_efflux; pfam01545 640512000436 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 640512000437 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 640512000438 putative DNA binding site [nucleotide binding]; other site 640512000439 putative Zn2+ binding site [ion binding]; other site 640512000440 AsnC family; Region: AsnC_trans_reg; pfam01037 640512000441 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 640512000442 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 640512000443 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 640512000444 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 640512000445 Predicted methyltransferases [General function prediction only]; Region: COG0313 640512000446 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 640512000447 putative SAM binding site [chemical binding]; other site 640512000448 putative homodimer interface [polypeptide binding]; other site 640512000449 hypothetical protein; Provisional; Region: PRK14673 640512000450 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 640512000451 dimer interface [polypeptide binding]; other site 640512000452 active site 640512000453 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 640512000454 BON domain; Region: BON; pfam04972 640512000455 BON domain; Region: BON; pfam04972 640512000456 Cytochrome c; Region: Cytochrom_C; cl11414 640512000457 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 640512000458 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 640512000459 dimerization interface [polypeptide binding]; other site 640512000460 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 640512000461 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640512000462 dimer interface [polypeptide binding]; other site 640512000463 putative CheW interface [polypeptide binding]; other site 640512000464 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640512000465 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640512000466 metal binding site [ion binding]; metal-binding site 640512000467 active site 640512000468 I-site; other site 640512000469 Uncharacterized protein conserved in bacteria (DUF2239); Region: DUF2239; pfam09998 640512000470 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 640512000471 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 640512000472 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 640512000473 CutC family; Region: CutC; cl01218 640512000474 2-oxoacid ferredoxin oxidoreductase; Provisional; Region: PRK13030 640512000475 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 640512000476 dimer interface [polypeptide binding]; other site 640512000477 PYR/PP interface [polypeptide binding]; other site 640512000478 TPP binding site [chemical binding]; other site 640512000479 substrate binding site [chemical binding]; other site 640512000480 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 640512000481 TPP-binding site [chemical binding]; other site 640512000482 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 640512000483 Inward rectifier potassium channel; Region: IRK; pfam01007 640512000484 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 640512000485 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 640512000486 putative substrate binding site [chemical binding]; other site 640512000487 putative ATP binding site [chemical binding]; other site 640512000488 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 640512000489 dimerization interface [polypeptide binding]; other site 640512000490 putative active cleft [active] 640512000491 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640512000492 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640512000493 DNA binding site [nucleotide binding] 640512000494 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 640512000495 ligand binding site [chemical binding]; other site 640512000496 dimerization interface [polypeptide binding]; other site 640512000497 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 640512000498 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 640512000499 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640512000500 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640512000501 metal binding site [ion binding]; metal-binding site 640512000502 active site 640512000503 I-site; other site 640512000504 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 640512000505 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 640512000506 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640512000507 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 640512000508 trimer interface [polypeptide binding]; other site 640512000509 eyelet of channel; other site 640512000510 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512000511 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512000512 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 640512000513 putative effector binding pocket; other site 640512000514 dimerization interface [polypeptide binding]; other site 640512000515 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 640512000516 B12 binding site [chemical binding]; other site 640512000517 cobalt ligand [ion binding]; other site 640512000518 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 640512000519 Walker A; other site 640512000520 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 640512000521 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 640512000522 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 640512000523 FMN binding site [chemical binding]; other site 640512000524 substrate binding site [chemical binding]; other site 640512000525 putative catalytic residue [active] 640512000526 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 640512000527 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 640512000528 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 640512000529 putative DNA binding site [nucleotide binding]; other site 640512000530 putative Zn2+ binding site [ion binding]; other site 640512000531 AsnC family; Region: AsnC_trans_reg; pfam01037 640512000532 EamA-like transporter family; Region: EamA; pfam00892 640512000533 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 640512000534 (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 640512000535 active site 640512000536 catalytic site [active] 640512000537 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 640512000538 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 640512000539 putative deacylase active site [active] 640512000540 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 640512000541 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 640512000542 active site 640512000543 catalytic residues [active] 640512000544 metal binding site [ion binding]; metal-binding site 640512000545 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 640512000546 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 640512000547 putative ligand binding site [chemical binding]; other site 640512000548 NAD binding site [chemical binding]; other site 640512000549 dimerization interface [polypeptide binding]; other site 640512000550 catalytic site [active] 640512000551 Serine hydrolase; Region: Ser_hydrolase; pfam06821 640512000552 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640512000553 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 640512000554 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 640512000555 biotin synthase; Region: bioB; TIGR00433 640512000556 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 640512000557 FeS/SAM binding site; other site 640512000558 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 640512000559 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 640512000560 AAA domain; Region: AAA_26; pfam13500 640512000561 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 640512000562 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 640512000563 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640512000564 catalytic residue [active] 640512000565 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06943 640512000566 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 640512000567 inhibitor-cofactor binding pocket; inhibition site 640512000568 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640512000569 catalytic residue [active] 640512000570 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 640512000571 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 640512000572 hypothetical protein; Provisional; Region: PRK01842 640512000573 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 640512000574 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640512000575 active site 640512000576 C factor cell-cell signaling protein; Provisional; Region: PRK09009 640512000577 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 640512000578 NADP binding site [chemical binding]; other site 640512000579 homodimer interface [polypeptide binding]; other site 640512000580 active site 640512000581 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 640512000582 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 640512000583 dimer interface [polypeptide binding]; other site 640512000584 active site 640512000585 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 640512000586 active site clefts [active] 640512000587 zinc binding site [ion binding]; other site 640512000588 dimer interface [polypeptide binding]; other site 640512000589 bifunctional isocitrate dehydrogenase kinase/phosphatase protein; Validated; Region: aceK; PRK02946 640512000590 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 640512000591 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 640512000592 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 640512000593 DNA binding residues [nucleotide binding] 640512000594 putative dimer interface [polypeptide binding]; other site 640512000595 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 640512000596 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 640512000597 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 640512000598 peptide binding site [polypeptide binding]; other site 640512000599 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 640512000600 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 640512000601 intersubunit interface [polypeptide binding]; other site 640512000602 short chain dehydrogenase; Provisional; Region: PRK07024 640512000603 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640512000604 NAD(P) binding site [chemical binding]; other site 640512000605 active site 640512000606 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 640512000607 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 640512000608 catalytic residues [active] 640512000609 hinge region; other site 640512000610 alpha helical domain; other site 640512000611 Sporulation related domain; Region: SPOR; pfam05036 640512000612 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 640512000613 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 640512000614 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 640512000615 active site 640512000616 HIGH motif; other site 640512000617 KMSK motif region; other site 640512000618 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 640512000619 tRNA binding surface [nucleotide binding]; other site 640512000620 anticodon binding site; other site 640512000621 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 640512000622 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 640512000623 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 640512000624 substrate binding pocket [chemical binding]; other site 640512000625 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 640512000626 B12 binding site [chemical binding]; other site 640512000627 cobalt ligand [ion binding]; other site 640512000628 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 640512000629 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 640512000630 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 640512000631 Protein of unknown function (DUF3567); Region: DUF3567; pfam12091 640512000632 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 640512000633 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 640512000634 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 640512000635 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 640512000636 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640512000637 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 640512000638 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 640512000639 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 640512000640 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 640512000641 putative ligand binding site [chemical binding]; other site 640512000642 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 640512000643 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 640512000644 substrate binding site [chemical binding]; other site 640512000645 oxyanion hole (OAH) forming residues; other site 640512000646 trimer interface [polypeptide binding]; other site 640512000647 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 640512000648 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 640512000649 dinuclear metal binding motif [ion binding]; other site 640512000650 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 640512000651 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 640512000652 active site 640512000653 HIGH motif; other site 640512000654 nucleotide binding site [chemical binding]; other site 640512000655 pantothenate kinase; Reviewed; Region: PRK13328 640512000656 Type III pantothenate kinase; Region: Pan_kinase; cl17198 640512000657 biotin--protein ligase; Provisional; Region: PRK06955 640512000658 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 640512000659 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 640512000660 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 640512000661 Permease; Region: Permease; pfam02405 640512000662 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 640512000663 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 640512000664 Walker A/P-loop; other site 640512000665 ATP binding site [chemical binding]; other site 640512000666 Q-loop/lid; other site 640512000667 ABC transporter signature motif; other site 640512000668 Walker B; other site 640512000669 D-loop; other site 640512000670 H-loop/switch region; other site 640512000671 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 640512000672 mce related protein; Region: MCE; pfam02470 640512000673 Protein of unknown function (DUF330); Region: DUF330; pfam03886 640512000674 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 640512000675 dimer interface [polypeptide binding]; other site 640512000676 [2Fe-2S] cluster binding site [ion binding]; other site 640512000677 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 640512000678 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 640512000679 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 640512000680 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 640512000681 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 640512000682 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 640512000683 homodimer interface [polypeptide binding]; other site 640512000684 substrate-cofactor binding pocket; other site 640512000685 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640512000686 catalytic residue [active] 640512000687 Protein of unknown function (DUF493); Region: DUF493; cl01102 640512000688 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640512000689 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512000690 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 640512000691 dimerization interface [polypeptide binding]; other site 640512000692 substrate binding pocket [chemical binding]; other site 640512000693 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 640512000694 lipoate-protein ligase B; Provisional; Region: PRK14343 640512000695 lipoyl synthase; Provisional; Region: PRK05481 640512000696 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 640512000697 FeS/SAM binding site; other site 640512000698 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 640512000699 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 640512000700 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 640512000701 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 640512000702 PhoU domain; Region: PhoU; pfam01895 640512000703 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 640512000704 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 640512000705 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 640512000706 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 640512000707 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 640512000708 putative active site [active] 640512000709 catalytic site [active] 640512000710 putative metal binding site [ion binding]; other site 640512000711 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 640512000712 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 640512000713 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 640512000714 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512000715 putative PBP binding loops; other site 640512000716 dimer interface [polypeptide binding]; other site 640512000717 ABC-ATPase subunit interface; other site 640512000718 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 640512000719 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 640512000720 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512000721 dimer interface [polypeptide binding]; other site 640512000722 ABC-ATPase subunit interface; other site 640512000723 putative PBP binding loops; other site 640512000724 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 640512000725 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640512000726 Walker A/P-loop; other site 640512000727 ATP binding site [chemical binding]; other site 640512000728 Q-loop/lid; other site 640512000729 ABC transporter signature motif; other site 640512000730 Walker B; other site 640512000731 D-loop; other site 640512000732 H-loop/switch region; other site 640512000733 TOBE domain; Region: TOBE_2; pfam08402 640512000734 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 640512000735 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 640512000736 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 640512000737 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 640512000738 dimer interface [polypeptide binding]; other site 640512000739 phosphorylation site [posttranslational modification] 640512000740 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512000741 ATP binding site [chemical binding]; other site 640512000742 Mg2+ binding site [ion binding]; other site 640512000743 G-X-G motif; other site 640512000744 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 640512000745 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512000746 active site 640512000747 phosphorylation site [posttranslational modification] 640512000748 intermolecular recognition site; other site 640512000749 dimerization interface [polypeptide binding]; other site 640512000750 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 640512000751 Walker A motif; other site 640512000752 ATP binding site [chemical binding]; other site 640512000753 Walker B motif; other site 640512000754 arginine finger; other site 640512000755 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 640512000756 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 640512000757 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 640512000758 catalytic residues [active] 640512000759 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 640512000760 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 640512000761 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 640512000762 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 640512000763 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 640512000764 Walker A motif; other site 640512000765 ATP binding site [chemical binding]; other site 640512000766 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 640512000767 Membrane fusogenic activity; Region: BMFP; pfam04380 640512000768 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 640512000769 Nitrogen regulatory protein P-II; Region: P-II; smart00938 640512000770 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 640512000771 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 640512000772 Glutamate-cysteine ligase; Region: GshA; pfam08886 640512000773 glutathione synthetase; Provisional; Region: PRK05246 640512000774 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 640512000775 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 640512000776 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 640512000777 active pocket/dimerization site; other site 640512000778 active site 640512000779 phosphorylation site [posttranslational modification] 640512000780 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 640512000781 dimerization domain swap beta strand [polypeptide binding]; other site 640512000782 regulatory protein interface [polypeptide binding]; other site 640512000783 active site 640512000784 regulatory phosphorylation site [posttranslational modification]; other site 640512000785 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 640512000786 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 640512000787 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 640512000788 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 640512000789 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 640512000790 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 640512000791 ATP binding site [chemical binding]; other site 640512000792 substrate interface [chemical binding]; other site 640512000793 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 640512000794 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 640512000795 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 640512000796 protein binding site [polypeptide binding]; other site 640512000797 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 640512000798 Catalytic dyad [active] 640512000799 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 640512000800 catalytic core [active] 640512000801 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 640512000802 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 640512000803 active site residue [active] 640512000804 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 640512000805 GSH binding site [chemical binding]; other site 640512000806 catalytic residues [active] 640512000807 preprotein translocase subunit SecB; Validated; Region: PRK05751 640512000808 SecA binding site; other site 640512000809 Preprotein binding site; other site 640512000810 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 640512000811 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 640512000812 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 640512000813 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 640512000814 putative ADP-ribose binding site [chemical binding]; other site 640512000815 putative active site [active] 640512000816 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 640512000817 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 640512000818 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 640512000819 active site 640512000820 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 640512000821 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 640512000822 S-adenosylmethionine binding site [chemical binding]; other site 640512000823 Integral membrane protein (DUF2244); Region: DUF2244; pfam10003 640512000824 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 640512000825 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 640512000826 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 640512000827 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640512000828 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 640512000829 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640512000830 ligand binding site [chemical binding]; other site 640512000831 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 640512000832 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 640512000833 Subunit I/III interface [polypeptide binding]; other site 640512000834 D-pathway; other site 640512000835 Subunit I/VIIc interface [polypeptide binding]; other site 640512000836 Subunit I/IV interface [polypeptide binding]; other site 640512000837 Subunit I/II interface [polypeptide binding]; other site 640512000838 Low-spin heme (heme a) binding site [chemical binding]; other site 640512000839 Subunit I/VIIa interface [polypeptide binding]; other site 640512000840 Subunit I/VIa interface [polypeptide binding]; other site 640512000841 Dimer interface; other site 640512000842 Putative water exit pathway; other site 640512000843 Binuclear center (heme a3/CuB) [ion binding]; other site 640512000844 K-pathway; other site 640512000845 Subunit I/Vb interface [polypeptide binding]; other site 640512000846 Putative proton exit pathway; other site 640512000847 Subunit I/VIb interface; other site 640512000848 Subunit I/VIc interface [polypeptide binding]; other site 640512000849 Electron transfer pathway; other site 640512000850 Subunit I/VIIIb interface [polypeptide binding]; other site 640512000851 Subunit I/VIIb interface [polypeptide binding]; other site 640512000852 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 640512000853 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 640512000854 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 640512000855 Subunit III/VIIa interface [polypeptide binding]; other site 640512000856 Phospholipid binding site [chemical binding]; other site 640512000857 Subunit I/III interface [polypeptide binding]; other site 640512000858 Subunit III/VIb interface [polypeptide binding]; other site 640512000859 Subunit III/VIa interface; other site 640512000860 Subunit III/Vb interface [polypeptide binding]; other site 640512000861 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 640512000862 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 640512000863 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 640512000864 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 640512000865 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 640512000866 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 640512000867 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 640512000868 UbiA prenyltransferase family; Region: UbiA; pfam01040 640512000869 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 640512000870 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 640512000871 Cu(I) binding site [ion binding]; other site 640512000872 YCII-related domain; Region: YCII; cl00999 640512000873 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 640512000874 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 640512000875 Transcriptional regulators [Transcription]; Region: MarR; COG1846 640512000876 MarR family; Region: MarR_2; pfam12802 640512000877 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640512000878 Coenzyme A binding pocket [chemical binding]; other site 640512000879 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 640512000880 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640512000881 DNA-binding site [nucleotide binding]; DNA binding site 640512000882 UTRA domain; Region: UTRA; pfam07702 640512000883 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 640512000884 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 640512000885 active site 640512000886 dimer interface [polypeptide binding]; other site 640512000887 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 640512000888 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 640512000889 dimer interface [polypeptide binding]; other site 640512000890 active site 640512000891 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 640512000892 dimer interface [polypeptide binding]; other site 640512000893 active site 640512000894 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 640512000895 HPr interaction site; other site 640512000896 glycerol kinase (GK) interaction site [polypeptide binding]; other site 640512000897 active site 640512000898 phosphorylation site [posttranslational modification] 640512000899 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 640512000900 dimerization domain swap beta strand [polypeptide binding]; other site 640512000901 regulatory protein interface [polypeptide binding]; other site 640512000902 active site 640512000903 regulatory phosphorylation site [posttranslational modification]; other site 640512000904 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 640512000905 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 640512000906 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 640512000907 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 640512000908 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 640512000909 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 640512000910 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 640512000911 active site turn [active] 640512000912 phosphorylation site [posttranslational modification] 640512000913 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 640512000914 active site turn [active] 640512000915 phosphorylation site [posttranslational modification] 640512000916 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 640512000917 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 640512000918 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640512000919 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 640512000920 DNA binding residues [nucleotide binding] 640512000921 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 640512000922 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 640512000923 SnoaL-like domain; Region: SnoaL_3; pfam13474 640512000924 glycosyl transferase family protein; Provisional; Region: PRK08136 640512000925 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 640512000926 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 640512000927 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 640512000928 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 640512000929 maleylacetoacetate isomerase; Region: maiA; TIGR01262 640512000930 C-terminal domain interface [polypeptide binding]; other site 640512000931 GSH binding site (G-site) [chemical binding]; other site 640512000932 putative dimer interface [polypeptide binding]; other site 640512000933 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 640512000934 dimer interface [polypeptide binding]; other site 640512000935 N-terminal domain interface [polypeptide binding]; other site 640512000936 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 640512000937 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 640512000938 signal recognition particle-docking protein FtsY; Region: ftsY; TIGR00064 640512000939 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 640512000940 P loop; other site 640512000941 GTP binding site [chemical binding]; other site 640512000942 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 640512000943 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 640512000944 S-adenosylmethionine binding site [chemical binding]; other site 640512000945 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 640512000946 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 640512000947 active site 640512000948 (T/H)XGH motif; other site 640512000949 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 640512000950 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 640512000951 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 640512000952 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640512000953 homodimer interface [polypeptide binding]; other site 640512000954 catalytic residue [active] 640512000955 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 640512000956 putative active site [active] 640512000957 catalytic residue [active] 640512000958 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 640512000959 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 640512000960 5S rRNA interface [nucleotide binding]; other site 640512000961 CTC domain interface [polypeptide binding]; other site 640512000962 L16 interface [polypeptide binding]; other site 640512000963 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 640512000964 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 640512000965 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 640512000966 active site 640512000967 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 640512000968 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 640512000969 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 640512000970 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 640512000971 TPR motif; other site 640512000972 binding surface 640512000973 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 640512000974 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 640512000975 TPR motif; other site 640512000976 binding surface 640512000977 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 640512000978 binding surface 640512000979 TPR motif; other site 640512000980 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 640512000981 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 640512000982 DNA binding site [nucleotide binding] 640512000983 catalytic residue [active] 640512000984 H2TH interface [polypeptide binding]; other site 640512000985 putative catalytic residues [active] 640512000986 turnover-facilitating residue; other site 640512000987 intercalation triad [nucleotide binding]; other site 640512000988 8OG recognition residue [nucleotide binding]; other site 640512000989 putative reading head residues; other site 640512000990 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 640512000991 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 640512000992 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 640512000993 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 640512000994 minor groove reading motif; other site 640512000995 helix-hairpin-helix signature motif; other site 640512000996 substrate binding pocket [chemical binding]; other site 640512000997 active site 640512000998 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 640512000999 DNA binding and oxoG recognition site [nucleotide binding] 640512001000 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 640512001001 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 640512001002 HPr kinase/phosphorylase; Provisional; Region: PRK05428 640512001003 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 640512001004 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 640512001005 Hpr binding site; other site 640512001006 active site 640512001007 homohexamer subunit interaction site [polypeptide binding]; other site 640512001008 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 640512001009 active site 640512001010 phosphorylation site [posttranslational modification] 640512001011 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 640512001012 30S subunit binding site; other site 640512001013 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 640512001014 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 640512001015 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 640512001016 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 640512001017 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 640512001018 Walker A/P-loop; other site 640512001019 ATP binding site [chemical binding]; other site 640512001020 Q-loop/lid; other site 640512001021 ABC transporter signature motif; other site 640512001022 Walker B; other site 640512001023 D-loop; other site 640512001024 H-loop/switch region; other site 640512001025 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 640512001026 OstA-like protein; Region: OstA; pfam03968 640512001027 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 640512001028 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 640512001029 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 640512001030 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 640512001031 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 640512001032 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 640512001033 putative active site [active] 640512001034 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 640512001035 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 640512001036 putative cation:proton antiport protein; Provisional; Region: PRK10669 640512001037 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 640512001038 TrkA-N domain; Region: TrkA_N; pfam02254 640512001039 TrkA-C domain; Region: TrkA_C; pfam02080 640512001040 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 640512001041 active site 640512001042 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 640512001043 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 640512001044 nudix motif; other site 640512001045 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 640512001046 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 640512001047 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 640512001048 putative active site [active] 640512001049 putative substrate binding site [chemical binding]; other site 640512001050 putative cosubstrate binding site; other site 640512001051 catalytic site [active] 640512001052 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 640512001053 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 640512001054 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 640512001055 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 640512001056 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 640512001057 N-terminal plug; other site 640512001058 ligand-binding site [chemical binding]; other site 640512001059 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 640512001060 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 640512001061 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 640512001062 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 640512001063 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 640512001064 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512001065 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640512001066 putative substrate translocation pore; other site 640512001067 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 640512001068 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 640512001069 dimer interface [polypeptide binding]; other site 640512001070 ssDNA binding site [nucleotide binding]; other site 640512001071 tetramer (dimer of dimers) interface [polypeptide binding]; other site 640512001072 Viral polyprotein N-terminal; Region: Calici_PP_N; pfam08405 640512001073 Tar ligand binding domain homologue; Region: TarH; pfam02203 640512001074 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 640512001075 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 640512001076 dimerization interface [polypeptide binding]; other site 640512001077 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640512001078 dimer interface [polypeptide binding]; other site 640512001079 putative CheW interface [polypeptide binding]; other site 640512001080 Cytochrome c; Region: Cytochrom_C; cl11414 640512001081 Cytochrome c; Region: Cytochrom_C; cl11414 640512001082 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 640512001083 Putative D-pathway homolog; other site 640512001084 Low-spin heme binding site [chemical binding]; other site 640512001085 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 640512001086 Subunit I/II interface [polypeptide binding]; other site 640512001087 Putative Q-pathway; other site 640512001088 Putative alternate electron transfer pathway; other site 640512001089 Putative water exit pathway; other site 640512001090 Binuclear center (active site) [active] 640512001091 Putative K-pathway homolog; other site 640512001092 Putative proton exit pathway; other site 640512001093 Subunit I/IIa interface [polypeptide binding]; other site 640512001094 Electron transfer pathway; other site 640512001095 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 640512001096 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640512001097 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640512001098 Cytochrome c; Region: Cytochrom_C; pfam00034 640512001099 Cytochrome c; Region: Cytochrom_C; cl11414 640512001100 Cytochrome c; Region: Cytochrom_C; cl11414 640512001101 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512001102 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512001103 The 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 640512001104 dimerization interface [polypeptide binding]; other site 640512001105 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512001106 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640512001107 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640512001108 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512001109 active site 640512001110 phosphorylation site [posttranslational modification] 640512001111 intermolecular recognition site; other site 640512001112 dimerization interface [polypeptide binding]; other site 640512001113 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 640512001114 DNA binding residues [nucleotide binding] 640512001115 dimerization interface [polypeptide binding]; other site 640512001116 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640512001117 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512001118 active site 640512001119 phosphorylation site [posttranslational modification] 640512001120 intermolecular recognition site; other site 640512001121 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 640512001122 DNA binding residues [nucleotide binding] 640512001123 dimerization interface [polypeptide binding]; other site 640512001124 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 640512001125 amphipathic channel; other site 640512001126 Asn-Pro-Ala signature motifs; other site 640512001127 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 640512001128 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 640512001129 substrate binding pocket [chemical binding]; other site 640512001130 membrane-bound complex binding site; other site 640512001131 hinge residues; other site 640512001132 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 640512001133 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 640512001134 substrate binding pocket [chemical binding]; other site 640512001135 membrane-bound complex binding site; other site 640512001136 hinge residues; other site 640512001137 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 640512001138 PAS domain; Region: PAS_9; pfam13426 640512001139 putative active site [active] 640512001140 heme pocket [chemical binding]; other site 640512001141 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 640512001142 dimer interface [polypeptide binding]; other site 640512001143 phosphorylation site [posttranslational modification] 640512001144 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512001145 ATP binding site [chemical binding]; other site 640512001146 Mg2+ binding site [ion binding]; other site 640512001147 G-X-G motif; other site 640512001148 Response regulator receiver domain; Region: Response_reg; pfam00072 640512001149 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512001150 active site 640512001151 phosphorylation site [posttranslational modification] 640512001152 intermolecular recognition site; other site 640512001153 dimerization interface [polypeptide binding]; other site 640512001154 CHRD domain; Region: CHRD; pfam07452 640512001155 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 640512001156 EcsC protein family; Region: EcsC; pfam12787 640512001157 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512001158 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640512001159 putative substrate translocation pore; other site 640512001160 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512001161 Transcriptional regulators [Transcription]; Region: MarR; COG1846 640512001162 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 640512001163 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 640512001164 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Bacterial Cryptic D-Serine Dehydratase; Region: PLPDE_III_cryptic_DSD; cd06818 640512001165 dimer interface [polypeptide binding]; other site 640512001166 active site 640512001167 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 640512001168 substrate binding site [chemical binding]; other site 640512001169 catalytic residue [active] 640512001170 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 640512001171 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 640512001172 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 640512001173 putative active site [active] 640512001174 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 640512001175 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 640512001176 active site 640512001177 putative substrate binding pocket [chemical binding]; other site 640512001178 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 640512001179 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 640512001180 homotrimer interaction site [polypeptide binding]; other site 640512001181 putative active site [active] 640512001182 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 640512001183 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 640512001184 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 640512001185 5'-nucleotidase; Region: 5-nucleotidase; pfam06189 640512001186 threonine dehydratase; Reviewed; Region: PRK09224 640512001187 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 640512001188 tetramer interface [polypeptide binding]; other site 640512001189 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640512001190 catalytic residue [active] 640512001191 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 640512001192 putative Ile/Val binding site [chemical binding]; other site 640512001193 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 640512001194 putative Ile/Val binding site [chemical binding]; other site 640512001195 envelope glycoprotein H; Provisional; Region: PHA03296 640512001196 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 640512001197 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 640512001198 putative NAD(P) binding site [chemical binding]; other site 640512001199 active site 640512001200 DoxX-like family; Region: DoxX_3; pfam13781 640512001201 Predicted integral membrane protein (DUF2269); Region: DUF2269; pfam10027 640512001202 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 640512001203 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 640512001204 FAD binding domain; Region: FAD_binding_4; pfam01565 640512001205 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 640512001206 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 640512001207 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 640512001208 Cysteine-rich domain; Region: CCG; pfam02754 640512001209 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 640512001210 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 640512001211 nucleotide binding site/active site [active] 640512001212 HIT family signature motif; other site 640512001213 catalytic residue [active] 640512001214 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 640512001215 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 640512001216 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 640512001217 S-adenosylmethionine binding site [chemical binding]; other site 640512001218 Tim44 is an essential component of the machinery that mediates the translocation of nuclear-encoded proteins across the mitochondrial inner membrane; Region: Tim44; smart00978 640512001219 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 640512001220 SCP-2 sterol transfer family; Region: SCP2; pfam02036 640512001221 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 640512001222 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 640512001223 Thiopurine S-methyltransferase (TPMT); Region: TPMT; pfam05724 640512001224 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 640512001225 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 640512001226 Uncharacterized conserved protein [Function unknown]; Region: COG2928 640512001227 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 640512001228 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 640512001229 dimer interface [polypeptide binding]; other site 640512001230 anticodon binding site; other site 640512001231 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 640512001232 homodimer interface [polypeptide binding]; other site 640512001233 motif 1; other site 640512001234 active site 640512001235 motif 2; other site 640512001236 GAD domain; Region: GAD; pfam02938 640512001237 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 640512001238 motif 3; other site 640512001239 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 640512001240 nudix motif; other site 640512001241 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 640512001242 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 640512001243 putative active site [active] 640512001244 catalytic site [active] 640512001245 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 640512001246 putative active site [active] 640512001247 catalytic site [active] 640512001248 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640512001249 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640512001250 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 640512001251 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 640512001252 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 640512001253 FAD binding site [chemical binding]; other site 640512001254 substrate binding site [chemical binding]; other site 640512001255 catalytic residues [active] 640512001256 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 640512001257 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 640512001258 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 640512001259 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 640512001260 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 640512001261 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 640512001262 substrate binding site [chemical binding]; other site 640512001263 oxyanion hole (OAH) forming residues; other site 640512001264 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 640512001265 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 640512001266 dimer interface [polypeptide binding]; other site 640512001267 active site 640512001268 enoyl-CoA hydratase; Provisional; Region: PRK06688 640512001269 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 640512001270 substrate binding site [chemical binding]; other site 640512001271 oxyanion hole (OAH) forming residues; other site 640512001272 trimer interface [polypeptide binding]; other site 640512001273 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 640512001274 Conserved nitrate reductase-associated protein (Nitr_red_assoc); Region: Nitr_red_assoc; pfam09655 640512001275 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 640512001276 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 640512001277 putative active site [active] 640512001278 heme pocket [chemical binding]; other site 640512001279 PAS domain; Region: PAS_9; pfam13426 640512001280 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 640512001281 putative active site [active] 640512001282 heme pocket [chemical binding]; other site 640512001283 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640512001284 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640512001285 metal binding site [ion binding]; metal-binding site 640512001286 active site 640512001287 I-site; other site 640512001288 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 640512001289 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 640512001290 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 640512001291 C-terminal domain interface [polypeptide binding]; other site 640512001292 GSH binding site (G-site) [chemical binding]; other site 640512001293 dimer interface [polypeptide binding]; other site 640512001294 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 640512001295 N-terminal domain interface [polypeptide binding]; other site 640512001296 putative substrate binding pocket (H-site) [chemical binding]; other site 640512001297 dimer interface [polypeptide binding]; other site 640512001298 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640512001299 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512001300 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 640512001301 dimerization interface [polypeptide binding]; other site 640512001302 substrate binding pocket [chemical binding]; other site 640512001303 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 640512001304 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 640512001305 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 640512001306 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 640512001307 Walker A/P-loop; other site 640512001308 ATP binding site [chemical binding]; other site 640512001309 Q-loop/lid; other site 640512001310 ABC transporter signature motif; other site 640512001311 Walker B; other site 640512001312 D-loop; other site 640512001313 H-loop/switch region; other site 640512001314 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 640512001315 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 640512001316 Substrate binding site; other site 640512001317 metal-binding site 640512001318 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 640512001319 Phosphotransferase enzyme family; Region: APH; pfam01636 640512001320 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 640512001321 Organic solvent tolerance protein; Region: OstA_C; pfam04453 640512001322 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 640512001323 SurA N-terminal domain; Region: SurA_N; pfam09312 640512001324 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 640512001325 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 640512001326 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK01909 640512001327 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 640512001328 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 640512001329 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 640512001330 EamA-like transporter family; Region: EamA; pfam00892 640512001331 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640512001332 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 640512001333 trimer interface [polypeptide binding]; other site 640512001334 eyelet of channel; other site 640512001335 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640512001336 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 640512001337 dimer interface [polypeptide binding]; other site 640512001338 active site 640512001339 metal binding site [ion binding]; metal-binding site 640512001340 glutathione binding site [chemical binding]; other site 640512001341 Protein of unknown function DUF45; Region: DUF45; pfam01863 640512001342 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 640512001343 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 640512001344 putative acyl-acceptor binding pocket; other site 640512001345 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 640512001346 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 640512001347 active site 640512001348 motif I; other site 640512001349 motif II; other site 640512001350 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 640512001351 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 640512001352 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 640512001353 dimer interface [polypeptide binding]; other site 640512001354 motif 1; other site 640512001355 active site 640512001356 motif 2; other site 640512001357 motif 3; other site 640512001358 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 640512001359 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 640512001360 active site 640512001361 FMN binding site [chemical binding]; other site 640512001362 substrate binding site [chemical binding]; other site 640512001363 3Fe-4S cluster binding site [ion binding]; other site 640512001364 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 640512001365 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 640512001366 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 640512001367 nudix motif; other site 640512001368 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 640512001369 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 640512001370 ligand binding site [chemical binding]; other site 640512001371 homodimer interface [polypeptide binding]; other site 640512001372 NAD(P) binding site [chemical binding]; other site 640512001373 trimer interface B [polypeptide binding]; other site 640512001374 trimer interface A [polypeptide binding]; other site 640512001375 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 640512001376 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 640512001377 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 640512001378 Predicted transcriptional regulator [Transcription]; Region: COG2378 640512001379 HTH domain; Region: HTH_11; pfam08279 640512001380 WYL domain; Region: WYL; pfam13280 640512001381 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 640512001382 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640512001383 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 640512001384 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 640512001385 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 640512001386 Protein of unknown function (DUF330); Region: DUF330; pfam03886 640512001387 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 640512001388 mce related protein; Region: MCE; pfam02470 640512001389 mce related protein; Region: MCE; pfam02470 640512001390 mce related protein; Region: MCE; pfam02470 640512001391 Paraquat-inducible protein A; Region: PqiA; pfam04403 640512001392 Paraquat-inducible protein A; Region: PqiA; pfam04403 640512001393 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 640512001394 YceI-like domain; Region: YceI; smart00867 640512001395 Uncharacterized conserved protein [Function unknown]; Region: COG2353 640512001396 citrate-proton symporter; Provisional; Region: PRK15075 640512001397 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512001398 putative substrate translocation pore; other site 640512001399 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 640512001400 S-adenosylmethionine binding site [chemical binding]; other site 640512001401 XamI restriction endonuclease; Region: RE_XamI; pfam09572 640512001402 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 640512001403 Protein export membrane protein; Region: SecD_SecF; pfam02355 640512001404 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 640512001405 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 640512001406 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 640512001407 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 640512001408 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 640512001409 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 640512001410 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 640512001411 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 640512001412 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 640512001413 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 640512001414 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 640512001415 generic binding surface II; other site 640512001416 ssDNA binding site; other site 640512001417 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 640512001418 ATP binding site [chemical binding]; other site 640512001419 putative Mg++ binding site [ion binding]; other site 640512001420 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 640512001421 nucleotide binding region [chemical binding]; other site 640512001422 ATP-binding site [chemical binding]; other site 640512001423 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512001424 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512001425 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 640512001426 dimerization interface [polypeptide binding]; other site 640512001427 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 640512001428 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 640512001429 tetramer interface [polypeptide binding]; other site 640512001430 heme binding pocket [chemical binding]; other site 640512001431 NADPH binding site [chemical binding]; other site 640512001432 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 640512001433 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 640512001434 dimerization interface [polypeptide binding]; other site 640512001435 DPS ferroxidase diiron center [ion binding]; other site 640512001436 ion pore; other site 640512001437 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 640512001438 UbiA prenyltransferase family; Region: UbiA; pfam01040 640512001439 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 640512001440 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 640512001441 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 640512001442 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 640512001443 catalytic residue [active] 640512001444 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 640512001445 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 640512001446 Cysteine-rich domain; Region: CCG; pfam02754 640512001447 Cysteine-rich domain; Region: CCG; pfam02754 640512001448 FAD binding domain; Region: FAD_binding_4; pfam01565 640512001449 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 640512001450 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 640512001451 FAD binding domain; Region: FAD_binding_4; pfam01565 640512001452 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 640512001453 FAD binding domain; Region: FAD_binding_4; pfam01565 640512001454 ATP:cob(I)alamin adenosyltransferase; Region: PduO_Nterm; TIGR00636 640512001455 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 640512001456 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 640512001457 heme-binding site [chemical binding]; other site 640512001458 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 640512001459 FAD binding pocket [chemical binding]; other site 640512001460 FAD binding motif [chemical binding]; other site 640512001461 phosphate binding motif [ion binding]; other site 640512001462 beta-alpha-beta structure motif; other site 640512001463 NAD binding pocket [chemical binding]; other site 640512001464 Heme binding pocket [chemical binding]; other site 640512001465 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 640512001466 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 640512001467 protease TldD; Provisional; Region: tldD; PRK10735 640512001468 nitrilase; Region: PLN02798 640512001469 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 640512001470 putative active site [active] 640512001471 catalytic triad [active] 640512001472 dimer interface [polypeptide binding]; other site 640512001473 TIGR02099 family protein; Region: TIGR02099 640512001474 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 640512001475 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 640512001476 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 640512001477 metal binding triad; other site 640512001478 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 640512001479 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 640512001480 metal binding triad; other site 640512001481 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 640512001482 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 640512001483 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 640512001484 Walker A/P-loop; other site 640512001485 ATP binding site [chemical binding]; other site 640512001486 Q-loop/lid; other site 640512001487 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 640512001488 ABC transporter signature motif; other site 640512001489 Walker B; other site 640512001490 D-loop; other site 640512001491 H-loop/switch region; other site 640512001492 NAD(+)/NADH kinase family protein; Provisional; Region: ppnK; PRK02155 640512001493 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 640512001494 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 640512001495 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 640512001496 ferrochelatase; Reviewed; Region: hemH; PRK00035 640512001497 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 640512001498 C-terminal domain interface [polypeptide binding]; other site 640512001499 active site 640512001500 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 640512001501 active site 640512001502 N-terminal domain interface [polypeptide binding]; other site 640512001503 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 640512001504 RNA binding surface [nucleotide binding]; other site 640512001505 GrpE; Region: GrpE; pfam01025 640512001506 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 640512001507 dimer interface [polypeptide binding]; other site 640512001508 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 640512001509 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 640512001510 catalytic residues [active] 640512001511 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 640512001512 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 640512001513 nucleotide binding site [chemical binding]; other site 640512001514 chaperone protein DnaJ; Provisional; Region: PRK10767 640512001515 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 640512001516 HSP70 interaction site [polypeptide binding]; other site 640512001517 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 640512001518 Zn binding sites [ion binding]; other site 640512001519 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 640512001520 dimer interface [polypeptide binding]; other site 640512001521 aminodeoxychorismate synthase; Provisional; Region: PRK07508 640512001522 chorismate binding enzyme; Region: Chorismate_bind; cl10555 640512001523 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 640512001524 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 640512001525 substrate-cofactor binding pocket; other site 640512001526 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640512001527 catalytic residue [active] 640512001528 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 640512001529 oligomerization interface [polypeptide binding]; other site 640512001530 active site 640512001531 metal binding site [ion binding]; metal-binding site 640512001532 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 640512001533 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 640512001534 Substrate-binding site [chemical binding]; other site 640512001535 Substrate specificity [chemical binding]; other site 640512001536 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 640512001537 catalytic center binding site [active] 640512001538 ATP binding site [chemical binding]; other site 640512001539 poly(A) polymerase; Region: pcnB; TIGR01942 640512001540 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 640512001541 active site 640512001542 NTP binding site [chemical binding]; other site 640512001543 metal binding triad [ion binding]; metal-binding site 640512001544 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 640512001545 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 640512001546 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 640512001547 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 640512001548 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 640512001549 DnaA regulatory inactivator Hda; Validated; Region: PRK08903 640512001550 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 640512001551 Domain of unknown function DUF20; Region: UPF0118; pfam01594 640512001552 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 640512001553 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 640512001554 dimerization interface [polypeptide binding]; other site 640512001555 putative ATP binding site [chemical binding]; other site 640512001556 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 640512001557 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 640512001558 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 640512001559 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512001560 ATP binding site [chemical binding]; other site 640512001561 Mg2+ binding site [ion binding]; other site 640512001562 G-X-G motif; other site 640512001563 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 640512001564 ATP binding site [chemical binding]; other site 640512001565 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 640512001566 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 640512001567 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 640512001568 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 640512001569 Tetratricopeptide repeat; Region: TPR_6; pfam13174 640512001570 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 640512001571 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640512001572 ligand binding site [chemical binding]; other site 640512001573 translocation protein TolB; Provisional; Region: tolB; PRK02889 640512001574 TolB amino-terminal domain; Region: TolB_N; pfam04052 640512001575 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 640512001576 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 640512001577 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 640512001578 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 640512001579 TolA protein; Region: tolA_full; TIGR02794 640512001580 TolA protein; Region: tolA_full; TIGR02794 640512001581 TonB C terminal; Region: TonB_2; pfam13103 640512001582 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 640512001583 TolR protein; Region: tolR; TIGR02801 640512001584 TolQ protein; Region: tolQ; TIGR02796 640512001585 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 640512001586 active site 640512001587 malonic semialdehyde reductase; Provisional; Region: PRK10538 640512001588 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 640512001589 putative NAD(P) binding site [chemical binding]; other site 640512001590 homodimer interface [polypeptide binding]; other site 640512001591 homotetramer interface [polypeptide binding]; other site 640512001592 active site 640512001593 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 640512001594 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 640512001595 dimer interface [polypeptide binding]; other site 640512001596 active site 640512001597 glycine-pyridoxal phosphate binding site [chemical binding]; other site 640512001598 folate binding site [chemical binding]; other site 640512001599 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 640512001600 ATP cone domain; Region: ATP-cone; pfam03477 640512001601 Type II transport protein GspH; Region: GspH; pfam12019 640512001602 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 640512001603 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 640512001604 Protein of unknown function (DUF3318); Region: DUF3318; pfam11780 640512001605 Predicted membrane protein [Function unknown]; Region: COG5393 640512001606 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 640512001607 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 640512001608 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 640512001609 dimer interface [polypeptide binding]; other site 640512001610 decamer (pentamer of dimers) interface [polypeptide binding]; other site 640512001611 catalytic triad [active] 640512001612 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 640512001613 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 640512001614 FAD binding site [chemical binding]; other site 640512001615 substrate binding pocket [chemical binding]; other site 640512001616 catalytic base [active] 640512001617 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640512001618 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 640512001619 Bacterial transcriptional regulator; Region: IclR; pfam01614 640512001620 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 640512001621 benzoate transport; Region: 2A0115; TIGR00895 640512001622 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512001623 putative substrate translocation pore; other site 640512001624 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512001625 putative substrate translocation pore; other site 640512001626 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 640512001627 fumarylacetoacetase; Region: PLN02856 640512001628 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 640512001629 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 640512001630 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 640512001631 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512001632 putative substrate translocation pore; other site 640512001633 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 640512001634 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 640512001635 substrate binding site [chemical binding]; other site 640512001636 oxyanion hole (OAH) forming residues; other site 640512001637 trimer interface [polypeptide binding]; other site 640512001638 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 640512001639 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 640512001640 putative ligand binding site [chemical binding]; other site 640512001641 putative NAD binding site [chemical binding]; other site 640512001642 catalytic site [active] 640512001643 aspartate-alanine antiporter; Region: Asp_Ala_antiprt; TIGR03802 640512001644 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 640512001645 TrkA-C domain; Region: TrkA_C; pfam02080 640512001646 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 640512001647 aspartate 4-decarboxylase; Region: asp_4_decarbox; TIGR03801 640512001648 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 640512001649 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640512001650 homodimer interface [polypeptide binding]; other site 640512001651 catalytic residue [active] 640512001652 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 640512001653 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640512001654 catalytic residue [active] 640512001655 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 640512001656 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 640512001657 Walker A motif; other site 640512001658 ATP binding site [chemical binding]; other site 640512001659 Walker B motif; other site 640512001660 arginine finger; other site 640512001661 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 640512001662 Walker A motif; other site 640512001663 ATP binding site [chemical binding]; other site 640512001664 Walker B motif; other site 640512001665 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 640512001666 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 640512001667 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 640512001668 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640512001669 ligand binding site [chemical binding]; other site 640512001670 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 640512001671 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 640512001672 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 640512001673 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 640512001674 Protein of unknown function (DUF877); Region: DUF877; pfam05943 640512001675 Protein of unknown function (DUF770); Region: DUF770; pfam05591 640512001676 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 640512001677 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 640512001678 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 640512001679 major facilitator superfamily transporter; Provisional; Region: PRK05122 640512001680 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512001681 putative substrate translocation pore; other site 640512001682 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 640512001683 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 640512001684 catalytic loop [active] 640512001685 iron binding site [ion binding]; other site 640512001686 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 640512001687 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 640512001688 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 640512001689 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 640512001690 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640512001691 XdhC Rossmann domain; Region: XdhC_C; pfam13478 640512001692 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512001693 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512001694 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 640512001695 putative substrate binding pocket [chemical binding]; other site 640512001696 putative dimerization interface [polypeptide binding]; other site 640512001697 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 640512001698 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 640512001699 putative catalytic residue [active] 640512001700 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 640512001701 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 640512001702 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 640512001703 arsenical resistance protein ArsH; Region: resist_ArsH; TIGR02690 640512001704 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 640512001705 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 640512001706 ArsC family; Region: ArsC; pfam03960 640512001707 catalytic residues [active] 640512001708 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640512001709 Coenzyme A binding pocket [chemical binding]; other site 640512001710 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 640512001711 arsenical-resistance protein; Region: acr3; TIGR00832 640512001712 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 640512001713 putative DNA binding site [nucleotide binding]; other site 640512001714 putative Zn2+ binding site [ion binding]; other site 640512001715 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 640512001716 LysE type translocator; Region: LysE; cl00565 640512001717 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 640512001718 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512001719 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 640512001720 putative dimerization interface [polypeptide binding]; other site 640512001721 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 640512001722 active site 640512001723 catalytic residues [active] 640512001724 metal binding site [ion binding]; metal-binding site 640512001725 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 640512001726 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640512001727 benzoate transport; Region: 2A0115; TIGR00895 640512001728 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512001729 putative substrate translocation pore; other site 640512001730 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512001731 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640512001732 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 640512001733 Ricin-type beta-trefoil; Region: RICIN; smart00458 640512001734 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 640512001735 putative sugar binding sites [chemical binding]; other site 640512001736 Q-X-W motif; other site 640512001737 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 640512001738 active site 640512001739 GDP-Mannose binding site [chemical binding]; other site 640512001740 dimer interface [polypeptide binding]; other site 640512001741 modified nudix motif 640512001742 metal binding site [ion binding]; metal-binding site 640512001743 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640512001744 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 640512001745 conserved cys residue [active] 640512001746 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512001747 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 640512001748 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 640512001749 Substrate binding site; other site 640512001750 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 640512001751 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 640512001752 Bacterial sugar transferase; Region: Bac_transf; pfam02397 640512001753 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 640512001754 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 640512001755 SLBB domain; Region: SLBB; pfam10531 640512001756 tyrosine kinase; Provisional; Region: PRK11519 640512001757 Chain length determinant protein; Region: Wzz; pfam02706 640512001758 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 640512001759 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 640512001760 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 640512001761 NADP-binding site; other site 640512001762 homotetramer interface [polypeptide binding]; other site 640512001763 substrate binding site [chemical binding]; other site 640512001764 homodimer interface [polypeptide binding]; other site 640512001765 active site 640512001766 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 640512001767 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 640512001768 NADP binding site [chemical binding]; other site 640512001769 active site 640512001770 putative substrate binding site [chemical binding]; other site 640512001771 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640512001772 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 640512001773 putative glycosyl transferase; Provisional; Region: PRK10307 640512001774 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 640512001775 putative acyl transferase; Provisional; Region: PRK10502 640512001776 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 640512001777 putative trimer interface [polypeptide binding]; other site 640512001778 putative active site [active] 640512001779 putative substrate binding site [chemical binding]; other site 640512001780 putative CoA binding site [chemical binding]; other site 640512001781 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 640512001782 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 640512001783 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 640512001784 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640512001785 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 640512001786 putative ADP-binding pocket [chemical binding]; other site 640512001787 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 640512001788 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 640512001789 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640512001790 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 640512001791 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 640512001792 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640512001793 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 640512001794 Transcriptional regulator [Transcription]; Region: PaiB; COG2808 640512001795 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640512001796 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 640512001797 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 640512001798 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 640512001799 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 640512001800 Uncharacterized conserved protein [Function unknown]; Region: COG2128 640512001801 Cupin domain; Region: Cupin_2; pfam07883 640512001802 Cupin; Region: Cupin_6; pfam12852 640512001803 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 640512001804 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640512001805 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512001806 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 640512001807 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 640512001808 NADP binding site [chemical binding]; other site 640512001809 active site 640512001810 steroid binding site; other site 640512001811 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 640512001812 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 640512001813 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 640512001814 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 640512001815 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 640512001816 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 640512001817 2-keto-3-deoxygluconate permease; Provisional; Region: PRK05274 640512001818 Domain of unknown function (DUF2382); Region: DUF2382; pfam09557 640512001819 Domain of unknown function (DUF2382); Region: DUF2382; pfam09557 640512001820 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 640512001821 Alpha/beta hydrolase of unknown function (DUF1057); Region: DUF1057; pfam06342 640512001822 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640512001823 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640512001824 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 640512001825 Amidase; Region: Amidase; pfam01425 640512001826 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 640512001827 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 640512001828 potential catalytic triad [active] 640512001829 conserved cys residue [active] 640512001830 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512001831 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512001832 The 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 640512001833 dimerization interface [polypeptide binding]; other site 640512001834 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; pfam01977 640512001835 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 640512001836 Flavoprotein; Region: Flavoprotein; pfam02441 640512001837 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 640512001838 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 640512001839 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640512001840 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 640512001841 putative hydrophobic ligand binding site [chemical binding]; other site 640512001842 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 640512001843 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 640512001844 4-hydroxybenzoyl-CoA reductase, gamma subunit; Region: 4hydroxCoAred; TIGR03193 640512001845 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 640512001846 catalytic loop [active] 640512001847 iron binding site [ion binding]; other site 640512001848 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 640512001849 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 640512001850 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 640512001851 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 640512001852 acyl-activating enzyme (AAE) consensus motif; other site 640512001853 acyl-activating enzyme (AAE) consensus motif; other site 640512001854 putative AMP binding site [chemical binding]; other site 640512001855 putative active site [active] 640512001856 putative CoA binding site [chemical binding]; other site 640512001857 enoyl-CoA hydratase; Provisional; Region: PRK06688 640512001858 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 640512001859 substrate binding site [chemical binding]; other site 640512001860 oxyanion hole (OAH) forming residues; other site 640512001861 trimer interface [polypeptide binding]; other site 640512001862 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 640512001863 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 640512001864 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 640512001865 metabolite-proton symporter; Region: 2A0106; TIGR00883 640512001866 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512001867 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512001868 The 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 640512001869 dimerization interface [polypeptide binding]; other site 640512001870 Esterase PHB depolymerase; Region: Esterase_phd; pfam10503 640512001871 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]; Region: COG3609 640512001872 Protein of unknown function (DUF2945); Region: DUF2945; pfam11160 640512001873 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 640512001874 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 640512001875 N-terminal plug; other site 640512001876 ligand-binding site [chemical binding]; other site 640512001877 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 640512001878 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 640512001879 substrate binding pocket [chemical binding]; other site 640512001880 membrane-bound complex binding site; other site 640512001881 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 640512001882 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 640512001883 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640512001884 dimer interface [polypeptide binding]; other site 640512001885 putative CheW interface [polypeptide binding]; other site 640512001886 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512001887 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512001888 The 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 640512001889 dimerization interface [polypeptide binding]; other site 640512001890 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 640512001891 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 640512001892 active site 640512001893 catalytic tetrad [active] 640512001894 Putative ClC chloride channel. Clc proteins are putative halogen ion (Cl-, Br- and I-) transporters found in eubacteria. They belong to the ClC superfamily of halogen ion channels, which share a unique double-barreled architecture and voltage-dependent...; Region: ClC_like; cd01033 640512001895 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 640512001896 putative ion selectivity filter; other site 640512001897 putative pore gating glutamate residue; other site 640512001898 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 640512001899 HlyD family secretion protein; Region: HlyD_3; pfam13437 640512001900 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640512001901 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 640512001902 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512001903 putative substrate translocation pore; other site 640512001904 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640512001905 MarR family; Region: MarR_2; cl17246 640512001906 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 640512001907 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 640512001908 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 640512001909 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 640512001910 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 640512001911 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 640512001912 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 640512001913 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 640512001914 putative active site pocket [active] 640512001915 putative metal binding site [ion binding]; other site 640512001916 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 640512001917 dimerization interface [polypeptide binding]; other site 640512001918 Domain of unknown function (DUF4347); Region: DUF4347; pfam14252 640512001919 Outer membrane efflux protein; Region: OEP; pfam02321 640512001920 Outer membrane efflux protein; Region: OEP; pfam02321 640512001921 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640512001922 HlyD family secretion protein; Region: HlyD_3; pfam13437 640512001923 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640512001924 HlyD family secretion protein; Region: HlyD_3; pfam13437 640512001925 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 640512001926 Peptidase family M50; Region: Peptidase_M50; pfam02163 640512001927 active site 640512001928 putative substrate binding region [chemical binding]; other site 640512001929 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640512001930 HlyD family secretion protein; Region: HlyD_3; pfam13437 640512001931 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 640512001932 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 640512001933 NAD(P) binding site [chemical binding]; other site 640512001934 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 640512001935 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640512001936 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 640512001937 tetramerization interface [polypeptide binding]; other site 640512001938 NAD(P) binding site [chemical binding]; other site 640512001939 catalytic residues [active] 640512001940 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512001941 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512001942 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 640512001943 putative effector binding pocket; other site 640512001944 dimerization interface [polypeptide binding]; other site 640512001945 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640512001946 HAMP domain; Region: HAMP; pfam00672 640512001947 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 640512001948 dimer interface [polypeptide binding]; other site 640512001949 phosphorylation site [posttranslational modification] 640512001950 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512001951 ATP binding site [chemical binding]; other site 640512001952 Mg2+ binding site [ion binding]; other site 640512001953 G-X-G motif; other site 640512001954 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 640512001955 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512001956 active site 640512001957 phosphorylation site [posttranslational modification] 640512001958 intermolecular recognition site; other site 640512001959 dimerization interface [polypeptide binding]; other site 640512001960 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 640512001961 DNA binding site [nucleotide binding] 640512001962 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 640512001963 Dihaem cytochrome c; Region: DHC; pfam09626 640512001964 Domain of unknown function (DUF1924); Region: DUF1924; pfam09086 640512001965 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 640512001966 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 640512001967 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 640512001968 dimer interface [polypeptide binding]; other site 640512001969 FMN binding site [chemical binding]; other site 640512001970 Major royal jelly protein; Region: MRJP; pfam03022 640512001971 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 640512001972 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 640512001973 putative NAD(P) binding site [chemical binding]; other site 640512001974 dimer interface [polypeptide binding]; other site 640512001975 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512001976 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512001977 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 640512001978 putative effector binding pocket; other site 640512001979 dimerization interface [polypeptide binding]; other site 640512001980 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 640512001981 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 640512001982 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 640512001983 Tannase and feruloyl esterase; Region: Tannase; pfam07519 640512001984 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512001985 metabolite-proton symporter; Region: 2A0106; TIGR00883 640512001986 putative substrate translocation pore; other site 640512001987 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 640512001988 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512001989 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 640512001990 putative dimerization interface [polypeptide binding]; other site 640512001991 putative substrate binding pocket [chemical binding]; other site 640512001992 Major royal jelly protein; Region: MRJP; pfam03022 640512001993 Flagellin N-methylase; Region: FliB; pfam03692 640512001994 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 640512001995 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640512001996 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 640512001997 trimer interface [polypeptide binding]; other site 640512001998 eyelet of channel; other site 640512001999 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512002000 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 640512002001 putative substrate translocation pore; other site 640512002002 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 640512002003 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 640512002004 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 640512002005 active site 640512002006 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 640512002007 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640512002008 active site 640512002009 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 640512002010 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640512002011 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 640512002012 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640512002013 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 640512002014 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 640512002015 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640512002016 DNA-binding site [nucleotide binding]; DNA binding site 640512002017 UTRA domain; Region: UTRA; pfam07702 640512002018 putative glutathione S-transferase; Provisional; Region: PRK10357 640512002019 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 640512002020 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 640512002021 dimer interface [polypeptide binding]; other site 640512002022 N-terminal domain interface [polypeptide binding]; other site 640512002023 putative substrate binding pocket (H-site) [chemical binding]; other site 640512002024 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 640512002025 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 640512002026 active site 640512002027 enoyl-CoA hydratase; Provisional; Region: PRK06495 640512002028 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 640512002029 substrate binding site [chemical binding]; other site 640512002030 oxyanion hole (OAH) forming residues; other site 640512002031 trimer interface [polypeptide binding]; other site 640512002032 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 640512002033 active site 640512002034 DNA binding site [nucleotide binding] 640512002035 Int/Topo IB signature motif; other site 640512002036 glutathione S-transferase; Provisional; Region: PRK15113 640512002037 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 640512002038 C-terminal domain interface [polypeptide binding]; other site 640512002039 GSH binding site (G-site) [chemical binding]; other site 640512002040 dimer interface [polypeptide binding]; other site 640512002041 C-terminal, alpha helical domain of an unknown subfamily 4 of Glutathione S-transferases; Region: GST_C_4; cd03195 640512002042 putative substrate binding pocket (H-site) [chemical binding]; other site 640512002043 N-terminal domain interface [polypeptide binding]; other site 640512002044 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 640512002045 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 640512002046 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 640512002047 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 640512002048 putative C-terminal domain interface [polypeptide binding]; other site 640512002049 putative GSH binding site (G-site) [chemical binding]; other site 640512002050 putative dimer interface [polypeptide binding]; other site 640512002051 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 640512002052 putative N-terminal domain interface [polypeptide binding]; other site 640512002053 putative dimer interface [polypeptide binding]; other site 640512002054 putative substrate binding pocket (H-site) [chemical binding]; other site 640512002055 L-asparaginase II; Region: Asparaginase_II; pfam06089 640512002056 Transposase domain (DUF772); Region: DUF772; pfam05598 640512002057 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 640512002058 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 640512002059 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512002060 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512002061 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 640512002062 putative effector binding pocket; other site 640512002063 putative dimerization interface [polypeptide binding]; other site 640512002064 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 640512002065 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 640512002066 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 640512002067 active site 640512002068 catalytic tetrad [active] 640512002069 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 640512002070 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640512002071 NAD(P) binding site [chemical binding]; other site 640512002072 active site 640512002073 short chain dehydrogenase; Provisional; Region: PRK06940 640512002074 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640512002075 NAD(P) binding site [chemical binding]; other site 640512002076 active site 640512002077 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640512002078 NADH(P)-binding; Region: NAD_binding_10; pfam13460 640512002079 NAD(P) binding site [chemical binding]; other site 640512002080 active site 640512002081 short chain dehydrogenase; Provisional; Region: PRK06940 640512002082 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640512002083 NAD(P) binding site [chemical binding]; other site 640512002084 active site 640512002085 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 640512002086 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 640512002087 NAD(P) binding site [chemical binding]; other site 640512002088 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640512002089 MarR family; Region: MarR_2; pfam12802 640512002090 indole acetimide hydrolase; Validated; Region: PRK07488 640512002091 Amidase; Region: Amidase; pfam01425 640512002092 Domain of unknown function DUF302; Region: DUF302; pfam03625 640512002093 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640512002094 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 640512002095 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 640512002096 FMN binding site [chemical binding]; other site 640512002097 active site 640512002098 substrate binding site [chemical binding]; other site 640512002099 catalytic residue [active] 640512002100 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512002101 active site 640512002102 phosphorylation site [posttranslational modification] 640512002103 intermolecular recognition site; other site 640512002104 dimerization interface [polypeptide binding]; other site 640512002105 indole acetimide hydrolase; Validated; Region: PRK07488 640512002106 Amidase; Region: Amidase; cl11426 640512002107 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 640512002108 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 640512002109 dimerization interface [polypeptide binding]; other site 640512002110 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 640512002111 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640512002112 dimer interface [polypeptide binding]; other site 640512002113 putative CheW interface [polypeptide binding]; other site 640512002114 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640512002115 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 640512002116 trimer interface [polypeptide binding]; other site 640512002117 eyelet of channel; other site 640512002118 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 640512002119 Transcriptional regulators [Transcription]; Region: MarR; COG1846 640512002120 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 640512002121 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 640512002122 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640512002123 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 640512002124 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 640512002125 substrate binding site [chemical binding]; other site 640512002126 oxyanion hole (OAH) forming residues; other site 640512002127 trimer interface [polypeptide binding]; other site 640512002128 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 640512002129 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 640512002130 Na binding site [ion binding]; other site 640512002131 Protein of unknown function, DUF485; Region: DUF485; pfam04341 640512002132 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 640512002133 Domain of unknown function DUF302; Region: DUF302; pfam03625 640512002134 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 640512002135 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 640512002136 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 640512002137 putative acyltransferase; Provisional; Region: PRK05790 640512002138 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 640512002139 dimer interface [polypeptide binding]; other site 640512002140 active site 640512002141 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 640512002142 active site 640512002143 DNA binding site [nucleotide binding] 640512002144 Int/Topo IB signature motif; other site 640512002145 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 640512002146 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 640512002147 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 640512002148 Cupin domain; Region: Cupin_2; cl17218 640512002149 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 640512002150 active site 640512002151 metal binding site [ion binding]; metal-binding site 640512002152 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640512002153 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 640512002154 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 640512002155 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640512002156 Coenzyme A binding pocket [chemical binding]; other site 640512002157 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 640512002158 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 640512002159 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 640512002160 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640512002161 DNA-binding site [nucleotide binding]; DNA binding site 640512002162 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 640512002163 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640512002164 homodimer interface [polypeptide binding]; other site 640512002165 catalytic residue [active] 640512002166 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640512002167 NADH(P)-binding; Region: NAD_binding_10; pfam13460 640512002168 NAD(P) binding site [chemical binding]; other site 640512002169 active site 640512002170 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 640512002171 Uncharacterized conserved protein [Function unknown]; Region: COG2128 640512002172 LysR family transcriptional regulator; Provisional; Region: PRK14997 640512002173 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512002174 The 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 640512002175 dimerization interface [polypeptide binding]; other site 640512002176 Isochorismatase family; Region: Isochorismatase; pfam00857 640512002177 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 640512002178 catalytic triad [active] 640512002179 conserved cis-peptide bond; other site 640512002180 choline dehydrogenase; Validated; Region: PRK02106 640512002181 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 640512002182 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 640512002183 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 640512002184 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640512002185 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 640512002186 NAD(P) binding site [chemical binding]; other site 640512002187 active site 640512002188 transcriptional activator TtdR; Provisional; Region: PRK09801 640512002189 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512002190 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 640512002191 putative effector binding pocket; other site 640512002192 putative dimerization interface [polypeptide binding]; other site 640512002193 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 640512002194 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 640512002195 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 640512002196 substrate binding site [chemical binding]; other site 640512002197 ligand binding site [chemical binding]; other site 640512002198 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 640512002199 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 640512002200 substrate binding site [chemical binding]; other site 640512002201 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 640512002202 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 640512002203 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 640512002204 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 640512002205 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 640512002206 haemagglutination activity domain; Region: Haemagg_act; pfam05860 640512002207 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 640512002208 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 640512002209 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 640512002210 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 640512002211 Transposase, Mutator family; Region: Transposase_mut; pfam00872 640512002212 MULE transposase domain; Region: MULE; pfam10551 640512002213 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512002214 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512002215 LysR substrate binding domain; Region: LysR_substrate; pfam03466 640512002216 dimerization interface [polypeptide binding]; other site 640512002217 short chain dehydrogenase; Provisional; Region: PRK06500 640512002218 classical (c) SDRs; Region: SDR_c; cd05233 640512002219 NAD(P) binding site [chemical binding]; other site 640512002220 active site 640512002221 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 640512002222 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 640512002223 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 640512002224 oligomerisation interface [polypeptide binding]; other site 640512002225 mobile loop; other site 640512002226 roof hairpin; other site 640512002227 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 640512002228 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 640512002229 ring oligomerisation interface [polypeptide binding]; other site 640512002230 ATP/Mg binding site [chemical binding]; other site 640512002231 stacking interactions; other site 640512002232 hinge regions; other site 640512002233 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 640512002234 ligand-binding site [chemical binding]; other site 640512002235 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 640512002236 dimer interface [polypeptide binding]; other site 640512002237 substrate binding site [chemical binding]; other site 640512002238 ATP binding site [chemical binding]; other site 640512002239 Rubredoxin [Energy production and conversion]; Region: COG1773 640512002240 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 640512002241 iron binding site [ion binding]; other site 640512002242 hypothetical protein; Validated; Region: PRK00228 640512002243 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 640512002244 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 640512002245 active site 640512002246 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 640512002247 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 640512002248 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 640512002249 dihydroorotase; Provisional; Region: PRK07627 640512002250 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 640512002251 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 640512002252 active site 640512002253 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 640512002254 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 640512002255 putative acyl-acceptor binding pocket; other site 640512002256 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 640512002257 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 640512002258 active site 640512002259 metal binding site [ion binding]; metal-binding site 640512002260 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 640512002261 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 640512002262 NADP-binding site; other site 640512002263 homotetramer interface [polypeptide binding]; other site 640512002264 substrate binding site [chemical binding]; other site 640512002265 homodimer interface [polypeptide binding]; other site 640512002266 active site 640512002267 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 640512002268 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 640512002269 NAD binding site [chemical binding]; other site 640512002270 substrate binding site [chemical binding]; other site 640512002271 homodimer interface [polypeptide binding]; other site 640512002272 active site 640512002273 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 640512002274 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 640512002275 substrate binding site; other site 640512002276 tetramer interface; other site 640512002277 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 640512002278 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 640512002279 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 640512002280 NADP binding site [chemical binding]; other site 640512002281 active site 640512002282 putative substrate binding site [chemical binding]; other site 640512002283 RfbF is a putative dTDP-rhamnosyl transferase; Region: GT2_RfbF_like; cd02526 640512002284 L-rhamnosyltransferase; Region: rhamnosyltran; TIGR01556 640512002285 Ligand binding site; other site 640512002286 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 640512002287 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 640512002288 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 640512002289 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 640512002290 Walker A/P-loop; other site 640512002291 ATP binding site [chemical binding]; other site 640512002292 Q-loop/lid; other site 640512002293 ABC transporter signature motif; other site 640512002294 Walker B; other site 640512002295 D-loop; other site 640512002296 H-loop/switch region; other site 640512002297 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 640512002298 putative carbohydrate binding site [chemical binding]; other site 640512002299 Methyltransferase domain; Region: Methyltransf_23; pfam13489 640512002300 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 640512002301 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 640512002302 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 640512002303 putative trimer interface [polypeptide binding]; other site 640512002304 putative CoA binding site [chemical binding]; other site 640512002305 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 640512002306 WxcM-like, C-terminal; Region: FdtA; pfam05523 640512002307 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 640512002308 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 640512002309 inhibitor-cofactor binding pocket; inhibition site 640512002310 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640512002311 catalytic residue [active] 640512002312 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640512002313 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 640512002314 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 640512002315 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 640512002316 S-adenosylmethionine binding site [chemical binding]; other site 640512002317 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 640512002318 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 640512002319 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 640512002320 glycosyltransferase, TIGR04182 family; Region: glyco_TIGR04182 640512002321 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 640512002322 Ligand binding site; other site 640512002323 Putative Catalytic site; other site 640512002324 DXD motif; other site 640512002325 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 640512002326 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 640512002327 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 640512002328 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640512002329 NAD(P) binding site [chemical binding]; other site 640512002330 active site 640512002331 Myxococcus xanthus RfbC like proteins are required for O-antigen biosynthesis; Region: GT2_RfbC_Mx_like; cd04184 640512002332 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 640512002333 Probable Catalytic site; other site 640512002334 metal-binding site 640512002335 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 640512002336 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 640512002337 Probable Catalytic site; other site 640512002338 metal-binding site 640512002339 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 640512002340 Ligand binding site; other site 640512002341 Putative Catalytic site; other site 640512002342 DXD motif; other site 640512002343 Predicted membrane protein [Function unknown]; Region: COG2246 640512002344 GtrA-like protein; Region: GtrA; pfam04138 640512002345 Predicted membrane protein [Function unknown]; Region: COG2246 640512002346 GtrA-like protein; Region: GtrA; pfam04138 640512002347 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 640512002348 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 640512002349 Substrate binding site; other site 640512002350 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 640512002351 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 640512002352 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 640512002353 active site 640512002354 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 640512002355 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 640512002356 UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs; Region: UDP_G4E_4_SDR_e; cd05232 640512002357 putative NAD(P) binding site [chemical binding]; other site 640512002358 active site 640512002359 putative substrate binding site [chemical binding]; other site 640512002360 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 640512002361 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 640512002362 Mg++ binding site [ion binding]; other site 640512002363 putative catalytic motif [active] 640512002364 putative substrate binding site [chemical binding]; other site 640512002365 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 640512002366 CoA binding domain; Region: CoA_binding; cl17356 640512002367 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 640512002368 NAD(P) binding site [chemical binding]; other site 640512002369 homodimer interface [polypeptide binding]; other site 640512002370 substrate binding site [chemical binding]; other site 640512002371 active site 640512002372 Acyltransferase family; Region: Acyl_transf_3; pfam01757 640512002373 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 640512002374 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 640512002375 Transposase; Region: HTH_Tnp_1; pfam01527 640512002376 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 640512002377 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 640512002378 PRTRC system protein D; Region: PRTRC_D; TIGR03739 640512002379 Mg binding site [ion binding]; other site 640512002380 nucleotide binding site [chemical binding]; other site 640512002381 putative protofilament interface [polypeptide binding]; other site 640512002382 Phage integrase, N-terminal; Region: Integrase_l_N; pfam12834 640512002383 Integrase; Region: Integrase_1; pfam12835 640512002384 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 640512002385 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 640512002386 Mg++ binding site [ion binding]; other site 640512002387 putative catalytic motif [active] 640512002388 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 640512002389 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 640512002390 dimerization interface [polypeptide binding]; other site 640512002391 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640512002392 dimer interface [polypeptide binding]; other site 640512002393 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 640512002394 putative CheW interface [polypeptide binding]; other site 640512002395 UDP-glucose 4-epimerase; Region: PLN02240 640512002396 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 640512002397 NAD binding site [chemical binding]; other site 640512002398 homodimer interface [polypeptide binding]; other site 640512002399 active site 640512002400 substrate binding site [chemical binding]; other site 640512002401 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 640512002402 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640512002403 putative ADP-binding pocket [chemical binding]; other site 640512002404 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 640512002405 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 640512002406 active site 640512002407 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 640512002408 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 640512002409 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 640512002410 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 640512002411 active site 640512002412 substrate binding site [chemical binding]; other site 640512002413 metal binding site [ion binding]; metal-binding site 640512002414 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 640512002415 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 640512002416 putative active site [active] 640512002417 3-deoxy-D-manno-oct-2-ulosonic acid (Kdo) hydroxylase; Region: Kdo_hydroxy; pfam11004 640512002418 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 640512002419 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 640512002420 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 640512002421 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 640512002422 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 640512002423 UreF; Region: UreF; pfam01730 640512002424 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 640512002425 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 640512002426 dimer interface [polypeptide binding]; other site 640512002427 catalytic residues [active] 640512002428 urease subunit alpha; Reviewed; Region: ureC; PRK13207 640512002429 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 640512002430 subunit interactions [polypeptide binding]; other site 640512002431 active site 640512002432 flap region; other site 640512002433 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 640512002434 gamma-beta subunit interface [polypeptide binding]; other site 640512002435 alpha-beta subunit interface [polypeptide binding]; other site 640512002436 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 640512002437 alpha-gamma subunit interface [polypeptide binding]; other site 640512002438 beta-gamma subunit interface [polypeptide binding]; other site 640512002439 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 640512002440 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 640512002441 substrate binding pocket [chemical binding]; other site 640512002442 membrane-bound complex binding site; other site 640512002443 hinge residues; other site 640512002444 UreD urease accessory protein; Region: UreD; cl00530 640512002445 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 640512002446 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 640512002447 Walker A/P-loop; other site 640512002448 ATP binding site [chemical binding]; other site 640512002449 Q-loop/lid; other site 640512002450 ABC transporter signature motif; other site 640512002451 Walker B; other site 640512002452 D-loop; other site 640512002453 H-loop/switch region; other site 640512002454 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 640512002455 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 640512002456 Walker A/P-loop; other site 640512002457 ATP binding site [chemical binding]; other site 640512002458 Q-loop/lid; other site 640512002459 ABC transporter signature motif; other site 640512002460 Walker B; other site 640512002461 D-loop; other site 640512002462 H-loop/switch region; other site 640512002463 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 640512002464 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 640512002465 TM-ABC transporter signature motif; other site 640512002466 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 640512002467 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640512002468 TM-ABC transporter signature motif; other site 640512002469 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 640512002470 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 640512002471 putative ligand binding site [chemical binding]; other site 640512002472 Protein of unknown function (DUF3443); Region: DUF3443; pfam11925 640512002473 Protein of unknown function (DUF2844); Region: DUF2844; pfam11005 640512002474 Protein of unknown function (DUF3443); Region: DUF3443; pfam11925 640512002475 Protein of unknown function (DUF2844); Region: DUF2844; pfam11005 640512002476 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 640512002477 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 640512002478 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 640512002479 active site residue [active] 640512002480 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 640512002481 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 640512002482 S-adenosylmethionine binding site [chemical binding]; other site 640512002483 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640512002484 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640512002485 DNA binding site [nucleotide binding] 640512002486 domain linker motif; other site 640512002487 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 640512002488 dimerization interface [polypeptide binding]; other site 640512002489 ligand binding site [chemical binding]; other site 640512002490 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 640512002491 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 640512002492 Walker A/P-loop; other site 640512002493 ATP binding site [chemical binding]; other site 640512002494 Q-loop/lid; other site 640512002495 ABC transporter signature motif; other site 640512002496 Walker B; other site 640512002497 D-loop; other site 640512002498 H-loop/switch region; other site 640512002499 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 640512002500 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640512002501 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 640512002502 TM-ABC transporter signature motif; other site 640512002503 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 640512002504 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_3; cd06311 640512002505 putative ligand binding site [chemical binding]; other site 640512002506 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 640512002507 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 640512002508 Metal-binding active site; metal-binding site 640512002509 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 640512002510 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 640512002511 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 640512002512 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 640512002513 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 640512002514 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 640512002515 putative ligand binding site [chemical binding]; other site 640512002516 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12684 640512002517 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512002518 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 640512002519 substrate binding site [chemical binding]; other site 640512002520 dimerization interface [polypeptide binding]; other site 640512002521 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 640512002522 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 640512002523 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 640512002524 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 640512002525 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 640512002526 Active Sites [active] 640512002527 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 640512002528 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 640512002529 Active Sites [active] 640512002530 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 640512002531 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 640512002532 CysD dimerization site [polypeptide binding]; other site 640512002533 G1 box; other site 640512002534 putative GEF interaction site [polypeptide binding]; other site 640512002535 GTP/Mg2+ binding site [chemical binding]; other site 640512002536 Switch I region; other site 640512002537 G2 box; other site 640512002538 G3 box; other site 640512002539 Switch II region; other site 640512002540 G4 box; other site 640512002541 G5 box; other site 640512002542 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 640512002543 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 640512002544 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 640512002545 active site 640512002546 SAM binding site [chemical binding]; other site 640512002547 homodimer interface [polypeptide binding]; other site 640512002548 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 640512002549 putative active site [active] 640512002550 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 640512002551 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 640512002552 Predicted permeases [General function prediction only]; Region: COG0795 640512002553 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 640512002554 multifunctional aminopeptidase A; Provisional; Region: PRK00913 640512002555 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 640512002556 interface (dimer of trimers) [polypeptide binding]; other site 640512002557 Substrate-binding/catalytic site; other site 640512002558 Zn-binding sites [ion binding]; other site 640512002559 DNA polymerase III subunit chi; Validated; Region: PRK05728 640512002560 Protein of unknown function (DUF2486); Region: DUF2486; pfam10667 640512002561 Cytochrome c; Region: Cytochrom_C; cl11414 640512002562 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640512002563 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 640512002564 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 640512002565 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512002566 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 640512002567 putative dimerization interface [polypeptide binding]; other site 640512002568 putative substrate binding pocket [chemical binding]; other site 640512002569 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 640512002570 Protein of unknown function (DUF541); Region: SIMPL; cl01077 640512002571 Uncharacterized conserved protein [Function unknown]; Region: COG2947 640512002572 Cell division protein ZapA; Region: ZapA; pfam05164 640512002573 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 640512002574 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 640512002575 N-terminal plug; other site 640512002576 ligand-binding site [chemical binding]; other site 640512002577 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 640512002578 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 640512002579 ABC-ATPase subunit interface; other site 640512002580 dimer interface [polypeptide binding]; other site 640512002581 putative PBP binding regions; other site 640512002582 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 640512002583 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 640512002584 Walker A/P-loop; other site 640512002585 ATP binding site [chemical binding]; other site 640512002586 Q-loop/lid; other site 640512002587 ABC transporter signature motif; other site 640512002588 Walker B; other site 640512002589 D-loop; other site 640512002590 H-loop/switch region; other site 640512002591 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 640512002592 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 640512002593 putative dimer interface [polypeptide binding]; other site 640512002594 active site pocket [active] 640512002595 putative cataytic base [active] 640512002596 cobalamin synthase; Reviewed; Region: cobS; PRK00235 640512002597 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 640512002598 catalytic core [active] 640512002599 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 640512002600 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 640512002601 cobalamin binding residues [chemical binding]; other site 640512002602 putative BtuC binding residues; other site 640512002603 dimer interface [polypeptide binding]; other site 640512002604 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 640512002605 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 640512002606 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640512002607 homodimer interface [polypeptide binding]; other site 640512002608 catalytic residue [active] 640512002609 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 640512002610 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 640512002611 homotrimer interface [polypeptide binding]; other site 640512002612 Walker A motif; other site 640512002613 GTP binding site [chemical binding]; other site 640512002614 Walker B motif; other site 640512002615 cobyric acid synthase; Provisional; Region: PRK00784 640512002616 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 640512002617 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 640512002618 catalytic triad [active] 640512002619 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 640512002620 CoenzymeA binding site [chemical binding]; other site 640512002621 subunit interaction site [polypeptide binding]; other site 640512002622 PHB binding site; other site 640512002623 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 640512002624 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 640512002625 P-loop; other site 640512002626 Magnesium ion binding site [ion binding]; other site 640512002627 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 640512002628 tetramerization interface [polypeptide binding]; other site 640512002629 active site 640512002630 pantoate--beta-alanine ligase; Region: panC; TIGR00018 640512002631 Pantoate-beta-alanine ligase; Region: PanC; cd00560 640512002632 active site 640512002633 ATP-binding site [chemical binding]; other site 640512002634 pantoate-binding site; other site 640512002635 HXXH motif; other site 640512002636 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 640512002637 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 640512002638 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 640512002639 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 640512002640 Surface antigen; Region: Bac_surface_Ag; pfam01103 640512002641 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 640512002642 Family of unknown function (DUF490); Region: DUF490; pfam04357 640512002643 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 640512002644 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 640512002645 active site 640512002646 HIGH motif; other site 640512002647 KMSKS motif; other site 640512002648 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 640512002649 tRNA binding surface [nucleotide binding]; other site 640512002650 anticodon binding site; other site 640512002651 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 640512002652 dimer interface [polypeptide binding]; other site 640512002653 putative tRNA-binding site [nucleotide binding]; other site 640512002654 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 640512002655 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640512002656 ligand binding site [chemical binding]; other site 640512002657 Domain of unknown function DUF59; Region: DUF59; pfam01883 640512002658 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 640512002659 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 640512002660 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 640512002661 Copper/zinc superoxide dismutase (SODC); Region: Sod_Cu; pfam00080 640512002662 E-class dimer interface [polypeptide binding]; other site 640512002663 P-class dimer interface [polypeptide binding]; other site 640512002664 active site 640512002665 Cu2+ binding site [ion binding]; other site 640512002666 Zn2+ binding site [ion binding]; other site 640512002667 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 640512002668 trimer interface [polypeptide binding]; other site 640512002669 active site 640512002670 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 640512002671 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 640512002672 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 640512002673 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640512002674 catalytic residue [active] 640512002675 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 640512002676 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 640512002677 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 640512002678 bifunctional glucokinase/RpiR family transcriptional regulator; Provisional; Region: PRK14101 640512002679 glucokinase; Provisional; Region: glk; PRK00292 640512002680 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 640512002681 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 640512002682 putative active site [active] 640512002683 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 640512002684 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 640512002685 putative active site [active] 640512002686 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 640512002687 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 640512002688 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 640512002689 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 640512002690 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 640512002691 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 640512002692 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512002693 putative PBP binding loops; other site 640512002694 ABC-ATPase subunit interface; other site 640512002695 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 640512002696 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512002697 dimer interface [polypeptide binding]; other site 640512002698 conserved gate region; other site 640512002699 putative PBP binding loops; other site 640512002700 ABC-ATPase subunit interface; other site 640512002701 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 640512002702 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 640512002703 Walker A/P-loop; other site 640512002704 ATP binding site [chemical binding]; other site 640512002705 Q-loop/lid; other site 640512002706 ABC transporter signature motif; other site 640512002707 Walker B; other site 640512002708 D-loop; other site 640512002709 H-loop/switch region; other site 640512002710 transcriptional regulator; Provisional; Region: PRK10632 640512002711 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512002712 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 640512002713 putative effector binding pocket; other site 640512002714 putative dimerization interface [polypeptide binding]; other site 640512002715 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 640512002716 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 640512002717 C-terminal domain interface [polypeptide binding]; other site 640512002718 GSH binding site (G-site) [chemical binding]; other site 640512002719 dimer interface [polypeptide binding]; other site 640512002720 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 640512002721 N-terminal domain interface [polypeptide binding]; other site 640512002722 dimer interface [polypeptide binding]; other site 640512002723 substrate binding pocket (H-site) [chemical binding]; other site 640512002724 Predicted membrane protein [Function unknown]; Region: COG2860 640512002725 UPF0126 domain; Region: UPF0126; pfam03458 640512002726 UPF0126 domain; Region: UPF0126; pfam03458 640512002727 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 640512002728 Smr domain; Region: Smr; pfam01713 640512002729 thioredoxin reductase; Provisional; Region: PRK10262 640512002730 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 640512002731 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640512002732 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 640512002733 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 640512002734 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 640512002735 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 640512002736 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 640512002737 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512002738 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512002739 The 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 640512002740 dimerization interface [polypeptide binding]; other site 640512002741 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 640512002742 agmatinase; Region: agmatinase; TIGR01230 640512002743 oligomer interface [polypeptide binding]; other site 640512002744 putative active site [active] 640512002745 Mn binding site [ion binding]; other site 640512002746 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 640512002747 recombination factor protein RarA; Reviewed; Region: PRK13342 640512002748 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 640512002749 Walker A motif; other site 640512002750 ATP binding site [chemical binding]; other site 640512002751 Walker B motif; other site 640512002752 arginine finger; other site 640512002753 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 640512002754 seryl-tRNA synthetase; Provisional; Region: PRK05431 640512002755 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 640512002756 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 640512002757 dimer interface [polypeptide binding]; other site 640512002758 active site 640512002759 motif 1; other site 640512002760 motif 2; other site 640512002761 motif 3; other site 640512002762 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 640512002763 active site 640512002764 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640512002765 Coenzyme A binding pocket [chemical binding]; other site 640512002766 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 640512002767 septum formation inhibitor; Reviewed; Region: PRK01973 640512002768 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 640512002769 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 640512002770 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 640512002771 Switch I; other site 640512002772 Switch II; other site 640512002773 cell division topological specificity factor MinE; Provisional; Region: PRK13989 640512002774 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 640512002775 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 640512002776 putative ion selectivity filter; other site 640512002777 putative pore gating glutamate residue; other site 640512002778 putative H+/Cl- coupling transport residue; other site 640512002779 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 640512002780 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 640512002781 putative active site [active] 640512002782 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512002783 metabolite-proton symporter; Region: 2A0106; TIGR00883 640512002784 putative substrate translocation pore; other site 640512002785 Gram-negative bacterial tonB protein; Region: TonB; cl10048 640512002786 argininosuccinate lyase; Provisional; Region: PRK00855 640512002787 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 640512002788 active sites [active] 640512002789 tetramer interface [polypeptide binding]; other site 640512002790 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 640512002791 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 640512002792 sequence-specific DNA binding site [nucleotide binding]; other site 640512002793 salt bridge; other site 640512002794 Methyltransferase domain; Region: Methyltransf_31; pfam13847 640512002795 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 640512002796 S-adenosylmethionine binding site [chemical binding]; other site 640512002797 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 640512002798 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 640512002799 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 640512002800 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 640512002801 domain interfaces; other site 640512002802 active site 640512002803 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed; Region: PRK06975 640512002804 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 640512002805 active site 640512002806 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 640512002807 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 640512002808 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 640512002809 TPR motif; other site 640512002810 binding surface 640512002811 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 640512002812 salt bridge; other site 640512002813 non-specific DNA binding site [nucleotide binding]; other site 640512002814 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 640512002815 sequence-specific DNA binding site [nucleotide binding]; other site 640512002816 atypical (a) SDRs, subgroup 7; Region: SDR_a7; cd05262 640512002817 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 640512002818 putative NAD(P) binding site [chemical binding]; other site 640512002819 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 640512002820 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512002821 putative substrate translocation pore; other site 640512002822 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR), subgroup 3, classical (c) SDR; Region: BKR_3_SDR_c; cd05345 640512002823 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 640512002824 putative NAD(P) binding site [chemical binding]; other site 640512002825 active site 640512002826 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640512002827 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 640512002828 NAD(P) binding site [chemical binding]; other site 640512002829 catalytic residues [active] 640512002830 catalytic residues [active] 640512002831 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 640512002832 dimer interface [polypeptide binding]; other site 640512002833 substrate binding site [chemical binding]; other site 640512002834 metal binding sites [ion binding]; metal-binding site 640512002835 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 640512002836 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 640512002837 GIY-YIG motif/motif A; other site 640512002838 putative active site [active] 640512002839 putative metal binding site [ion binding]; other site 640512002840 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 640512002841 Protein of unknown function, DUF482; Region: DUF482; pfam04339 640512002842 NAD synthetase; Provisional; Region: PRK13981 640512002843 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 640512002844 multimer interface [polypeptide binding]; other site 640512002845 active site 640512002846 catalytic triad [active] 640512002847 protein interface 1 [polypeptide binding]; other site 640512002848 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 640512002849 homodimer interface [polypeptide binding]; other site 640512002850 NAD binding pocket [chemical binding]; other site 640512002851 ATP binding pocket [chemical binding]; other site 640512002852 Mg binding site [ion binding]; other site 640512002853 active-site loop [active] 640512002854 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 640512002855 Nitrogen regulatory protein P-II; Region: P-II; smart00938 640512002856 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640512002857 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 640512002858 trimer interface [polypeptide binding]; other site 640512002859 eyelet of channel; other site 640512002860 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 640512002861 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 640512002862 Walker A/P-loop; other site 640512002863 ATP binding site [chemical binding]; other site 640512002864 Q-loop/lid; other site 640512002865 ABC transporter signature motif; other site 640512002866 Walker B; other site 640512002867 D-loop; other site 640512002868 H-loop/switch region; other site 640512002869 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640512002870 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512002871 dimer interface [polypeptide binding]; other site 640512002872 conserved gate region; other site 640512002873 putative PBP binding loops; other site 640512002874 ABC-ATPase subunit interface; other site 640512002875 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640512002876 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512002877 dimer interface [polypeptide binding]; other site 640512002878 conserved gate region; other site 640512002879 putative PBP binding loops; other site 640512002880 ABC-ATPase subunit interface; other site 640512002881 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional; Region: PRK15010 640512002882 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 640512002883 substrate binding pocket [chemical binding]; other site 640512002884 membrane-bound complex binding site; other site 640512002885 hinge residues; other site 640512002886 Pirin-related protein [General function prediction only]; Region: COG1741 640512002887 Pirin; Region: Pirin; pfam02678 640512002888 Heavy-metal resistance; Region: Metal_resist; pfam13801 640512002889 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 640512002890 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512002891 active site 640512002892 phosphorylation site [posttranslational modification] 640512002893 intermolecular recognition site; other site 640512002894 dimerization interface [polypeptide binding]; other site 640512002895 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 640512002896 DNA binding site [nucleotide binding] 640512002897 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 640512002898 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 640512002899 dimer interface [polypeptide binding]; other site 640512002900 phosphorylation site [posttranslational modification] 640512002901 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512002902 ATP binding site [chemical binding]; other site 640512002903 Mg2+ binding site [ion binding]; other site 640512002904 G-X-G motif; other site 640512002905 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 640512002906 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640512002907 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640512002908 metal binding site [ion binding]; metal-binding site 640512002909 active site 640512002910 I-site; other site 640512002911 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 640512002912 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512002913 dimer interface [polypeptide binding]; other site 640512002914 conserved gate region; other site 640512002915 putative PBP binding loops; other site 640512002916 ABC-ATPase subunit interface; other site 640512002917 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512002918 dimer interface [polypeptide binding]; other site 640512002919 conserved gate region; other site 640512002920 putative PBP binding loops; other site 640512002921 ABC-ATPase subunit interface; other site 640512002922 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 640512002923 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 640512002924 Walker A/P-loop; other site 640512002925 ATP binding site [chemical binding]; other site 640512002926 Q-loop/lid; other site 640512002927 ABC transporter signature motif; other site 640512002928 Walker B; other site 640512002929 D-loop; other site 640512002930 H-loop/switch region; other site 640512002931 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; pfam09821 640512002932 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 640512002933 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 640512002934 Walker A motif; other site 640512002935 ATP binding site [chemical binding]; other site 640512002936 Walker B motif; other site 640512002937 arginine finger; other site 640512002938 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 640512002939 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 640512002940 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 640512002941 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512002942 active site 640512002943 phosphorylation site [posttranslational modification] 640512002944 intermolecular recognition site; other site 640512002945 dimerization interface [polypeptide binding]; other site 640512002946 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 640512002947 Walker A motif; other site 640512002948 ATP binding site [chemical binding]; other site 640512002949 Walker B motif; other site 640512002950 arginine finger; other site 640512002951 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 640512002952 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 640512002953 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 640512002954 active site 640512002955 homotetramer interface [polypeptide binding]; other site 640512002956 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512002957 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640512002958 putative substrate translocation pore; other site 640512002959 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 640512002960 substrate binding site [chemical binding]; other site 640512002961 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 640512002962 additional DNA contacts [nucleotide binding]; other site 640512002963 mismatch recognition site; other site 640512002964 active site 640512002965 zinc binding site [ion binding]; other site 640512002966 DNA intercalation site [nucleotide binding]; other site 640512002967 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 640512002968 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512002969 The 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 640512002970 dimerization interface [polypeptide binding]; other site 640512002971 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512002972 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512002973 The 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 640512002974 dimerization interface [polypeptide binding]; other site 640512002975 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512002976 dimer interface [polypeptide binding]; other site 640512002977 conserved gate region; other site 640512002978 putative PBP binding loops; other site 640512002979 ABC-ATPase subunit interface; other site 640512002980 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640512002981 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512002982 dimer interface [polypeptide binding]; other site 640512002983 conserved gate region; other site 640512002984 putative PBP binding loops; other site 640512002985 ABC-ATPase subunit interface; other site 640512002986 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 640512002987 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 640512002988 substrate binding pocket [chemical binding]; other site 640512002989 membrane-bound complex binding site; other site 640512002990 hinge residues; other site 640512002991 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 640512002992 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512002993 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 640512002994 putative dimerization interface [polypeptide binding]; other site 640512002995 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640512002996 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 640512002997 Homeodomain-like domain; Region: HTH_23; pfam13384 640512002998 DNA cytosine methylase; Provisional; Region: PRK10458 640512002999 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 640512003000 cofactor binding site; other site 640512003001 DNA binding site [nucleotide binding] 640512003002 substrate interaction site [chemical binding]; other site 640512003003 CsbD-like; Region: CsbD; pfam05532 640512003004 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 640512003005 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 640512003006 C-terminal domain interface [polypeptide binding]; other site 640512003007 GSH binding site (G-site) [chemical binding]; other site 640512003008 dimer interface [polypeptide binding]; other site 640512003009 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 640512003010 dimer interface [polypeptide binding]; other site 640512003011 N-terminal domain interface [polypeptide binding]; other site 640512003012 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 640512003013 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 640512003014 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 640512003015 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 640512003016 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 640512003017 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 640512003018 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 640512003019 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 640512003020 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 640512003021 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 640512003022 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 640512003023 Predicted periplasmic lipoprotein (DUF2279); Region: DUF2279; pfam10043 640512003024 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 640512003025 Rubredoxin; Region: Rubredoxin; pfam00301 640512003026 iron binding site [ion binding]; other site 640512003027 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 640512003028 ABC transporter ATPase component; Reviewed; Region: PRK11147 640512003029 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640512003030 Walker A/P-loop; other site 640512003031 ATP binding site [chemical binding]; other site 640512003032 Q-loop/lid; other site 640512003033 ABC transporter signature motif; other site 640512003034 Walker B; other site 640512003035 D-loop; other site 640512003036 H-loop/switch region; other site 640512003037 ABC transporter; Region: ABC_tran_2; pfam12848 640512003038 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 640512003039 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 640512003040 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512003041 ATP binding site [chemical binding]; other site 640512003042 Mg2+ binding site [ion binding]; other site 640512003043 G-X-G motif; other site 640512003044 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 640512003045 anchoring element; other site 640512003046 dimer interface [polypeptide binding]; other site 640512003047 ATP binding site [chemical binding]; other site 640512003048 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 640512003049 active site 640512003050 metal binding site [ion binding]; metal-binding site 640512003051 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 640512003052 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 640512003053 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 640512003054 CAP-like domain; other site 640512003055 active site 640512003056 primary dimer interface [polypeptide binding]; other site 640512003057 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 640512003058 Predicted integral membrane protein [Function unknown]; Region: COG5615 640512003059 Chromate transporter; Region: Chromate_transp; pfam02417 640512003060 Chromate transporter; Region: Chromate_transp; pfam02417 640512003061 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640512003062 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640512003063 metal binding site [ion binding]; metal-binding site 640512003064 active site 640512003065 I-site; other site 640512003066 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 640512003067 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 640512003068 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 640512003069 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 640512003070 homotrimer interaction site [polypeptide binding]; other site 640512003071 putative active site [active] 640512003072 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 640512003073 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 640512003074 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640512003075 homodimer interface [polypeptide binding]; other site 640512003076 catalytic residue [active] 640512003077 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 640512003078 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 640512003079 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640512003080 DNA-binding site [nucleotide binding]; DNA binding site 640512003081 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 640512003082 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640512003083 homodimer interface [polypeptide binding]; other site 640512003084 catalytic residue [active] 640512003085 heat shock protein 90; Provisional; Region: PRK05218 640512003086 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512003087 ATP binding site [chemical binding]; other site 640512003088 Mg2+ binding site [ion binding]; other site 640512003089 G-X-G motif; other site 640512003090 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 640512003091 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 640512003092 binding surface 640512003093 TPR motif; other site 640512003094 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 640512003095 TPR repeat; Region: TPR_11; pfam13414 640512003096 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 640512003097 binding surface 640512003098 TPR motif; other site 640512003099 TPR repeat; Region: TPR_11; pfam13414 640512003100 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 640512003101 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 640512003102 putative outer membrane lipoprotein; Provisional; Region: PRK09967 640512003103 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640512003104 ligand binding site [chemical binding]; other site 640512003105 Chorismate lyase; Region: Chor_lyase; cl01230 640512003106 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 640512003107 putative active site [active] 640512003108 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 640512003109 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 640512003110 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 640512003111 Na binding site [ion binding]; other site 640512003112 Predicted membrane protein [Function unknown]; Region: COG1289 640512003113 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 640512003114 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 640512003115 dimer interface [polypeptide binding]; other site 640512003116 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640512003117 transaldolase-like protein; Provisional; Region: PTZ00411 640512003118 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 640512003119 active site 640512003120 dimer interface [polypeptide binding]; other site 640512003121 catalytic residue [active] 640512003122 Benzoate membrane transport protein; Region: BenE; pfam03594 640512003123 benzoate transporter; Region: benE; TIGR00843 640512003124 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 640512003125 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 640512003126 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 640512003127 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 640512003128 Walker A motif; other site 640512003129 ATP binding site [chemical binding]; other site 640512003130 Walker B motif; other site 640512003131 arginine finger; other site 640512003132 Cytochrome c; Region: Cytochrom_C; cl11414 640512003133 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640512003134 Cytochrome c553 [Energy production and conversion]; Region: COG2863 640512003135 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 640512003136 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 640512003137 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 640512003138 minor groove reading motif; other site 640512003139 helix-hairpin-helix signature motif; other site 640512003140 substrate binding pocket [chemical binding]; other site 640512003141 active site 640512003142 ferredoxin; Provisional; Region: PRK06991 640512003143 Putative Fe-S cluster; Region: FeS; pfam04060 640512003144 4Fe-4S binding domain; Region: Fer4; pfam00037 640512003145 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 640512003146 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640512003147 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 640512003148 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 640512003149 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 640512003150 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 640512003151 Protein of unknown function (DUF3096); Region: DUF3096; pfam11295 640512003152 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 640512003153 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 640512003154 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 640512003155 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 640512003156 META domain; Region: META; pfam03724 640512003157 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 640512003158 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 640512003159 NAD binding site [chemical binding]; other site 640512003160 ATP-grasp domain; Region: ATP-grasp; pfam02222 640512003161 Predicted periplasmic protein [General function prediction only]; Region: COG3895 640512003162 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 640512003163 acetolactate synthase; Reviewed; Region: PRK08322 640512003164 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 640512003165 PYR/PP interface [polypeptide binding]; other site 640512003166 dimer interface [polypeptide binding]; other site 640512003167 TPP binding site [chemical binding]; other site 640512003168 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 640512003169 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 640512003170 TPP-binding site [chemical binding]; other site 640512003171 dimer interface [polypeptide binding]; other site 640512003172 Aldehyde dehydrogenase family 21A1-like; Region: ALDH_F21_RNP123; cd07147 640512003173 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640512003174 NAD(P) binding site [chemical binding]; other site 640512003175 catalytic residues [active] 640512003176 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 640512003177 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 640512003178 ATP binding site [chemical binding]; other site 640512003179 Mg++ binding site [ion binding]; other site 640512003180 motif III; other site 640512003181 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 640512003182 nucleotide binding region [chemical binding]; other site 640512003183 ATP-binding site [chemical binding]; other site 640512003184 glutamyl-queuosine tRNA(Asp) synthetase; Region: queuosine_YadB; TIGR03838 640512003185 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 640512003186 active site 640512003187 HIGH motif; other site 640512003188 nucleotide binding site [chemical binding]; other site 640512003189 active site 640512003190 KMSKS motif; other site 640512003191 rhodanese superfamily protein; Provisional; Region: PRK05320 640512003192 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 640512003193 active site residue [active] 640512003194 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 640512003195 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 640512003196 putative active site [active] 640512003197 putative PHP Thumb interface [polypeptide binding]; other site 640512003198 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 640512003199 generic binding surface II; other site 640512003200 generic binding surface I; other site 640512003201 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 640512003202 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 640512003203 putative metal binding site; other site 640512003204 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 640512003205 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 640512003206 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 640512003207 Walker A/P-loop; other site 640512003208 ATP binding site [chemical binding]; other site 640512003209 Q-loop/lid; other site 640512003210 ABC transporter signature motif; other site 640512003211 Walker B; other site 640512003212 D-loop; other site 640512003213 H-loop/switch region; other site 640512003214 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 640512003215 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 640512003216 active site 640512003217 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 640512003218 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 640512003219 O-Antigen ligase; Region: Wzy_C; pfam04932 640512003220 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 640512003221 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 640512003222 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 640512003223 active site 640512003224 recombination associated protein; Reviewed; Region: rdgC; PRK00321 640512003225 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 640512003226 putative dimer interface [polypeptide binding]; other site 640512003227 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640512003228 NLPC_P60 stabilising domain, N term; Region: N_NLPC_P60; pfam12912 640512003229 SH3 domain of the SH3b1 type; Region: SH3_6; pfam12913 640512003230 SH3 domain of SH3b2 type; Region: SH3_7; pfam12914 640512003231 NlpC/P60 family; Region: NLPC_P60; cl17555 640512003232 molybdenum-pterin binding domain; Region: Mop; TIGR00638 640512003233 TOBE domain; Region: TOBE; cl01440 640512003234 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 640512003235 short chain dehydrogenase; Provisional; Region: PRK06180 640512003236 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 640512003237 NADP binding site [chemical binding]; other site 640512003238 active site 640512003239 steroid binding site; other site 640512003240 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 640512003241 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640512003242 NAD(P) binding site [chemical binding]; other site 640512003243 active site 640512003244 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 640512003245 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 640512003246 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512003247 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 640512003248 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 640512003249 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 640512003250 active site 640512003251 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 640512003252 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 640512003253 FAD binding site [chemical binding]; other site 640512003254 substrate binding site [chemical binding]; other site 640512003255 catalytic base [active] 640512003256 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 640512003257 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 640512003258 substrate binding site [chemical binding]; other site 640512003259 oxyanion hole (OAH) forming residues; other site 640512003260 trimer interface [polypeptide binding]; other site 640512003261 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 640512003262 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 640512003263 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512003264 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512003265 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 640512003266 putative effector binding pocket; other site 640512003267 dimerization interface [polypeptide binding]; other site 640512003268 Cache domain; Region: Cache_1; pfam02743 640512003269 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 640512003270 dimerization interface [polypeptide binding]; other site 640512003271 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640512003272 dimer interface [polypeptide binding]; other site 640512003273 putative CheW interface [polypeptide binding]; other site 640512003274 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 640512003275 Phosphoesterase family; Region: Phosphoesterase; pfam04185 640512003276 Domain of unknown function (DUF756); Region: DUF756; pfam05506 640512003277 Domain of unknown function (DUF756); Region: DUF756; pfam05506 640512003278 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640512003279 benzoate-CoA ligase family; Region: benz_CoA_lig; TIGR02262 640512003280 Benzoate CoA ligase (BCL) and 4-Hydroxybenzoate-Coenzyme A Ligase (4-HBA-CoA ligase); Region: BCL_4HBCL; cd05959 640512003281 dimer interface [polypeptide binding]; other site 640512003282 acyl-activating enzyme (AAE) consensus motif; other site 640512003283 putative active site [active] 640512003284 putative AMP binding site [chemical binding]; other site 640512003285 putative CoA binding site [chemical binding]; other site 640512003286 chemical substrate binding site [chemical binding]; other site 640512003287 aldehyde dehydrogenase; Provisional; Region: PRK11903 640512003288 N-terminal domain of the monoamine oxidase C dehydratase; Region: ALDH_MaoC-N; cd07128 640512003289 substrate binding site [chemical binding]; other site 640512003290 dimer interface [polypeptide binding]; other site 640512003291 NADP binding site [chemical binding]; other site 640512003292 catalytic residues [active] 640512003293 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 640512003294 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 640512003295 non-specific DNA binding site [nucleotide binding]; other site 640512003296 salt bridge; other site 640512003297 sequence-specific DNA binding site [nucleotide binding]; other site 640512003298 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 640512003299 Shikimate kinase; Region: SKI; pfam01202 640512003300 ADP binding site [chemical binding]; other site 640512003301 magnesium binding site [ion binding]; other site 640512003302 putative shikimate binding site; other site 640512003303 benzoyl-CoA-dihydrodiol lyase; Provisional; Region: PRK08184 640512003304 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 640512003305 substrate binding site [chemical binding]; other site 640512003306 oxyanion hole (OAH) forming residues; other site 640512003307 trimer interface [polypeptide binding]; other site 640512003308 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 640512003309 substrate binding site [chemical binding]; other site 640512003310 oxyanion hole (OAH) forming residues; other site 640512003311 trimer interface [polypeptide binding]; other site 640512003312 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 640512003313 benzoyl-CoA oxygenase/reductase, BoxA protein; Region: benzo_boxA; TIGR03224 640512003314 4Fe-4S binding domain; Region: Fer4; pfam00037 640512003315 4Fe-4S binding domain; Region: Fer4; pfam00037 640512003316 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 640512003317 dimerization interface [polypeptide binding]; other site 640512003318 FAD binding pocket [chemical binding]; other site 640512003319 FAD binding motif [chemical binding]; other site 640512003320 catalytic residues [active] 640512003321 NAD binding pocket [chemical binding]; other site 640512003322 phosphate binding motif [ion binding]; other site 640512003323 beta-alpha-beta structure motif; other site 640512003324 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 640512003325 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640512003326 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 640512003327 allantoate amidohydrolase; Reviewed; Region: PRK09290 640512003328 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 640512003329 active site 640512003330 metal binding site [ion binding]; metal-binding site 640512003331 dimer interface [polypeptide binding]; other site 640512003332 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 640512003333 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 640512003334 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 640512003335 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 640512003336 homodimer interface [polypeptide binding]; other site 640512003337 active site 640512003338 FMN binding site [chemical binding]; other site 640512003339 substrate binding site [chemical binding]; other site 640512003340 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 640512003341 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily, YbbW-like; solute-binding domain; Region: SLC-NCS1sbd_YbbW-like; cd11485 640512003342 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 640512003343 Na binding site [ion binding]; other site 640512003344 putative substrate binding site [chemical binding]; other site 640512003345 phenylhydantoinase; Validated; Region: PRK08323 640512003346 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 640512003347 tetramer interface [polypeptide binding]; other site 640512003348 active site 640512003349 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 640512003350 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 640512003351 substrate binding pocket [chemical binding]; other site 640512003352 membrane-bound complex binding site; other site 640512003353 hinge residues; other site 640512003354 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640512003355 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512003356 dimer interface [polypeptide binding]; other site 640512003357 conserved gate region; other site 640512003358 putative PBP binding loops; other site 640512003359 ABC-ATPase subunit interface; other site 640512003360 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 640512003361 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 640512003362 Walker A/P-loop; other site 640512003363 ATP binding site [chemical binding]; other site 640512003364 Q-loop/lid; other site 640512003365 ABC transporter signature motif; other site 640512003366 Walker B; other site 640512003367 D-loop; other site 640512003368 H-loop/switch region; other site 640512003369 2-isopropylmalate synthase; Validated; Region: PRK03739 640512003370 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 640512003371 active site 640512003372 catalytic residues [active] 640512003373 metal binding site [ion binding]; metal-binding site 640512003374 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 640512003375 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 640512003376 Protein of unknown function (DUF3443); Region: DUF3443; pfam11925 640512003377 Protein of unknown function (DUF2844); Region: DUF2844; pfam11005 640512003378 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 640512003379 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 640512003380 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 640512003381 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 640512003382 EamA-like transporter family; Region: EamA; pfam00892 640512003383 EamA-like transporter family; Region: EamA; pfam00892 640512003384 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 640512003385 L-lactate permease; Region: Lactate_perm; cl00701 640512003386 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 640512003387 ThiC-associated domain; Region: ThiC-associated; pfam13667 640512003388 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 640512003389 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 640512003390 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 640512003391 Protein of unknown function (DUF1223); Region: DUF1223; pfam06764 640512003392 Thiosulfate reductase cytochrome B subunit (membrane anchoring protein) [Energy production and conversion]; Region: COG4117 640512003393 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 640512003394 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 640512003395 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 640512003396 Moco binding site; other site 640512003397 metal coordination site [ion binding]; other site 640512003398 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 640512003399 EamA-like transporter family; Region: EamA; pfam00892 640512003400 EamA-like transporter family; Region: EamA; pfam00892 640512003401 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 640512003402 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 640512003403 active site 640512003404 FMN binding site [chemical binding]; other site 640512003405 2,4-decadienoyl-CoA binding site; other site 640512003406 catalytic residue [active] 640512003407 4Fe-4S cluster binding site [ion binding]; other site 640512003408 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 640512003409 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640512003410 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 640512003411 Entericidin EcnA/B family; Region: Entericidin; cl02322 640512003412 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 640512003413 Histidine kinase; Region: HisKA_3; pfam07730 640512003414 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512003415 ATP binding site [chemical binding]; other site 640512003416 Mg2+ binding site [ion binding]; other site 640512003417 G-X-G motif; other site 640512003418 Ferritin-like domain; Region: Ferritin; pfam00210 640512003419 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 640512003420 dinuclear metal binding motif [ion binding]; other site 640512003421 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640512003422 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512003423 active site 640512003424 phosphorylation site [posttranslational modification] 640512003425 intermolecular recognition site; other site 640512003426 dimerization interface [polypeptide binding]; other site 640512003427 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 640512003428 DNA binding residues [nucleotide binding] 640512003429 dimerization interface [polypeptide binding]; other site 640512003430 Response regulator receiver domain; Region: Response_reg; pfam00072 640512003431 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512003432 active site 640512003433 phosphorylation site [posttranslational modification] 640512003434 intermolecular recognition site; other site 640512003435 dimerization interface [polypeptide binding]; other site 640512003436 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 640512003437 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512003438 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 640512003439 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 640512003440 active site 640512003441 metal binding site [ion binding]; metal-binding site 640512003442 hexamer interface [polypeptide binding]; other site 640512003443 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 640512003444 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640512003445 Walker A/P-loop; other site 640512003446 ATP binding site [chemical binding]; other site 640512003447 Q-loop/lid; other site 640512003448 ABC transporter signature motif; other site 640512003449 Walker B; other site 640512003450 D-loop; other site 640512003451 H-loop/switch region; other site 640512003452 TOBE domain; Region: TOBE_2; pfam08402 640512003453 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 640512003454 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512003455 dimer interface [polypeptide binding]; other site 640512003456 conserved gate region; other site 640512003457 putative PBP binding loops; other site 640512003458 ABC-ATPase subunit interface; other site 640512003459 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 640512003460 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 640512003461 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 640512003462 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 640512003463 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640512003464 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640512003465 DNA binding site [nucleotide binding] 640512003466 domain linker motif; other site 640512003467 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 640512003468 putative dimerization interface [polypeptide binding]; other site 640512003469 putative ligand binding site [chemical binding]; other site 640512003470 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 640512003471 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 640512003472 Walker A/P-loop; other site 640512003473 ATP binding site [chemical binding]; other site 640512003474 Q-loop/lid; other site 640512003475 ABC transporter signature motif; other site 640512003476 Walker B; other site 640512003477 D-loop; other site 640512003478 H-loop/switch region; other site 640512003479 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 640512003480 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640512003481 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 640512003482 TM-ABC transporter signature motif; other site 640512003483 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 640512003484 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640512003485 putative ligand binding site [chemical binding]; other site 640512003486 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 640512003487 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 640512003488 putative active site pocket [active] 640512003489 metal binding site [ion binding]; metal-binding site 640512003490 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 640512003491 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 640512003492 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 640512003493 putative molybdopterin cofactor binding site [chemical binding]; other site 640512003494 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 640512003495 putative molybdopterin cofactor binding site; other site 640512003496 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 640512003497 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640512003498 DNA-binding site [nucleotide binding]; DNA binding site 640512003499 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 640512003500 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640512003501 homodimer interface [polypeptide binding]; other site 640512003502 catalytic residue [active] 640512003503 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 640512003504 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 640512003505 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 640512003506 GAF domain; Region: GAF; pfam01590 640512003507 PAS domain S-box; Region: sensory_box; TIGR00229 640512003508 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 640512003509 putative active site [active] 640512003510 heme pocket [chemical binding]; other site 640512003511 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640512003512 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640512003513 metal binding site [ion binding]; metal-binding site 640512003514 active site 640512003515 I-site; other site 640512003516 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 640512003517 mercuric reductase; Validated; Region: PRK06370 640512003518 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 640512003519 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640512003520 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 640512003521 Predicted integral membrane protein [Function unknown]; Region: COG3548 640512003522 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 640512003523 active site 640512003524 metal binding site [ion binding]; metal-binding site 640512003525 homotetramer interface [polypeptide binding]; other site 640512003526 proline/glycine betaine transporter; Provisional; Region: PRK10642 640512003527 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512003528 putative substrate translocation pore; other site 640512003529 oxidative damage protection protein; Provisional; Region: PRK05408 640512003530 N-acetylglutamate synthase; Validated; Region: PRK05279 640512003531 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 640512003532 putative feedback inhibition sensing region; other site 640512003533 putative nucleotide binding site [chemical binding]; other site 640512003534 putative substrate binding site [chemical binding]; other site 640512003535 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640512003536 Coenzyme A binding pocket [chemical binding]; other site 640512003537 HrpA-like helicases [DNA replication, recombination, and repair]; Region: HrpA; COG1643 640512003538 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 640512003539 ATP binding site [chemical binding]; other site 640512003540 putative Mg++ binding site [ion binding]; other site 640512003541 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 640512003542 nucleotide binding region [chemical binding]; other site 640512003543 ATP-binding site [chemical binding]; other site 640512003544 Helicase associated domain (HA2); Region: HA2; pfam04408 640512003545 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 640512003546 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 640512003547 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 640512003548 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 640512003549 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 640512003550 trimer interface [polypeptide binding]; other site 640512003551 Haemagglutinin; Region: HIM; pfam05662 640512003552 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 640512003553 Haemagglutinin; Region: HIM; pfam05662 640512003554 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 640512003555 trimer interface [polypeptide binding]; other site 640512003556 Haemagglutinin; Region: HIM; pfam05662 640512003557 YadA-like C-terminal region; Region: YadA; pfam03895 640512003558 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 640512003559 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 640512003560 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 640512003561 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 640512003562 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 640512003563 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 640512003564 putative MPT binding site; other site 640512003565 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 640512003566 active site residue [active] 640512003567 glutamine synthetase; Provisional; Region: glnA; PRK09469 640512003568 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 640512003569 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 640512003570 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 640512003571 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 640512003572 dimer interface [polypeptide binding]; other site 640512003573 phosphorylation site [posttranslational modification] 640512003574 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512003575 ATP binding site [chemical binding]; other site 640512003576 Mg2+ binding site [ion binding]; other site 640512003577 G-X-G motif; other site 640512003578 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 640512003579 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512003580 active site 640512003581 phosphorylation site [posttranslational modification] 640512003582 intermolecular recognition site; other site 640512003583 dimerization interface [polypeptide binding]; other site 640512003584 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 640512003585 Walker A motif; other site 640512003586 ATP binding site [chemical binding]; other site 640512003587 Walker B motif; other site 640512003588 arginine finger; other site 640512003589 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 640512003590 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 640512003591 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 640512003592 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 640512003593 putative catalytic site [active] 640512003594 putative phosphate binding site [ion binding]; other site 640512003595 active site 640512003596 metal binding site A [ion binding]; metal-binding site 640512003597 DNA binding site [nucleotide binding] 640512003598 putative AP binding site [nucleotide binding]; other site 640512003599 putative metal binding site B [ion binding]; other site 640512003600 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 640512003601 aspartate racemase; Region: asp_race; TIGR00035 640512003602 cytosine deaminase; Validated; Region: PRK07572 640512003603 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 640512003604 active site 640512003605 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 640512003606 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 640512003607 active site 640512003608 Zn binding site [ion binding]; other site 640512003609 Acyltransferase family; Region: Acyl_transf_3; pfam01757 640512003610 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14189 640512003611 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 640512003612 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 640512003613 homodimer interface [polypeptide binding]; other site 640512003614 NADP binding site [chemical binding]; other site 640512003615 substrate binding site [chemical binding]; other site 640512003616 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 640512003617 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512003618 active site 640512003619 phosphorylation site [posttranslational modification] 640512003620 intermolecular recognition site; other site 640512003621 dimerization interface [polypeptide binding]; other site 640512003622 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 640512003623 DNA binding residues [nucleotide binding] 640512003624 dimerization interface [polypeptide binding]; other site 640512003625 PAS domain S-box; Region: sensory_box; TIGR00229 640512003626 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 640512003627 putative active site [active] 640512003628 heme pocket [chemical binding]; other site 640512003629 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 640512003630 dimer interface [polypeptide binding]; other site 640512003631 phosphorylation site [posttranslational modification] 640512003632 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512003633 ATP binding site [chemical binding]; other site 640512003634 Mg2+ binding site [ion binding]; other site 640512003635 G-X-G motif; other site 640512003636 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 640512003637 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 640512003638 dimer interface [polypeptide binding]; other site 640512003639 TPP-binding site [chemical binding]; other site 640512003640 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 640512003641 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 640512003642 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 640512003643 E3 interaction surface; other site 640512003644 lipoyl attachment site [posttranslational modification]; other site 640512003645 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 640512003646 E3 interaction surface; other site 640512003647 lipoyl attachment site [posttranslational modification]; other site 640512003648 e3 binding domain; Region: E3_binding; pfam02817 640512003649 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 640512003650 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 640512003651 E3 interaction surface; other site 640512003652 lipoyl attachment site [posttranslational modification]; other site 640512003653 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 640512003654 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640512003655 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 640512003656 Phasin protein; Region: Phasin_2; pfam09361 640512003657 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 640512003658 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 640512003659 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 640512003660 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640512003661 Bacterial transcriptional regulator; Region: IclR; pfam01614 640512003662 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 640512003663 Cysteine-rich domain; Region: CCG; pfam02754 640512003664 Cysteine-rich domain; Region: CCG; pfam02754 640512003665 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 640512003666 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 640512003667 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 640512003668 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 640512003669 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 640512003670 Low molecular weight phosphatase family; Region: LMWPc; cd00115 640512003671 active site 640512003672 Predicted transcriptional regulator [Transcription]; Region: COG1959 640512003673 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 640512003674 cysteine desulfurase; Provisional; Region: PRK14012 640512003675 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 640512003676 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640512003677 catalytic residue [active] 640512003678 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 640512003679 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 640512003680 trimerization site [polypeptide binding]; other site 640512003681 active site 640512003682 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 640512003683 co-chaperone HscB; Provisional; Region: hscB; PRK03578 640512003684 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 640512003685 HSP70 interaction site [polypeptide binding]; other site 640512003686 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 640512003687 chaperone protein HscA; Provisional; Region: hscA; PRK05183 640512003688 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 640512003689 nucleotide binding site [chemical binding]; other site 640512003690 putative NEF/HSP70 interaction site [polypeptide binding]; other site 640512003691 SBD interface [polypeptide binding]; other site 640512003692 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 640512003693 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 640512003694 catalytic loop [active] 640512003695 iron binding site [ion binding]; other site 640512003696 Iron-sulphur cluster assembly; Region: Fe-S_assembly; pfam04384 640512003697 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 640512003698 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 640512003699 dimer interface [polypeptide binding]; other site 640512003700 putative anticodon binding site; other site 640512003701 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 640512003702 motif 1; other site 640512003703 active site 640512003704 motif 2; other site 640512003705 motif 3; other site 640512003706 peptide chain release factor 2; Validated; Region: prfB; PRK00578 640512003707 This domain is found in peptide chain release factors; Region: PCRF; smart00937 640512003708 RF-1 domain; Region: RF-1; pfam00472 640512003709 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 640512003710 DHH family; Region: DHH; pfam01368 640512003711 DHHA1 domain; Region: DHHA1; pfam02272 640512003712 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4255 640512003713 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 640512003714 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 640512003715 FtsX-like permease family; Region: FtsX; pfam02687 640512003716 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 640512003717 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 640512003718 Walker A/P-loop; other site 640512003719 ATP binding site [chemical binding]; other site 640512003720 Q-loop/lid; other site 640512003721 ABC transporter signature motif; other site 640512003722 Walker B; other site 640512003723 D-loop; other site 640512003724 H-loop/switch region; other site 640512003725 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 640512003726 active site 640512003727 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 640512003728 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 640512003729 Competence protein; Region: Competence; pfam03772 640512003730 Competence protein; Region: Competence; pfam03772 640512003731 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 640512003732 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 640512003733 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 640512003734 CTP synthetase; Validated; Region: pyrG; PRK05380 640512003735 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 640512003736 Catalytic site [active] 640512003737 active site 640512003738 UTP binding site [chemical binding]; other site 640512003739 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 640512003740 active site 640512003741 putative oxyanion hole; other site 640512003742 catalytic triad [active] 640512003743 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 640512003744 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 640512003745 enolase; Provisional; Region: eno; PRK00077 640512003746 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 640512003747 dimer interface [polypeptide binding]; other site 640512003748 metal binding site [ion binding]; metal-binding site 640512003749 substrate binding pocket [chemical binding]; other site 640512003750 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 640512003751 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 640512003752 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 640512003753 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 640512003754 dimerization interface [polypeptide binding]; other site 640512003755 domain crossover interface; other site 640512003756 redox-dependent activation switch; other site 640512003757 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 640512003758 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 640512003759 trimer interface [polypeptide binding]; other site 640512003760 putative metal binding site [ion binding]; other site 640512003761 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 640512003762 dinuclear metal binding motif [ion binding]; other site 640512003763 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 640512003764 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 640512003765 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 640512003766 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 640512003767 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 640512003768 active site 640512003769 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 640512003770 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 640512003771 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 640512003772 Peptidase family M50; Region: Peptidase_M50; pfam02163 640512003773 active site 640512003774 putative substrate binding region [chemical binding]; other site 640512003775 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 640512003776 active site 640512003777 HIGH motif; other site 640512003778 dimer interface [polypeptide binding]; other site 640512003779 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 640512003780 active site 640512003781 KMSKS motif; other site 640512003782 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 640512003783 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 640512003784 dihydrodipicolinate synthase; Region: dapA; TIGR00674 640512003785 dimer interface [polypeptide binding]; other site 640512003786 active site 640512003787 catalytic residue [active] 640512003788 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 640512003789 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 640512003790 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 640512003791 YccA-like proteins; Region: YccA_like; cd10433 640512003792 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 640512003793 active site 640512003794 multimer interface [polypeptide binding]; other site 640512003795 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 640512003796 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 640512003797 FeS/SAM binding site; other site 640512003798 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 640512003799 non-specific DNA binding site [nucleotide binding]; other site 640512003800 salt bridge; other site 640512003801 sequence-specific DNA binding site [nucleotide binding]; other site 640512003802 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 640512003803 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 640512003804 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 640512003805 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 640512003806 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 640512003807 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 640512003808 dimer interface [polypeptide binding]; other site 640512003809 motif 1; other site 640512003810 active site 640512003811 motif 2; other site 640512003812 motif 3; other site 640512003813 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 640512003814 anticodon binding site; other site 640512003815 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 640512003816 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 640512003817 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 640512003818 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 640512003819 Trp docking motif [polypeptide binding]; other site 640512003820 active site 640512003821 GTP-binding protein Der; Reviewed; Region: PRK00093 640512003822 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 640512003823 G1 box; other site 640512003824 GTP/Mg2+ binding site [chemical binding]; other site 640512003825 Switch I region; other site 640512003826 G2 box; other site 640512003827 Switch II region; other site 640512003828 G3 box; other site 640512003829 G4 box; other site 640512003830 G5 box; other site 640512003831 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 640512003832 G1 box; other site 640512003833 GTP/Mg2+ binding site [chemical binding]; other site 640512003834 Switch I region; other site 640512003835 G2 box; other site 640512003836 G3 box; other site 640512003837 Switch II region; other site 640512003838 G4 box; other site 640512003839 G5 box; other site 640512003840 bacterial Hfq-like; Region: Hfq; cd01716 640512003841 hexamer interface [polypeptide binding]; other site 640512003842 Sm1 motif; other site 640512003843 RNA binding site [nucleotide binding]; other site 640512003844 Sm2 motif; other site 640512003845 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 640512003846 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 640512003847 HflX GTPase family; Region: HflX; cd01878 640512003848 G1 box; other site 640512003849 GTP/Mg2+ binding site [chemical binding]; other site 640512003850 Switch I region; other site 640512003851 G2 box; other site 640512003852 G3 box; other site 640512003853 Switch II region; other site 640512003854 G4 box; other site 640512003855 G5 box; other site 640512003856 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 640512003857 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 640512003858 HflK protein; Region: hflK; TIGR01933 640512003859 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 640512003860 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 640512003861 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; pfam09838 640512003862 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 640512003863 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 640512003864 dimer interface [polypeptide binding]; other site 640512003865 motif 1; other site 640512003866 active site 640512003867 motif 2; other site 640512003868 motif 3; other site 640512003869 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 640512003870 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 640512003871 GDP-binding site [chemical binding]; other site 640512003872 ACT binding site; other site 640512003873 IMP binding site; other site 640512003874 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 640512003875 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 640512003876 active site 640512003877 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 640512003878 potassium uptake protein; Region: kup; TIGR00794 640512003879 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 640512003880 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 640512003881 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 640512003882 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 640512003883 RNA binding site [nucleotide binding]; other site 640512003884 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 640512003885 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 640512003886 DEAD_2; Region: DEAD_2; pfam06733 640512003887 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 640512003888 Uncharacterized conserved protein [Function unknown]; Region: COG2850 640512003889 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 640512003890 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 640512003891 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 640512003892 MutS domain I; Region: MutS_I; pfam01624 640512003893 MutS domain II; Region: MutS_II; pfam05188 640512003894 MutS domain III; Region: MutS_III; pfam05192 640512003895 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 640512003896 Walker A/P-loop; other site 640512003897 ATP binding site [chemical binding]; other site 640512003898 Q-loop/lid; other site 640512003899 ABC transporter signature motif; other site 640512003900 Walker B; other site 640512003901 D-loop; other site 640512003902 H-loop/switch region; other site 640512003903 lysophospholipid transporter LplT; Provisional; Region: PRK11195 640512003904 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 640512003905 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 640512003906 active site 640512003907 dimerization interface [polypeptide binding]; other site 640512003908 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 640512003909 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 640512003910 serine O-acetyltransferase; Region: cysE; TIGR01172 640512003911 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 640512003912 trimer interface [polypeptide binding]; other site 640512003913 active site 640512003914 substrate binding site [chemical binding]; other site 640512003915 CoA binding site [chemical binding]; other site 640512003916 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 640512003917 putative active site [active] 640512003918 putative metal binding site [ion binding]; other site 640512003919 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 640512003920 substrate binding site [chemical binding]; other site 640512003921 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 640512003922 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 640512003923 substrate binding site [chemical binding]; other site 640512003924 TPR repeat; Region: TPR_11; pfam13414 640512003925 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 640512003926 binding surface 640512003927 TPR motif; other site 640512003928 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 640512003929 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 640512003930 active site 640512003931 HIGH motif; other site 640512003932 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 640512003933 KMSKS motif; other site 640512003934 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 640512003935 tRNA binding surface [nucleotide binding]; other site 640512003936 anticodon binding site; other site 640512003937 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 640512003938 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 640512003939 minor groove reading motif; other site 640512003940 helix-hairpin-helix signature motif; other site 640512003941 substrate binding pocket [chemical binding]; other site 640512003942 active site 640512003943 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 640512003944 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 640512003945 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 640512003946 Ligand Binding Site [chemical binding]; other site 640512003947 TilS substrate binding domain; Region: TilS; pfam09179 640512003948 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 640512003949 aspartate kinase; Reviewed; Region: PRK06635 640512003950 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 640512003951 putative nucleotide binding site [chemical binding]; other site 640512003952 putative catalytic residues [active] 640512003953 putative Mg ion binding site [ion binding]; other site 640512003954 putative aspartate binding site [chemical binding]; other site 640512003955 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 640512003956 putative allosteric regulatory site; other site 640512003957 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 640512003958 short chain dehydrogenase; Provisional; Region: PRK06500 640512003959 classical (c) SDRs; Region: SDR_c; cd05233 640512003960 NAD(P) binding site [chemical binding]; other site 640512003961 active site 640512003962 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640512003963 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640512003964 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 640512003965 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 640512003966 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 640512003967 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 640512003968 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512003969 dimer interface [polypeptide binding]; other site 640512003970 conserved gate region; other site 640512003971 putative PBP binding loops; other site 640512003972 ABC-ATPase subunit interface; other site 640512003973 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 640512003974 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 640512003975 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512003976 dimer interface [polypeptide binding]; other site 640512003977 conserved gate region; other site 640512003978 putative PBP binding loops; other site 640512003979 ABC-ATPase subunit interface; other site 640512003980 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 640512003981 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640512003982 Walker A/P-loop; other site 640512003983 ATP binding site [chemical binding]; other site 640512003984 Q-loop/lid; other site 640512003985 ABC transporter signature motif; other site 640512003986 Walker B; other site 640512003987 D-loop; other site 640512003988 H-loop/switch region; other site 640512003989 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 640512003990 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640512003991 Walker A/P-loop; other site 640512003992 ATP binding site [chemical binding]; other site 640512003993 Q-loop/lid; other site 640512003994 ABC transporter signature motif; other site 640512003995 Walker B; other site 640512003996 D-loop; other site 640512003997 H-loop/switch region; other site 640512003998 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640512003999 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 640512004000 NlpC/P60 family; Region: NLPC_P60; pfam00877 640512004001 hypothetical protein; Provisional; Region: PRK10279 640512004002 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 640512004003 nucleophile elbow; other site 640512004004 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 640512004005 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 640512004006 active site 640512004007 HIGH motif; other site 640512004008 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 640512004009 active site 640512004010 KMSKS motif; other site 640512004011 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640512004012 Coenzyme A binding pocket [chemical binding]; other site 640512004013 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 640512004014 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 640512004015 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512004016 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512004017 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 640512004018 putative active site pocket [active] 640512004019 dimerization interface [polypeptide binding]; other site 640512004020 putative catalytic residue [active] 640512004021 malate synthase A; Region: malate_syn_A; TIGR01344 640512004022 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 640512004023 active site 640512004024 Haloacid dehalogenase superfamily, subfamily IA, variant 2 with 3rd motif like haloacid dehalogenase; Region: HAD-SF-IA-v2; TIGR01493 640512004025 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 640512004026 motif II; other site 640512004027 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512004028 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512004029 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 640512004030 putative effector binding pocket; other site 640512004031 dimerization interface [polypeptide binding]; other site 640512004032 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 640512004033 Ligand Binding Site [chemical binding]; other site 640512004034 isocitrate lyase; Provisional; Region: PRK15063 640512004035 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 640512004036 tetramer interface [polypeptide binding]; other site 640512004037 active site 640512004038 Mg2+/Mn2+ binding site [ion binding]; other site 640512004039 helicase 45; Provisional; Region: PTZ00424 640512004040 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 640512004041 ATP binding site [chemical binding]; other site 640512004042 Mg++ binding site [ion binding]; other site 640512004043 motif III; other site 640512004044 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 640512004045 nucleotide binding region [chemical binding]; other site 640512004046 ATP-binding site [chemical binding]; other site 640512004047 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 640512004048 acyl-CoA binding pocket [chemical binding]; other site 640512004049 CoA binding site [chemical binding]; other site 640512004050 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 640512004051 Glycoprotease family; Region: Peptidase_M22; pfam00814 640512004052 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 640512004053 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 640512004054 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 640512004055 Fe-S cluster binding site [ion binding]; other site 640512004056 active site 640512004057 Domain of unknown function (DUF1853); Region: DUF1853; pfam08907 640512004058 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 640512004059 dimer interface [polypeptide binding]; other site 640512004060 substrate binding site [chemical binding]; other site 640512004061 ATP binding site [chemical binding]; other site 640512004062 lysophospholipid transporter LplT; Provisional; Region: PRK11195 640512004063 alanine racemase; Reviewed; Region: alr; PRK00053 640512004064 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 640512004065 active site 640512004066 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 640512004067 substrate binding site [chemical binding]; other site 640512004068 catalytic residues [active] 640512004069 dimer interface [polypeptide binding]; other site 640512004070 DNA repair protein RadA; Provisional; Region: PRK11823 640512004071 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 640512004072 Walker A motif/ATP binding site; other site 640512004073 ATP binding site [chemical binding]; other site 640512004074 Walker B motif; other site 640512004075 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 640512004076 Protein of unknown function (DUF2866); Region: DUF2866; pfam11065 640512004077 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 640512004078 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640512004079 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 640512004080 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 640512004081 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 640512004082 ABC transporter; Region: ABC_tran_2; pfam12848 640512004083 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 640512004084 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 640512004085 catalytic residues [active] 640512004086 dimer interface [polypeptide binding]; other site 640512004087 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 640512004088 Putative catalytic domain, repeat 1, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_1; cd09155 640512004089 putative active site [active] 640512004090 catalytic site [active] 640512004091 Putative catalytic domain, repeat 2, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_2; cd09161 640512004092 putative active site [active] 640512004093 catalytic site [active] 640512004094 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 640512004095 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 640512004096 S-adenosylmethionine binding site [chemical binding]; other site 640512004097 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 640512004098 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 640512004099 metal binding site [ion binding]; metal-binding site 640512004100 dimer interface [polypeptide binding]; other site 640512004101 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 640512004102 ArsC family; Region: ArsC; pfam03960 640512004103 putative catalytic residues [active] 640512004104 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 640512004105 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 640512004106 trimer interface [polypeptide binding]; other site 640512004107 active site 640512004108 substrate binding site [chemical binding]; other site 640512004109 CoA binding site [chemical binding]; other site 640512004110 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 640512004111 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 640512004112 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640512004113 homodimer interface [polypeptide binding]; other site 640512004114 catalytic residue [active] 640512004115 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 640512004116 EamA-like transporter family; Region: EamA; pfam00892 640512004117 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 640512004118 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 640512004119 Walker A/P-loop; other site 640512004120 ATP binding site [chemical binding]; other site 640512004121 Q-loop/lid; other site 640512004122 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 640512004123 Q-loop/lid; other site 640512004124 ABC transporter signature motif; other site 640512004125 Walker B; other site 640512004126 D-loop; other site 640512004127 H-loop/switch region; other site 640512004128 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 640512004129 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 640512004130 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 640512004131 nucleotide binding pocket [chemical binding]; other site 640512004132 K-X-D-G motif; other site 640512004133 catalytic site [active] 640512004134 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 640512004135 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 640512004136 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 640512004137 Dimer interface [polypeptide binding]; other site 640512004138 BRCT sequence motif; other site 640512004139 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 640512004140 active site 640512004141 catalytic residues [active] 640512004142 metal binding site [ion binding]; metal-binding site 640512004143 PII uridylyl-transferase; Provisional; Region: PRK03059 640512004144 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 640512004145 metal binding triad; other site 640512004146 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 640512004147 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 640512004148 Zn2+ binding site [ion binding]; other site 640512004149 Mg2+ binding site [ion binding]; other site 640512004150 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 640512004151 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 640512004152 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 640512004153 active site 640512004154 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 640512004155 rRNA interaction site [nucleotide binding]; other site 640512004156 S8 interaction site; other site 640512004157 elongation factor Ts; Provisional; Region: tsf; PRK09377 640512004158 UBA/TS-N domain; Region: UBA; pfam00627 640512004159 Elongation factor TS; Region: EF_TS; pfam00889 640512004160 Elongation factor TS; Region: EF_TS; pfam00889 640512004161 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 640512004162 putative nucleotide binding site [chemical binding]; other site 640512004163 uridine monophosphate binding site [chemical binding]; other site 640512004164 homohexameric interface [polypeptide binding]; other site 640512004165 ribosome recycling factor; Reviewed; Region: frr; PRK00083 640512004166 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 640512004167 hinge region; other site 640512004168 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 640512004169 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 640512004170 catalytic residue [active] 640512004171 putative FPP diphosphate binding site; other site 640512004172 putative FPP binding hydrophobic cleft; other site 640512004173 dimer interface [polypeptide binding]; other site 640512004174 putative IPP diphosphate binding site; other site 640512004175 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 640512004176 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 640512004177 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 640512004178 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 640512004179 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 640512004180 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 640512004181 zinc metallopeptidase RseP; Provisional; Region: PRK10779 640512004182 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 640512004183 active site 640512004184 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 640512004185 protein binding site [polypeptide binding]; other site 640512004186 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 640512004187 putative substrate binding region [chemical binding]; other site 640512004188 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 640512004189 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 640512004190 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 640512004191 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 640512004192 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 640512004193 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 640512004194 Surface antigen; Region: Bac_surface_Ag; pfam01103 640512004195 periplasmic chaperone; Provisional; Region: PRK10780 640512004196 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 640512004197 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 640512004198 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 640512004199 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 640512004200 trimer interface [polypeptide binding]; other site 640512004201 active site 640512004202 UDP-GlcNAc binding site [chemical binding]; other site 640512004203 lipid binding site [chemical binding]; lipid-binding site 640512004204 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 640512004205 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 640512004206 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 640512004207 active site 640512004208 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 640512004209 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 640512004210 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 640512004211 RNA/DNA hybrid binding site [nucleotide binding]; other site 640512004212 active site 640512004213 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 640512004214 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 640512004215 PEP synthetase regulatory protein; Provisional; Region: PRK05339 640512004216 phosphoenolpyruvate synthase; Validated; Region: PRK06464 640512004217 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 640512004218 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 640512004219 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 640512004220 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 640512004221 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 640512004222 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 640512004223 SmpB-tmRNA interface; other site 640512004224 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 640512004225 putative coenzyme Q binding site [chemical binding]; other site 640512004226 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2914 640512004227 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 640512004228 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 640512004229 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 640512004230 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 640512004231 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 640512004232 active site 640512004233 GMP synthase; Reviewed; Region: guaA; PRK00074 640512004234 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 640512004235 AMP/PPi binding site [chemical binding]; other site 640512004236 candidate oxyanion hole; other site 640512004237 catalytic triad [active] 640512004238 potential glutamine specificity residues [chemical binding]; other site 640512004239 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 640512004240 ATP Binding subdomain [chemical binding]; other site 640512004241 Ligand Binding sites [chemical binding]; other site 640512004242 Dimerization subdomain; other site 640512004243 Domain of unknown function (DUF4102); Region: DUF4102; pfam13356 640512004244 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 640512004245 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 640512004246 N-terminal plug; other site 640512004247 ligand-binding site [chemical binding]; other site 640512004248 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 640512004249 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 640512004250 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640512004251 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 640512004252 dimer interface [polypeptide binding]; other site 640512004253 phosphorylation site [posttranslational modification] 640512004254 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512004255 ATP binding site [chemical binding]; other site 640512004256 Mg2+ binding site [ion binding]; other site 640512004257 G-X-G motif; other site 640512004258 Response regulator receiver domain; Region: Response_reg; pfam00072 640512004259 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512004260 active site 640512004261 phosphorylation site [posttranslational modification] 640512004262 intermolecular recognition site; other site 640512004263 dimerization interface [polypeptide binding]; other site 640512004264 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640512004265 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512004266 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 640512004267 trimer interface [polypeptide binding]; other site 640512004268 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 640512004269 trimer interface [polypeptide binding]; other site 640512004270 Haemagglutinin; Region: HIM; pfam05662 640512004271 YadA-like C-terminal region; Region: YadA; pfam03895 640512004272 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 640512004273 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 640512004274 trimer interface [polypeptide binding]; other site 640512004275 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 640512004276 trimer interface [polypeptide binding]; other site 640512004277 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 640512004278 trimer interface [polypeptide binding]; other site 640512004279 YadA-like C-terminal region; Region: YadA; pfam03895 640512004280 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640512004281 ligand binding site [chemical binding]; other site 640512004282 Uncharacterized conserved protein [Function unknown]; Region: COG2128 640512004283 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 640512004284 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 640512004285 putative catalytic residues [active] 640512004286 short chain dehydrogenase; Provisional; Region: PRK07577 640512004287 classical (c) SDRs; Region: SDR_c; cd05233 640512004288 NAD(P) binding site [chemical binding]; other site 640512004289 active site 640512004290 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512004291 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512004292 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 640512004293 putative effector binding pocket; other site 640512004294 dimerization interface [polypeptide binding]; other site 640512004295 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 640512004296 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640512004297 NAD(P) binding site [chemical binding]; other site 640512004298 active site 640512004299 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640512004300 Protein of unknown function (DUF3182); Region: DUF3182; pfam11379 640512004301 Protein of unknown function (DUF1523); Region: DUF1523; pfam07509 640512004302 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640512004303 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 640512004304 RibD C-terminal domain; Region: RibD_C; cl17279 640512004305 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 640512004306 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 640512004307 putative metal binding site; other site 640512004308 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 640512004309 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 640512004310 substrate binding site [chemical binding]; other site 640512004311 oxyanion hole (OAH) forming residues; other site 640512004312 trimer interface [polypeptide binding]; other site 640512004313 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 640512004314 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 640512004315 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 640512004316 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640512004317 Walker A/P-loop; other site 640512004318 ATP binding site [chemical binding]; other site 640512004319 Q-loop/lid; other site 640512004320 ABC transporter signature motif; other site 640512004321 Walker B; other site 640512004322 D-loop; other site 640512004323 H-loop/switch region; other site 640512004324 TOBE domain; Region: TOBE_2; pfam08402 640512004325 2-aminoethylphosphonate transport system permease PhnU; Provisional; Region: PRK15050 640512004326 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512004327 dimer interface [polypeptide binding]; other site 640512004328 conserved gate region; other site 640512004329 putative PBP binding loops; other site 640512004330 ABC-ATPase subunit interface; other site 640512004331 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 640512004332 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512004333 dimer interface [polypeptide binding]; other site 640512004334 conserved gate region; other site 640512004335 ABC-ATPase subunit interface; other site 640512004336 crotonobetaine/carnitine-CoA ligase; Provisional; Region: PRK06155 640512004337 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_DitJ_like; cd05934 640512004338 acyl-activating enzyme (AAE) consensus motif; other site 640512004339 putative AMP binding site [chemical binding]; other site 640512004340 putative active site [active] 640512004341 putative CoA binding site [chemical binding]; other site 640512004342 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 640512004343 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640512004344 Bacterial transcriptional regulator; Region: IclR; pfam01614 640512004345 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640512004346 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640512004347 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 640512004348 Protein of unknown function, DUF485; Region: DUF485; pfam04341 640512004349 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 640512004350 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 640512004351 Na binding site [ion binding]; other site 640512004352 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 640512004353 dimer interface [polypeptide binding]; other site 640512004354 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 640512004355 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640512004356 short chain dehydrogenase; Provisional; Region: PRK06180 640512004357 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 640512004358 NADP binding site [chemical binding]; other site 640512004359 active site 640512004360 steroid binding site; other site 640512004361 2-hydroxycarboxylate transporter family; Region: 2HCT; pfam03390 640512004362 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 640512004363 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 640512004364 dimer interface [polypeptide binding]; other site 640512004365 phosphorylation site [posttranslational modification] 640512004366 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512004367 ATP binding site [chemical binding]; other site 640512004368 Mg2+ binding site [ion binding]; other site 640512004369 G-X-G motif; other site 640512004370 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 640512004371 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512004372 active site 640512004373 phosphorylation site [posttranslational modification] 640512004374 intermolecular recognition site; other site 640512004375 dimerization interface [polypeptide binding]; other site 640512004376 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 640512004377 Walker A motif; other site 640512004378 ATP binding site [chemical binding]; other site 640512004379 Walker B motif; other site 640512004380 arginine finger; other site 640512004381 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 640512004382 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 640512004383 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 640512004384 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512004385 nitrite reductase subunit NirD; Provisional; Region: PRK14989 640512004386 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 640512004387 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640512004388 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 640512004389 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 640512004390 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 640512004391 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 640512004392 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 640512004393 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640512004394 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 640512004395 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 640512004396 [4Fe-4S] binding site [ion binding]; other site 640512004397 molybdopterin cofactor binding site; other site 640512004398 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 640512004399 molybdopterin cofactor binding site; other site 640512004400 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 640512004401 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512004402 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512004403 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 640512004404 putative dimerization interface [polypeptide binding]; other site 640512004405 malonate transporter, MadM subunit; Region: malonate_madM; TIGR00808 640512004406 Malonate transporter MadL subunit; Region: MadL; cl04273 640512004407 Cytochrome c; Region: Cytochrom_C; cl11414 640512004408 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 640512004409 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 640512004410 ligand binding site [chemical binding]; other site 640512004411 flexible hinge region; other site 640512004412 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 640512004413 putative switch regulator; other site 640512004414 non-specific DNA interactions [nucleotide binding]; other site 640512004415 DNA binding site [nucleotide binding] 640512004416 sequence specific DNA binding site [nucleotide binding]; other site 640512004417 putative cAMP binding site [chemical binding]; other site 640512004418 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640512004419 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512004420 active site 640512004421 phosphorylation site [posttranslational modification] 640512004422 intermolecular recognition site; other site 640512004423 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 640512004424 DNA binding residues [nucleotide binding] 640512004425 dimerization interface [polypeptide binding]; other site 640512004426 PAS domain S-box; Region: sensory_box; TIGR00229 640512004427 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 640512004428 putative active site [active] 640512004429 heme pocket [chemical binding]; other site 640512004430 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 640512004431 Histidine kinase; Region: HisKA_3; pfam07730 640512004432 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512004433 ATP binding site [chemical binding]; other site 640512004434 Mg2+ binding site [ion binding]; other site 640512004435 G-X-G motif; other site 640512004436 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 640512004437 Ligand Binding Site [chemical binding]; other site 640512004438 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 640512004439 Ligand Binding Site [chemical binding]; other site 640512004440 Flavodoxin domain; Region: Flavodoxin_5; cl17428 640512004441 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 640512004442 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 640512004443 myosin-cross-reactive antigen; Provisional; Region: PRK13977 640512004444 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 640512004445 Ligand Binding Site [chemical binding]; other site 640512004446 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 640512004447 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 640512004448 NADPH bind site [chemical binding]; other site 640512004449 putative FMN binding site [chemical binding]; other site 640512004450 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 640512004451 FMN binding site [chemical binding]; other site 640512004452 dimer interface [polypeptide binding]; other site 640512004453 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 640512004454 Group of bacterial proteins containing an alpha crystallin domain (ACD) similar to Lactobacillus plantarum (Lp) small heat shock proteins (sHsp) HSP 18.5, HSP 18.55 and HSP 19.3. sHsps are molecular chaperones that suppress protein aggregation and...; Region: ACD_LpsHSP_like; cd06471 640512004455 putative dimer interface [polypeptide binding]; other site 640512004456 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 640512004457 BON domain; Region: BON; pfam04972 640512004458 BON domain; Region: BON; pfam04972 640512004459 BON domain; Region: BON; pfam04972 640512004460 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512004461 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512004462 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 640512004463 putative effector binding pocket; other site 640512004464 dimerization interface [polypeptide binding]; other site 640512004465 short chain dehydrogenase; Provisional; Region: PRK07478 640512004466 classical (c) SDRs; Region: SDR_c; cd05233 640512004467 NAD(P) binding site [chemical binding]; other site 640512004468 active site 640512004469 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640512004470 classical (c) SDRs; Region: SDR_c; cd05233 640512004471 NAD(P) binding site [chemical binding]; other site 640512004472 active site 640512004473 NmrA-like family; Region: NmrA; pfam05368 640512004474 NmrA (a transcriptional regulator) and HSCARG (an NADPH sensor) like proteins, atypical (a) SDRs; Region: NmrA_like_SDR_a; cd05251 640512004475 NADP binding site [chemical binding]; other site 640512004476 active site 640512004477 regulatory binding site [polypeptide binding]; other site 640512004478 LysR family transcriptional regulator; Provisional; Region: PRK14997 640512004479 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512004480 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 640512004481 putative effector binding pocket; other site 640512004482 dimerization interface [polypeptide binding]; other site 640512004483 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512004484 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512004485 The 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 640512004486 dimerization interface [polypeptide binding]; other site 640512004487 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 640512004488 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 640512004489 Epoxide hydrolase N terminus; Region: EHN; pfam06441 640512004490 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 640512004491 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640512004492 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 640512004493 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 640512004494 active site 640512004495 iron coordination sites [ion binding]; other site 640512004496 substrate binding pocket [chemical binding]; other site 640512004497 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 640512004498 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 640512004499 substrate binding pocket [chemical binding]; other site 640512004500 membrane-bound complex binding site; other site 640512004501 hinge residues; other site 640512004502 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 640512004503 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512004504 ABC-ATPase subunit interface; other site 640512004505 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 640512004506 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512004507 putative PBP binding loops; other site 640512004508 ABC-ATPase subunit interface; other site 640512004509 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 640512004510 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 640512004511 Walker A/P-loop; other site 640512004512 ATP binding site [chemical binding]; other site 640512004513 Q-loop/lid; other site 640512004514 ABC transporter signature motif; other site 640512004515 Walker B; other site 640512004516 D-loop; other site 640512004517 H-loop/switch region; other site 640512004518 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 640512004519 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 640512004520 active site 640512004521 non-prolyl cis peptide bond; other site 640512004522 Uncharacterized conserved protein [Function unknown]; Region: COG3350 640512004523 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 640512004524 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 640512004525 Soluble P-type ATPase [General function prediction only]; Region: COG4087 640512004526 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 640512004527 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 640512004528 Repair protein; Region: Repair_PSII; pfam04536 640512004529 Repair protein; Region: Repair_PSII; pfam04536 640512004530 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 640512004531 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 640512004532 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 640512004533 bifunctional D-altronate/D-mannonate dehydratase; Provisional; Region: PRK15072 640512004534 The starvation sensing protein RpsA from E.coli and its homologs are lactonizing enzymes whose putative targets are homoserine lactone (HSL)-derivative. They are part of the mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of...; Region: rpsA; cd03322 640512004535 putative active site pocket [active] 640512004536 putative metal binding site [ion binding]; other site 640512004537 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512004538 metabolite-proton symporter; Region: 2A0106; TIGR00883 640512004539 putative substrate translocation pore; other site 640512004540 L-idonate 5-dehydrogenase; Region: idonate-5-DH; cd08232 640512004541 L-idonate 5-dehydrogenase; Provisional; Region: PRK09880 640512004542 putative NAD(P) binding site [chemical binding]; other site 640512004543 catalytic Zn binding site [ion binding]; other site 640512004544 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512004545 D-galactonate transporter; Region: 2A0114; TIGR00893 640512004546 putative substrate translocation pore; other site 640512004547 Transcriptional regulators [Transcription]; Region: GntR; COG1802 640512004548 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640512004549 DNA-binding site [nucleotide binding]; DNA binding site 640512004550 FCD domain; Region: FCD; pfam07729 640512004551 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640512004552 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512004553 DNA gyrase inhibitor [DNA replication, recombination, and repair]; Region: COG3449 640512004554 AAA domain; Region: AAA_17; pfam13207 640512004555 AAA domain; Region: AAA_18; pfam13238 640512004556 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 640512004557 active site 640512004558 catalytic residues [active] 640512004559 DNA binding site [nucleotide binding] 640512004560 Int/Topo IB signature motif; other site 640512004561 transcriptional activator TtdR; Provisional; Region: PRK09801 640512004562 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512004563 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 640512004564 putative effector binding pocket; other site 640512004565 putative dimerization interface [polypeptide binding]; other site 640512004566 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 640512004567 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 640512004568 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 640512004569 substrate binding site [chemical binding]; other site 640512004570 ligand binding site [chemical binding]; other site 640512004571 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 640512004572 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 640512004573 substrate binding site [chemical binding]; other site 640512004574 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 640512004575 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 640512004576 ribonuclease R; Region: RNase_R; TIGR02063 640512004577 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 640512004578 RNB domain; Region: RNB; pfam00773 640512004579 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 640512004580 RNA binding site [nucleotide binding]; other site 640512004581 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 640512004582 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 640512004583 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 640512004584 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 640512004585 tetramer (dimer of dimers) interface [polypeptide binding]; other site 640512004586 active site 640512004587 dimer interface [polypeptide binding]; other site 640512004588 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 640512004589 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640512004590 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640512004591 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 640512004592 putative ADP-binding pocket [chemical binding]; other site 640512004593 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 640512004594 non-specific DNA binding site [nucleotide binding]; other site 640512004595 salt bridge; other site 640512004596 sequence-specific DNA binding site [nucleotide binding]; other site 640512004597 tyrosine kinase; Provisional; Region: PRK11519 640512004598 Chain length determinant protein; Region: Wzz; pfam02706 640512004599 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 640512004600 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 640512004601 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 640512004602 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 640512004603 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 640512004604 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 640512004605 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 640512004606 active site 640512004607 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 640512004608 Bacterial sugar transferase; Region: Bac_transf; pfam02397 640512004609 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 640512004610 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 640512004611 ligand binding site [chemical binding]; other site 640512004612 flexible hinge region; other site 640512004613 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 640512004614 non-specific DNA interactions [nucleotide binding]; other site 640512004615 DNA binding site [nucleotide binding] 640512004616 sequence specific DNA binding site [nucleotide binding]; other site 640512004617 putative cAMP binding site [chemical binding]; other site 640512004618 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 640512004619 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 640512004620 Domain of unknown function (DUF1839); Region: DUF1839; pfam08893 640512004621 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 640512004622 motif 1; other site 640512004623 dimer interface [polypeptide binding]; other site 640512004624 active site 640512004625 motif 2; other site 640512004626 motif 3; other site 640512004627 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 640512004628 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640512004629 active site 640512004630 acyl carrier protein; Provisional; Region: PRK07081 640512004631 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 640512004632 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640512004633 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 640512004634 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640512004635 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 640512004636 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 640512004637 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640512004638 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 640512004639 putative ADP-binding pocket [chemical binding]; other site 640512004640 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 640512004641 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 640512004642 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 640512004643 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 640512004644 active site 640512004645 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 640512004646 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 640512004647 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 640512004648 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 640512004649 S-adenosylmethionine binding site [chemical binding]; other site 640512004650 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 640512004651 Transcriptional regulators [Transcription]; Region: FadR; COG2186 640512004652 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640512004653 DNA-binding site [nucleotide binding]; DNA binding site 640512004654 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 640512004655 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 640512004656 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 640512004657 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512004658 dimer interface [polypeptide binding]; other site 640512004659 conserved gate region; other site 640512004660 putative PBP binding loops; other site 640512004661 ABC-ATPase subunit interface; other site 640512004662 cystine transporter subunit; Provisional; Region: PRK11260 640512004663 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 640512004664 substrate binding pocket [chemical binding]; other site 640512004665 membrane-bound complex binding site; other site 640512004666 hinge residues; other site 640512004667 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 640512004668 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 640512004669 active site 640512004670 catalytic residues [active] 640512004671 FMN binding site [chemical binding]; other site 640512004672 quinone interaction residues [chemical binding]; other site 640512004673 substrate binding site [chemical binding]; other site 640512004674 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 640512004675 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 640512004676 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 640512004677 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 640512004678 Ribosomal protein S27a; Region: Ribosomal_S27; cl00876 640512004679 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 640512004680 nudix motif; other site 640512004681 haemagglutination activity domain; Region: Haemagg_act; pfam05860 640512004682 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 640512004683 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 640512004684 hypothetical protein; Provisional; Region: PRK02487 640512004685 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 640512004686 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 640512004687 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 640512004688 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 640512004689 substrate binding site [chemical binding]; other site 640512004690 oxyanion hole (OAH) forming residues; other site 640512004691 trimer interface [polypeptide binding]; other site 640512004692 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 640512004693 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 640512004694 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 640512004695 active site 640512004696 dimer interface [polypeptide binding]; other site 640512004697 non-prolyl cis peptide bond; other site 640512004698 insertion regions; other site 640512004699 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 640512004700 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512004701 dimer interface [polypeptide binding]; other site 640512004702 conserved gate region; other site 640512004703 putative PBP binding loops; other site 640512004704 ABC-ATPase subunit interface; other site 640512004705 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 640512004706 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 640512004707 Walker A/P-loop; other site 640512004708 ATP binding site [chemical binding]; other site 640512004709 Q-loop/lid; other site 640512004710 ABC transporter signature motif; other site 640512004711 Walker B; other site 640512004712 D-loop; other site 640512004713 H-loop/switch region; other site 640512004714 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 640512004715 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 640512004716 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 640512004717 FMN binding site [chemical binding]; other site 640512004718 active site 640512004719 catalytic residues [active] 640512004720 substrate binding site [chemical binding]; other site 640512004721 Transposase; Region: HTH_Tnp_1; cl17663 640512004722 T5orf172 domain; Region: T5orf172; pfam10544 640512004723 Methyltransferase domain; Region: Methyltransf_24; pfam13578 640512004724 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 640512004725 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 640512004726 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 640512004727 active site 640512004728 catalytic tetrad [active] 640512004729 ABC-2 type transporter; Region: ABC2_membrane; cl17235 640512004730 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 640512004731 nodulation ABC transporter NodI; Provisional; Region: PRK13537 640512004732 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 640512004733 Walker A/P-loop; other site 640512004734 ATP binding site [chemical binding]; other site 640512004735 Q-loop/lid; other site 640512004736 ABC transporter signature motif; other site 640512004737 Walker B; other site 640512004738 D-loop; other site 640512004739 H-loop/switch region; other site 640512004740 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 640512004741 Ligand Binding Site [chemical binding]; other site 640512004742 Protein of unknown function (DUF2939); Region: DUF2939; pfam11159 640512004743 LexA repressor; Validated; Region: PRK00215 640512004744 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 640512004745 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 640512004746 Catalytic site [active] 640512004747 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 640512004748 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 640512004749 substrate binding pocket [chemical binding]; other site 640512004750 membrane-bound complex binding site; other site 640512004751 hinge residues; other site 640512004752 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 640512004753 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512004754 dimer interface [polypeptide binding]; other site 640512004755 conserved gate region; other site 640512004756 putative PBP binding loops; other site 640512004757 ABC-ATPase subunit interface; other site 640512004758 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512004759 dimer interface [polypeptide binding]; other site 640512004760 conserved gate region; other site 640512004761 putative PBP binding loops; other site 640512004762 ABC-ATPase subunit interface; other site 640512004763 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 640512004764 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 640512004765 Walker A/P-loop; other site 640512004766 ATP binding site [chemical binding]; other site 640512004767 Q-loop/lid; other site 640512004768 ABC transporter signature motif; other site 640512004769 Walker B; other site 640512004770 D-loop; other site 640512004771 H-loop/switch region; other site 640512004772 TOBE-like domain; Region: TOBE_3; pfam12857 640512004773 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12683 640512004774 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512004775 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 640512004776 substrate binding site [chemical binding]; other site 640512004777 dimerization interface [polypeptide binding]; other site 640512004778 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 640512004779 active site 640512004780 homodimer interface [polypeptide binding]; other site 640512004781 homotetramer interface [polypeptide binding]; other site 640512004782 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 640512004783 BON domain; Region: BON; pfam04972 640512004784 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 640512004785 tartronate semialdehyde reductase; Provisional; Region: PRK15059 640512004786 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 640512004787 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 640512004788 glyoxylate carboligase; Provisional; Region: PRK11269 640512004789 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 640512004790 PYR/PP interface [polypeptide binding]; other site 640512004791 dimer interface [polypeptide binding]; other site 640512004792 TPP binding site [chemical binding]; other site 640512004793 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 640512004794 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 640512004795 TPP-binding site [chemical binding]; other site 640512004796 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512004797 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512004798 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 640512004799 putative effector binding pocket; other site 640512004800 dimerization interface [polypeptide binding]; other site 640512004801 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 640512004802 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 640512004803 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 640512004804 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 640512004805 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 640512004806 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 640512004807 replicative DNA helicase; Provisional; Region: PRK07004 640512004808 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 640512004809 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 640512004810 Walker A motif; other site 640512004811 ATP binding site [chemical binding]; other site 640512004812 Walker B motif; other site 640512004813 DNA binding loops [nucleotide binding] 640512004814 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 640512004815 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 640512004816 short chain dehydrogenase; Provisional; Region: PRK06125 640512004817 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640512004818 NAD(P) binding site [chemical binding]; other site 640512004819 active site 640512004820 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 640512004821 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 640512004822 putative ribose interaction site [chemical binding]; other site 640512004823 putative ADP binding site [chemical binding]; other site 640512004824 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 640512004825 NlpC/P60 family; Region: NLPC_P60; pfam00877 640512004826 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 640512004827 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 640512004828 putative active site [active] 640512004829 PhoH-like protein; Region: PhoH; pfam02562 640512004830 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 640512004831 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 640512004832 catalytic triad [active] 640512004833 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 640512004834 Catalytic domain of Escherichia coli 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD and other bacterial homologs; Region: CE4_ArnD; cd10939 640512004835 putative active site [active] 640512004836 putative catalytic site [active] 640512004837 putative Zn binding site [ion binding]; other site 640512004838 NAD-dependent epimerase/dehydratase family protein; Provisional; Region: PRK11908 640512004839 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 640512004840 NAD binding site [chemical binding]; other site 640512004841 substrate binding site [chemical binding]; other site 640512004842 active site 640512004843 putative formyltransferase; Provisional; Region: PRK06988 640512004844 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 640512004845 active site 640512004846 substrate binding site [chemical binding]; other site 640512004847 cosubstrate binding site; other site 640512004848 catalytic site [active] 640512004849 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 640512004850 active site 640512004851 hexamer interface [polypeptide binding]; other site 640512004852 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 640512004853 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 640512004854 Ligand binding site; other site 640512004855 Putative Catalytic site; other site 640512004856 DXD motif; other site 640512004857 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 640512004858 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 640512004859 inhibitor-cofactor binding pocket; inhibition site 640512004860 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640512004861 catalytic residue [active] 640512004862 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnE; Provisional; Region: PRK15051 640512004863 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 640512004864 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 640512004865 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 640512004866 aminotransferase AlaT; Validated; Region: PRK09265 640512004867 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 640512004868 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640512004869 homodimer interface [polypeptide binding]; other site 640512004870 catalytic residue [active] 640512004871 homoserine dehydrogenase; Provisional; Region: PRK06349 640512004872 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 640512004873 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 640512004874 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 640512004875 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 640512004876 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 640512004877 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640512004878 catalytic residue [active] 640512004879 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 640512004880 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 640512004881 dimer interface [polypeptide binding]; other site 640512004882 putative functional site; other site 640512004883 putative MPT binding site; other site 640512004884 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 640512004885 MoaE interaction surface [polypeptide binding]; other site 640512004886 MoeB interaction surface [polypeptide binding]; other site 640512004887 thiocarboxylated glycine; other site 640512004888 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 640512004889 MoaE homodimer interface [polypeptide binding]; other site 640512004890 MoaD interaction [polypeptide binding]; other site 640512004891 active site residues [active] 640512004892 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 640512004893 apolar tunnel; other site 640512004894 heme binding site [chemical binding]; other site 640512004895 dimerization interface [polypeptide binding]; other site 640512004896 Transcriptional regulator; Region: Rrf2; cl17282 640512004897 Rrf2 family protein; Region: rrf2_super; TIGR00738 640512004898 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 640512004899 Clp amino terminal domain; Region: Clp_N; pfam02861 640512004900 Clp amino terminal domain; Region: Clp_N; pfam02861 640512004901 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 640512004902 Walker A motif; other site 640512004903 ATP binding site [chemical binding]; other site 640512004904 Walker B motif; other site 640512004905 arginine finger; other site 640512004906 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 640512004907 Walker A motif; other site 640512004908 ATP binding site [chemical binding]; other site 640512004909 Walker B motif; other site 640512004910 arginine finger; other site 640512004911 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 640512004912 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 640512004913 DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]; Region: ComEA; COG1555 640512004914 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 640512004915 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 640512004916 DNA binding residues [nucleotide binding] 640512004917 putative dimer interface [polypeptide binding]; other site 640512004918 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 640512004919 multidrug efflux protein; Reviewed; Region: PRK01766 640512004920 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 640512004921 cation binding site [ion binding]; other site 640512004922 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 640512004923 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 640512004924 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 640512004925 transcription termination factor Rho; Provisional; Region: rho; PRK09376 640512004926 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 640512004927 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 640512004928 RNA binding site [nucleotide binding]; other site 640512004929 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 640512004930 multimer interface [polypeptide binding]; other site 640512004931 Walker A motif; other site 640512004932 ATP binding site [chemical binding]; other site 640512004933 Walker B motif; other site 640512004934 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 640512004935 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 640512004936 catalytic residues [active] 640512004937 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 640512004938 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 640512004939 Walker A motif; other site 640512004940 ATP binding site [chemical binding]; other site 640512004941 Walker B motif; other site 640512004942 arginine finger; other site 640512004943 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 640512004944 hypothetical protein; Validated; Region: PRK00153 640512004945 recombination protein RecR; Reviewed; Region: recR; PRK00076 640512004946 RecR protein; Region: RecR; pfam02132 640512004947 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 640512004948 putative active site [active] 640512004949 putative metal-binding site [ion binding]; other site 640512004950 tetramer interface [polypeptide binding]; other site 640512004951 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 640512004952 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640512004953 NMT1-like family; Region: NMT1_2; pfam13379 640512004954 NMT1/THI5 like; Region: NMT1; pfam09084 640512004955 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 640512004956 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 640512004957 Walker A/P-loop; other site 640512004958 ATP binding site [chemical binding]; other site 640512004959 Q-loop/lid; other site 640512004960 ABC transporter signature motif; other site 640512004961 Walker B; other site 640512004962 D-loop; other site 640512004963 H-loop/switch region; other site 640512004964 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 640512004965 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512004966 dimer interface [polypeptide binding]; other site 640512004967 conserved gate region; other site 640512004968 putative PBP binding loops; other site 640512004969 ABC-ATPase subunit interface; other site 640512004970 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 640512004971 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 640512004972 NAD(P) binding site [chemical binding]; other site 640512004973 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 640512004974 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 640512004975 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 640512004976 S-adenosylmethionine binding site [chemical binding]; other site 640512004977 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 640512004978 Peptidase family M23; Region: Peptidase_M23; pfam01551 640512004979 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 640512004980 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 640512004981 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640512004982 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 640512004983 DNA binding residues [nucleotide binding] 640512004984 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 640512004985 active site 640512004986 catalytic site [active] 640512004987 substrate binding site [chemical binding]; other site 640512004988 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 640512004989 TRAM domain; Region: TRAM; cl01282 640512004990 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 640512004991 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 640512004992 S-adenosylmethionine binding site [chemical binding]; other site 640512004993 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 640512004994 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 640512004995 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 640512004996 RNA binding surface [nucleotide binding]; other site 640512004997 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 640512004998 active site 640512004999 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 640512005000 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 640512005001 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 640512005002 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 640512005003 putative acyltransferase; Provisional; Region: PRK05790 640512005004 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 640512005005 dimer interface [polypeptide binding]; other site 640512005006 active site 640512005007 acetyacetyl-CoA reductase; Provisional; Region: PRK12938 640512005008 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 640512005009 NAD(P) binding site [chemical binding]; other site 640512005010 homotetramer interface [polypeptide binding]; other site 640512005011 homodimer interface [polypeptide binding]; other site 640512005012 active site 640512005013 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 640512005014 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 640512005015 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 640512005016 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 640512005017 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 640512005018 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 640512005019 FeS/SAM binding site; other site 640512005020 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 640512005021 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 640512005022 substrate binding site [chemical binding]; other site 640512005023 ATP binding site [chemical binding]; other site 640512005024 beta-ketothiolase; Provisional; Region: PRK09051 640512005025 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 640512005026 dimer interface [polypeptide binding]; other site 640512005027 active site 640512005028 cystathionine beta-lyase; Provisional; Region: PRK07050 640512005029 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 640512005030 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640512005031 catalytic residue [active] 640512005032 Domain of unknown function (DUF4072); Region: DUF4072; pfam13284 640512005033 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 640512005034 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 640512005035 motif II; other site 640512005036 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 640512005037 Cytochrome P450; Region: p450; cl12078 640512005038 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 640512005039 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 640512005040 putative DNA binding site [nucleotide binding]; other site 640512005041 putative homodimer interface [polypeptide binding]; other site 640512005042 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 640512005043 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 640512005044 DNA polymerase LigD, ligase domain; Region: NHEJ_ligase_lig; TIGR02779 640512005045 active site 640512005046 DNA binding site [nucleotide binding] 640512005047 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 640512005048 DNA binding site [nucleotide binding] 640512005049 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 640512005050 nucleotide binding site [chemical binding]; other site 640512005051 transcriptional activator TtdR; Provisional; Region: PRK09801 640512005052 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512005053 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 640512005054 putative effector binding pocket; other site 640512005055 dimerization interface [polypeptide binding]; other site 640512005056 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 640512005057 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 640512005058 putative NAD(P) binding site [chemical binding]; other site 640512005059 dimer interface [polypeptide binding]; other site 640512005060 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 640512005061 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4619 640512005062 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640512005063 Walker A/P-loop; other site 640512005064 ATP binding site [chemical binding]; other site 640512005065 Q-loop/lid; other site 640512005066 ABC transporter signature motif; other site 640512005067 Walker B; other site 640512005068 D-loop; other site 640512005069 H-loop/switch region; other site 640512005070 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 640512005071 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 640512005072 CHASE3 domain; Region: CHASE3; pfam05227 640512005073 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 640512005074 dimer interface [polypeptide binding]; other site 640512005075 phosphorylation site [posttranslational modification] 640512005076 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512005077 ATP binding site [chemical binding]; other site 640512005078 Mg2+ binding site [ion binding]; other site 640512005079 G-X-G motif; other site 640512005080 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 640512005081 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512005082 active site 640512005083 phosphorylation site [posttranslational modification] 640512005084 intermolecular recognition site; other site 640512005085 dimerization interface [polypeptide binding]; other site 640512005086 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 640512005087 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512005088 active site 640512005089 phosphorylation site [posttranslational modification] 640512005090 intermolecular recognition site; other site 640512005091 dimerization interface [polypeptide binding]; other site 640512005092 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 640512005093 PAS fold; Region: PAS_3; pfam08447 640512005094 putative active site [active] 640512005095 heme pocket [chemical binding]; other site 640512005096 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640512005097 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 640512005098 dimer interface [polypeptide binding]; other site 640512005099 phosphorylation site [posttranslational modification] 640512005100 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512005101 ATP binding site [chemical binding]; other site 640512005102 Mg2+ binding site [ion binding]; other site 640512005103 G-X-G motif; other site 640512005104 Response regulator receiver domain; Region: Response_reg; pfam00072 640512005105 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512005106 active site 640512005107 phosphorylation site [posttranslational modification] 640512005108 intermolecular recognition site; other site 640512005109 dimerization interface [polypeptide binding]; other site 640512005110 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 640512005111 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 640512005112 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 640512005113 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 640512005114 tetramer interface [polypeptide binding]; other site 640512005115 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640512005116 catalytic residue [active] 640512005117 acetylornithine deacetylase; Provisional; Region: PRK07522 640512005118 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 640512005119 metal binding site [ion binding]; metal-binding site 640512005120 putative dimer interface [polypeptide binding]; other site 640512005121 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 640512005122 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 640512005123 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 640512005124 ATP binding site [chemical binding]; other site 640512005125 putative Mg++ binding site [ion binding]; other site 640512005126 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 640512005127 nucleotide binding region [chemical binding]; other site 640512005128 ATP-binding site [chemical binding]; other site 640512005129 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 640512005130 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 640512005131 substrate binding site; other site 640512005132 dimer interface; other site 640512005133 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 640512005134 homotrimer interaction site [polypeptide binding]; other site 640512005135 zinc binding site [ion binding]; other site 640512005136 CDP-binding sites; other site 640512005137 alkylhydroperoxidase, AhpD family; Region: ahpD; TIGR00777 640512005138 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 640512005139 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 640512005140 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 640512005141 dimer interface [polypeptide binding]; other site 640512005142 decamer (pentamer of dimers) interface [polypeptide binding]; other site 640512005143 catalytic triad [active] 640512005144 peroxidatic and resolving cysteines [active] 640512005145 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 640512005146 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 640512005147 dimer interface [polypeptide binding]; other site 640512005148 phosphorylation site [posttranslational modification] 640512005149 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512005150 ATP binding site [chemical binding]; other site 640512005151 Mg2+ binding site [ion binding]; other site 640512005152 G-X-G motif; other site 640512005153 osmolarity response regulator; Provisional; Region: ompR; PRK09468 640512005154 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512005155 active site 640512005156 phosphorylation site [posttranslational modification] 640512005157 intermolecular recognition site; other site 640512005158 dimerization interface [polypeptide binding]; other site 640512005159 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 640512005160 DNA binding site [nucleotide binding] 640512005161 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4102 640512005162 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 640512005163 active site lid residues [active] 640512005164 substrate binding pocket [chemical binding]; other site 640512005165 catalytic residues [active] 640512005166 substrate-Mg2+ binding site; other site 640512005167 aspartate-rich region 1; other site 640512005168 aspartate-rich region 2; other site 640512005169 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 640512005170 Protein of unknown function (DUF3999); Region: DUF3999; pfam13163 640512005171 Protein of unknown function (DUF3999); Region: DUF3999; pfam13163 640512005172 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640512005173 MarR family; Region: MarR_2; pfam12802 640512005174 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 640512005175 trigger factor; Provisional; Region: tig; PRK01490 640512005176 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 640512005177 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 640512005178 Clp protease; Region: CLP_protease; pfam00574 640512005179 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 640512005180 oligomer interface [polypeptide binding]; other site 640512005181 active site residues [active] 640512005182 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 640512005183 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 640512005184 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 640512005185 Walker A motif; other site 640512005186 ATP binding site [chemical binding]; other site 640512005187 Walker B motif; other site 640512005188 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 640512005189 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 640512005190 Found in ATP-dependent protease La (LON); Region: LON; smart00464 640512005191 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 640512005192 Walker A motif; other site 640512005193 ATP binding site [chemical binding]; other site 640512005194 Walker B motif; other site 640512005195 arginine finger; other site 640512005196 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 640512005197 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 640512005198 IHF dimer interface [polypeptide binding]; other site 640512005199 IHF - DNA interface [nucleotide binding]; other site 640512005200 NUMOD1 domain; Region: NUMOD1; pfam07453 640512005201 Domain of unknown function (DUF4062); Region: DUF4062; pfam13271 640512005202 short chain dehydrogenase; Provisional; Region: PRK06180 640512005203 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 640512005204 NADP binding site [chemical binding]; other site 640512005205 active site 640512005206 steroid binding site; other site 640512005207 LysR family transcriptional regulator; Provisional; Region: PRK14997 640512005208 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512005209 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 640512005210 putative effector binding pocket; other site 640512005211 dimerization interface [polypeptide binding]; other site 640512005212 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 640512005213 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640512005214 NAD(P) binding site [chemical binding]; other site 640512005215 active site 640512005216 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 640512005217 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512005218 putative substrate translocation pore; other site 640512005219 SurA N-terminal domain; Region: SurA_N_3; cl07813 640512005220 periplasmic folding chaperone; Provisional; Region: PRK10788 640512005221 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 640512005222 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 640512005223 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 640512005224 active site 640512005225 catalytic triad [active] 640512005226 oxyanion hole [active] 640512005227 switch loop; other site 640512005228 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 640512005229 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 640512005230 Walker A/P-loop; other site 640512005231 ATP binding site [chemical binding]; other site 640512005232 Q-loop/lid; other site 640512005233 ABC transporter signature motif; other site 640512005234 Walker B; other site 640512005235 D-loop; other site 640512005236 H-loop/switch region; other site 640512005237 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 640512005238 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 640512005239 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 640512005240 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 640512005241 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 640512005242 active site 640512005243 dimer interface [polypeptide binding]; other site 640512005244 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 640512005245 dimer interface [polypeptide binding]; other site 640512005246 active site 640512005247 putative carbohydrate kinase; Provisional; Region: PRK10565 640512005248 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 640512005249 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 640512005250 putative substrate binding site [chemical binding]; other site 640512005251 putative ATP binding site [chemical binding]; other site 640512005252 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 640512005253 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 640512005254 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 640512005255 dimerization interface [polypeptide binding]; other site 640512005256 ATP binding site [chemical binding]; other site 640512005257 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 640512005258 dimerization interface [polypeptide binding]; other site 640512005259 ATP binding site [chemical binding]; other site 640512005260 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 640512005261 putative active site [active] 640512005262 catalytic triad [active] 640512005263 SurA N-terminal domain; Region: SurA_N_3; cl07813 640512005264 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 640512005265 BolA-like protein; Region: BolA; pfam01722 640512005266 intracellular septation protein A; Reviewed; Region: PRK00259 640512005267 methionine sulfoxide reductase B; Provisional; Region: PRK00222 640512005268 SelR domain; Region: SelR; pfam01641 640512005269 Uncharacterized conserved protein [Function unknown]; Region: COG0397 640512005270 hypothetical protein; Validated; Region: PRK00029 640512005271 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 640512005272 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 640512005273 dimer interface [polypeptide binding]; other site 640512005274 acyl-activating enzyme (AAE) consensus motif; other site 640512005275 putative active site [active] 640512005276 AMP binding site [chemical binding]; other site 640512005277 putative CoA binding site [chemical binding]; other site 640512005278 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 640512005279 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 640512005280 substrate binding site [chemical binding]; other site 640512005281 oxyanion hole (OAH) forming residues; other site 640512005282 trimer interface [polypeptide binding]; other site 640512005283 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 640512005284 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 640512005285 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 640512005286 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 640512005287 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 640512005288 dimer interface [polypeptide binding]; other site 640512005289 active site 640512005290 Water Stress and Hypersensitive response; Region: WHy; smart00769 640512005291 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 640512005292 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640512005293 DNA-binding site [nucleotide binding]; DNA binding site 640512005294 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 640512005295 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640512005296 homodimer interface [polypeptide binding]; other site 640512005297 catalytic residue [active] 640512005298 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 640512005299 CoenzymeA binding site [chemical binding]; other site 640512005300 subunit interaction site [polypeptide binding]; other site 640512005301 PHB binding site; other site 640512005302 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 640512005303 Prostaglandin dehydrogenases; Region: PGDH; cd05288 640512005304 NAD(P) binding site [chemical binding]; other site 640512005305 substrate binding site [chemical binding]; other site 640512005306 dimer interface [polypeptide binding]; other site 640512005307 hypothetical protein; Provisional; Region: PRK06194 640512005308 classical (c) SDRs; Region: SDR_c; cd05233 640512005309 NAD(P) binding site [chemical binding]; other site 640512005310 active site 640512005311 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 640512005312 NRDE protein; Region: NRDE; cl01315 640512005313 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 640512005314 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 640512005315 YceG-like family; Region: YceG; pfam02618 640512005316 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 640512005317 dimerization interface [polypeptide binding]; other site 640512005318 thymidylate kinase; Validated; Region: tmk; PRK00698 640512005319 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 640512005320 TMP-binding site; other site 640512005321 ATP-binding site [chemical binding]; other site 640512005322 DNA polymerase III subunit delta'; Validated; Region: PRK06964 640512005323 DNA polymerase III subunit delta'; Validated; Region: PRK08485 640512005324 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 640512005325 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 640512005326 active site 640512005327 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 640512005328 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 640512005329 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 640512005330 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 640512005331 Mechanosensitive ion channel; Region: MS_channel; pfam00924 640512005332 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 640512005333 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 640512005334 active site 640512005335 homotetramer interface [polypeptide binding]; other site 640512005336 Predicted ATPase [General function prediction only]; Region: COG4637 640512005337 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640512005338 Walker A/P-loop; other site 640512005339 ATP binding site [chemical binding]; other site 640512005340 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 640512005341 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640512005342 putative ADP-binding pocket [chemical binding]; other site 640512005343 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 640512005344 Domain of unknown function DUF221; Region: DUF221; pfam02714 640512005345 psiF repeat; Region: PsiF_repeat; pfam07769 640512005346 psiF repeat; Region: PsiF_repeat; pfam07769 640512005347 YciI-like protein; Reviewed; Region: PRK12866 640512005348 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 640512005349 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 640512005350 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 640512005351 Substrate binding site; other site 640512005352 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 640512005353 CoA-binding domain; Region: CoA_binding_3; pfam13727 640512005354 Bacterial sugar transferase; Region: Bac_transf; pfam02397 640512005355 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 640512005356 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 640512005357 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 640512005358 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 640512005359 Low molecular weight phosphatase family; Region: LMWPc; cl00105 640512005360 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 640512005361 active site 640512005362 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 640512005363 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 640512005364 SLBB domain; Region: SLBB; pfam10531 640512005365 SLBB domain; Region: SLBB; pfam10531 640512005366 Chain length determinant protein; Region: Wzz; cl15801 640512005367 tyrosine kinase; Provisional; Region: PRK11519 640512005368 Chain length determinant protein; Region: Wzz; cl15801 640512005369 Angiomotin C terminal; Region: Angiomotin_C; pfam12240 640512005370 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 640512005371 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 640512005372 P-loop; other site 640512005373 Magnesium ion binding site [ion binding]; other site 640512005374 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 640512005375 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 640512005376 active site 640512005377 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640512005378 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 640512005379 O-Antigen ligase; Region: Wzy_C; cl04850 640512005380 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 640512005381 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 640512005382 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640512005383 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 640512005384 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 640512005385 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 640512005386 NADP-binding site; other site 640512005387 homotetramer interface [polypeptide binding]; other site 640512005388 substrate binding site [chemical binding]; other site 640512005389 homodimer interface [polypeptide binding]; other site 640512005390 active site 640512005391 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 640512005392 active site 640512005393 catalytic triad [active] 640512005394 oxyanion hole [active] 640512005395 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 640512005396 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 640512005397 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 640512005398 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 640512005399 putative ADP-binding pocket [chemical binding]; other site 640512005400 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640512005401 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640512005402 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 640512005403 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 640512005404 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 640512005405 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 640512005406 active site 640512005407 tetramer interface; other site 640512005408 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 640512005409 active site 640512005410 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 640512005411 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 640512005412 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 640512005413 MOSC domain; Region: MOSC; pfam03473 640512005414 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 640512005415 active site 640512005416 SAM binding site [chemical binding]; other site 640512005417 homodimer interface [polypeptide binding]; other site 640512005418 nitrite reductase subunit NirD; Provisional; Region: PRK14989 640512005419 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640512005420 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 640512005421 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 640512005422 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 640512005423 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 640512005424 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 640512005425 [4Fe-4S] binding site [ion binding]; other site 640512005426 molybdopterin cofactor binding site; other site 640512005427 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 640512005428 molybdopterin cofactor binding site; other site 640512005429 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 640512005430 Flavodoxin; Region: Flavodoxin_1; pfam00258 640512005431 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 640512005432 FAD binding pocket [chemical binding]; other site 640512005433 FAD binding motif [chemical binding]; other site 640512005434 catalytic residues [active] 640512005435 NAD binding pocket [chemical binding]; other site 640512005436 phosphate binding motif [ion binding]; other site 640512005437 beta-alpha-beta structure motif; other site 640512005438 nitrite extrusion protein (nitrite facilitator); Region: 2A0108; TIGR00886 640512005439 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512005440 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 640512005441 MgtC family; Region: MgtC; pfam02308 640512005442 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640512005443 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 640512005444 trimer interface [polypeptide binding]; other site 640512005445 eyelet of channel; other site 640512005446 Escherichia coli lactaldehyde dehydrogenase AldA-like; Region: ALDH_LactADH-AldA; cd07088 640512005447 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640512005448 NAD binding site [chemical binding]; other site 640512005449 catalytic residues [active] 640512005450 substrate binding site [chemical binding]; other site 640512005451 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512005452 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 640512005453 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 640512005454 active site pocket [active] 640512005455 choline dehydrogenase; Validated; Region: PRK02106 640512005456 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 640512005457 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640512005458 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512005459 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 640512005460 dimerization interface [polypeptide binding]; other site 640512005461 substrate binding pocket [chemical binding]; other site 640512005462 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 640512005463 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 640512005464 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 640512005465 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 640512005466 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 640512005467 Transglycosylase; Region: Transgly; pfam00912 640512005468 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 640512005469 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 640512005470 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512005471 putative substrate translocation pore; other site 640512005472 Cupin domain; Region: Cupin_2; pfam07883 640512005473 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 640512005474 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 640512005475 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 640512005476 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_Amide_Urea_BP_like; cd06356 640512005477 putative ligand binding site [chemical binding]; other site 640512005478 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 640512005479 TM-ABC transporter signature motif; other site 640512005480 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 640512005481 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 640512005482 TM-ABC transporter signature motif; other site 640512005483 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 640512005484 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 640512005485 Walker A/P-loop; other site 640512005486 ATP binding site [chemical binding]; other site 640512005487 Q-loop/lid; other site 640512005488 ABC transporter signature motif; other site 640512005489 Walker B; other site 640512005490 D-loop; other site 640512005491 H-loop/switch region; other site 640512005492 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 640512005493 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 640512005494 Walker A/P-loop; other site 640512005495 ATP binding site [chemical binding]; other site 640512005496 Q-loop/lid; other site 640512005497 ABC transporter signature motif; other site 640512005498 Walker B; other site 640512005499 D-loop; other site 640512005500 H-loop/switch region; other site 640512005501 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 640512005502 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 640512005503 Periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family; Region: PBP1_AmiC; cd06357 640512005504 ligand binding site [chemical binding]; other site 640512005505 regulator interaction site; other site 640512005506 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 640512005507 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 640512005508 active site 640512005509 dimerization interface [polypeptide binding]; other site 640512005510 ANTAR domain; Region: ANTAR; pfam03861 640512005511 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640512005512 classical (c) SDRs; Region: SDR_c; cd05233 640512005513 NAD(P) binding site [chemical binding]; other site 640512005514 active site 640512005515 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 640512005516 Amidase; Region: Amidase; cl11426 640512005517 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 640512005518 BON domain; Region: BON; pfam04972 640512005519 BON domain; Region: BON; pfam04972 640512005520 BON domain; Region: BON; pfam04972 640512005521 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 640512005522 Ligand Binding Site [chemical binding]; other site 640512005523 LemA family; Region: LemA; cl00742 640512005524 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 640512005525 PAS domain; Region: PAS_9; pfam13426 640512005526 putative active site [active] 640512005527 heme pocket [chemical binding]; other site 640512005528 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 640512005529 Histidine kinase; Region: HisKA_3; pfam07730 640512005530 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512005531 ATP binding site [chemical binding]; other site 640512005532 Mg2+ binding site [ion binding]; other site 640512005533 G-X-G motif; other site 640512005534 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4876 640512005535 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640512005536 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640512005537 HlyD family secretion protein; Region: HlyD_3; pfam13437 640512005538 type VII secretion protein EsaA, N-terminal domain; Region: T7_esaA_Nterm; TIGR03929 640512005539 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 640512005540 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 640512005541 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 640512005542 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 640512005543 AAA domain; Region: AAA_33; pfam13671 640512005544 active site 640512005545 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 640512005546 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 640512005547 NAD(P) binding site [chemical binding]; other site 640512005548 homotetramer interface [polypeptide binding]; other site 640512005549 homodimer interface [polypeptide binding]; other site 640512005550 active site 640512005551 Poly-beta-hydroxybutyrate polymerase N terminal; Region: PHBC_N; pfam12551 640512005552 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 640512005553 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 640512005554 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 640512005555 putative FMN binding site [chemical binding]; other site 640512005556 NADPH bind site [chemical binding]; other site 640512005557 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 640512005558 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 640512005559 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 640512005560 hopanoid biosynthesis associated protein HpnK and similar proteins; Region: YdjC_HpnK_like; cd10804 640512005561 putative active site [active] 640512005562 YdjC motif; other site 640512005563 Mg binding site [ion binding]; other site 640512005564 putative homodimer interface [polypeptide binding]; other site 640512005565 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 640512005566 ligand binding site; other site 640512005567 Glycosyl transferase family 21; Region: Glyco_transf_21; pfam13506 640512005568 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 640512005569 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512005570 active site 640512005571 phosphorylation site [posttranslational modification] 640512005572 intermolecular recognition site; other site 640512005573 dimerization interface [polypeptide binding]; other site 640512005574 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 640512005575 DNA binding site [nucleotide binding] 640512005576 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 640512005577 dimer interface [polypeptide binding]; other site 640512005578 phosphorylation site [posttranslational modification] 640512005579 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512005580 ATP binding site [chemical binding]; other site 640512005581 Mg2+ binding site [ion binding]; other site 640512005582 G-X-G motif; other site 640512005583 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 640512005584 hopanoid biosynthesis associated radical SAM protein HpnJ; Region: HpnJ; TIGR03471 640512005585 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 640512005586 B12 binding site [chemical binding]; other site 640512005587 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 640512005588 FeS/SAM binding site; other site 640512005589 CreA protein; Region: CreA; pfam05981 640512005590 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 640512005591 Clp amino terminal domain; Region: Clp_N; pfam02861 640512005592 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 640512005593 Walker A motif; other site 640512005594 ATP binding site [chemical binding]; other site 640512005595 Walker B motif; other site 640512005596 arginine finger; other site 640512005597 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 640512005598 Walker A motif; other site 640512005599 ATP binding site [chemical binding]; other site 640512005600 Walker B motif; other site 640512005601 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 640512005602 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 640512005603 core domain interface [polypeptide binding]; other site 640512005604 delta subunit interface [polypeptide binding]; other site 640512005605 epsilon subunit interface [polypeptide binding]; other site 640512005606 F0F1 ATP synthase subunit alpha; Provisional; Region: PRK13343 640512005607 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 640512005608 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 640512005609 Walker A motif; other site 640512005610 ATP binding site [chemical binding]; other site 640512005611 Walker B motif; other site 640512005612 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 640512005613 alternate F1F0 ATPase, F0 subunit B; Region: alt_F1F0_F0_B; TIGR03321 640512005614 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 640512005615 F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]; Region: AtpH; cl17210 640512005616 F0F1 ATP synthase subunit C; Provisional; Region: PRK13468 640512005617 F0F1 ATP synthase subunit A; Provisional; Region: PRK13421 640512005618 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 640512005619 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 640512005620 F0F1 ATP synthase subunit epsilon; Provisional; Region: PRK13447 640512005621 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 640512005622 gamma subunit interface [polypeptide binding]; other site 640512005623 epsilon subunit interface [polypeptide binding]; other site 640512005624 LBP interface [polypeptide binding]; other site 640512005625 F0F1 ATP synthase subunit beta; Provisional; Region: PRK12597 640512005626 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 640512005627 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 640512005628 alpha subunit interaction interface [polypeptide binding]; other site 640512005629 Walker A motif; other site 640512005630 ATP binding site [chemical binding]; other site 640512005631 Walker B motif; other site 640512005632 inhibitor binding site; inhibition site 640512005633 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 640512005634 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 640512005635 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 640512005636 arginine deiminase; Provisional; Region: PRK01388 640512005637 ornithine carbamoyltransferase; Validated; Region: PRK02102 640512005638 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 640512005639 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 640512005640 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 640512005641 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 640512005642 putative substrate binding site [chemical binding]; other site 640512005643 nucleotide binding site [chemical binding]; other site 640512005644 nucleotide binding site [chemical binding]; other site 640512005645 homodimer interface [polypeptide binding]; other site 640512005646 Predicted integral membrane protein [Function unknown]; Region: COG5617 640512005647 hypothetical protein; Validated; Region: PRK08238 640512005648 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 640512005649 phosphoribose diphosphate:decaprenyl-phosphate phosphoribosyltransferase; Provisional; Region: PRK12324 640512005650 Peptidase C26; Region: Peptidase_C26; pfam07722 640512005651 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 640512005652 catalytic triad [active] 640512005653 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 640512005654 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 640512005655 putative aminotransferase; Validated; Region: PRK07480 640512005656 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 640512005657 inhibitor-cofactor binding pocket; inhibition site 640512005658 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640512005659 catalytic residue [active] 640512005660 tellurium resistance terB-like protein; Region: terB_like; cd07177 640512005661 metal binding site [ion binding]; metal-binding site 640512005662 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 640512005663 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512005664 The 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 640512005665 dimerization interface [polypeptide binding]; other site 640512005666 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 640512005667 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640512005668 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 640512005669 DNA binding residues [nucleotide binding] 640512005670 dimerization interface [polypeptide binding]; other site 640512005671 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512005672 phosphoglycerate transporter family protein; Region: 2A0104; TIGR00881 640512005673 putative substrate translocation pore; other site 640512005674 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512005675 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 640512005676 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 640512005677 putative ligand binding site [chemical binding]; other site 640512005678 NAD binding site [chemical binding]; other site 640512005679 catalytic site [active] 640512005680 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 640512005681 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512005682 The 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 640512005683 dimerization interface [polypeptide binding]; other site 640512005684 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 640512005685 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512005686 The 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 640512005687 dimerization interface [polypeptide binding]; other site 640512005688 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 640512005689 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 640512005690 DNA binding site [nucleotide binding] 640512005691 Predicted ATPase [General function prediction only]; Region: COG3903 640512005692 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 640512005693 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 640512005694 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 640512005695 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 640512005696 ligand binding site [chemical binding]; other site 640512005697 flexible hinge region; other site 640512005698 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 640512005699 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 640512005700 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 640512005701 KH domain; Region: KH_3; pfam13014 640512005702 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 640512005703 HD domain protein, cyanamide hydratase family; Region: cyanamide_fam; TIGR03401 640512005704 Mechanosensitive ion channel; Region: MS_channel; pfam00924 640512005705 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 640512005706 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 640512005707 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 640512005708 ligand binding site [chemical binding]; other site 640512005709 flexible hinge region; other site 640512005710 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 640512005711 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 640512005712 active site 640512005713 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 640512005714 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 640512005715 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 640512005716 dimerization interface [polypeptide binding]; other site 640512005717 DPS ferroxidase diiron center [ion binding]; other site 640512005718 ion pore; other site 640512005719 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 640512005720 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 640512005721 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 640512005722 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512005723 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640512005724 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 640512005725 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 640512005726 DNA binding site [nucleotide binding] 640512005727 Predicted ATPase [General function prediction only]; Region: COG3903 640512005728 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 640512005729 TPR motif; other site 640512005730 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 640512005731 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 640512005732 active site 640512005733 motif I; other site 640512005734 motif II; other site 640512005735 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 640512005736 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 640512005737 ATP binding site [chemical binding]; other site 640512005738 putative Mg++ binding site [ion binding]; other site 640512005739 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640512005740 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 640512005741 putative ADP-binding pocket [chemical binding]; other site 640512005742 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 640512005743 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 640512005744 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 640512005745 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 640512005746 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 640512005747 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640512005748 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 640512005749 TM-ABC transporter signature motif; other site 640512005750 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 640512005751 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640512005752 Walker A/P-loop; other site 640512005753 ATP binding site [chemical binding]; other site 640512005754 Q-loop/lid; other site 640512005755 ABC transporter signature motif; other site 640512005756 Walker B; other site 640512005757 D-loop; other site 640512005758 H-loop/switch region; other site 640512005759 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 640512005760 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 640512005761 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640512005762 ligand binding site [chemical binding]; other site 640512005763 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640512005764 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 640512005765 TM-ABC transporter signature motif; other site 640512005766 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 640512005767 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 640512005768 substrate binding site [chemical binding]; other site 640512005769 dimer interface [polypeptide binding]; other site 640512005770 ATP binding site [chemical binding]; other site 640512005771 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 640512005772 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 640512005773 NAD(P) binding site [chemical binding]; other site 640512005774 catalytic residues [active] 640512005775 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 640512005776 NAD(P) binding site [chemical binding]; other site 640512005777 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 640512005778 intersubunit interface [polypeptide binding]; other site 640512005779 active site 640512005780 catalytic residue [active] 640512005781 Domain of unknown function (DUF2760); Region: DUF2760; pfam10816 640512005782 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 640512005783 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 640512005784 nucleotide binding site [chemical binding]; other site 640512005785 putative NEF/HSP70 interaction site [polypeptide binding]; other site 640512005786 SBD interface [polypeptide binding]; other site 640512005787 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 640512005788 nucleotide binding site [chemical binding]; other site 640512005789 putative NEF/HSP70 interaction site [polypeptide binding]; other site 640512005790 SBD interface [polypeptide binding]; other site 640512005791 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 640512005792 DNA-K related protein; Region: DUF3731; pfam12531 640512005793 Uncharacterized conserved protein [Function unknown]; Region: COG5361 640512005794 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 640512005795 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 640512005796 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640512005797 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 640512005798 NAD(P) binding site [chemical binding]; other site 640512005799 active site 640512005800 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 640512005801 Activator of osmoprotectant transporter ProP [Signal transduction mechanisms]; Region: ProQ; COG3109 640512005802 ProQ/FINO family; Region: ProQ; pfam04352 640512005803 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 640512005804 DNA-binding site [nucleotide binding]; DNA binding site 640512005805 RNA-binding motif; other site 640512005806 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640512005807 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 640512005808 tetramerization interface [polypeptide binding]; other site 640512005809 NAD(P) binding site [chemical binding]; other site 640512005810 catalytic residues [active] 640512005811 2-keto-3-deoxygluconate permease; Region: KdgT; cl14653 640512005812 5-keto-4-deoxyuronate isomerase; Provisional; Region: PRK00924 640512005813 2-deoxy-D-gluconate 3-dehydrogenase; Region: kduD; TIGR01832 640512005814 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 640512005815 NADP binding site [chemical binding]; other site 640512005816 homodimer interface [polypeptide binding]; other site 640512005817 active site 640512005818 DNA-binding transcriptional regulator KdgR; Provisional; Region: PRK15090 640512005819 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 640512005820 dimerization interface [polypeptide binding]; other site 640512005821 putative Zn2+ binding site [ion binding]; other site 640512005822 putative DNA binding site [nucleotide binding]; other site 640512005823 Bacterial transcriptional regulator; Region: IclR; pfam01614 640512005824 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 640512005825 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 640512005826 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 640512005827 threonine dehydratase; Reviewed; Region: PRK09224 640512005828 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 640512005829 tetramer interface [polypeptide binding]; other site 640512005830 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640512005831 catalytic residue [active] 640512005832 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 640512005833 putative Ile/Val binding site [chemical binding]; other site 640512005834 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 640512005835 putative Ile/Val binding site [chemical binding]; other site 640512005836 exosortase A system-associated hydrolase 2; Region: hydr2_PEP; TIGR03101 640512005837 exosortase A system-associated hydrolase 1; Region: hydr1_PEP; TIGR03100 640512005838 acyl carrier protein; Provisional; Region: PRK07081 640512005839 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 640512005840 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 640512005841 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 640512005842 acyl-activating enzyme (AAE) consensus motif; other site 640512005843 AMP binding site [chemical binding]; other site 640512005844 Type IV secretory pathway, VirJ component [Intracellular trafficking and secretion]; Region: VirJ; COG3946 640512005845 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 640512005846 Predicted integral membrane protein [Function unknown]; Region: COG0392 640512005847 Uncharacterized conserved protein [Function unknown]; Region: COG2898 640512005848 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 640512005849 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512005850 putative transporter; Provisional; Region: PRK10504 640512005851 putative substrate translocation pore; other site 640512005852 Predicted membrane protein [Function unknown]; Region: COG2323 640512005853 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 640512005854 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 640512005855 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640512005856 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 640512005857 Uncharacterized conserved protein [Function unknown]; Region: COG2128 640512005858 putative transporter; Provisional; Region: PRK10504 640512005859 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512005860 putative substrate translocation pore; other site 640512005861 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512005862 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512005863 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 640512005864 putative effector binding pocket; other site 640512005865 dimerization interface [polypeptide binding]; other site 640512005866 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 640512005867 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 640512005868 active site 640512005869 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 640512005870 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512005871 putative substrate translocation pore; other site 640512005872 Protein of unknown function (DUF3620); Region: DUF3620; cl02233 640512005873 SpoVR family protein; Provisional; Region: PRK11767 640512005874 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 640512005875 hypothetical protein; Provisional; Region: PRK05325 640512005876 PrkA family serine protein kinase; Provisional; Region: PRK15455 640512005877 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 640512005878 Walker A motif; other site 640512005879 ATP binding site [chemical binding]; other site 640512005880 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 640512005881 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 640512005882 Tar ligand binding domain homologue; Region: TarH; pfam02203 640512005883 ligand binding site [chemical binding]; other site 640512005884 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 640512005885 dimerization interface [polypeptide binding]; other site 640512005886 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 640512005887 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640512005888 dimer interface [polypeptide binding]; other site 640512005889 putative CheW interface [polypeptide binding]; other site 640512005890 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 640512005891 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 640512005892 substrate binding site [chemical binding]; other site 640512005893 dimer interface [polypeptide binding]; other site 640512005894 ATP binding site [chemical binding]; other site 640512005895 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640512005896 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640512005897 DNA binding site [nucleotide binding] 640512005898 domain linker motif; other site 640512005899 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 640512005900 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 640512005901 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640512005902 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 640512005903 TM-ABC transporter signature motif; other site 640512005904 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 640512005905 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 640512005906 Walker A/P-loop; other site 640512005907 ATP binding site [chemical binding]; other site 640512005908 Q-loop/lid; other site 640512005909 ABC transporter signature motif; other site 640512005910 Walker B; other site 640512005911 D-loop; other site 640512005912 H-loop/switch region; other site 640512005913 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 640512005914 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 640512005915 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640512005916 ligand binding site [chemical binding]; other site 640512005917 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 640512005918 Mycobacterium tuberculosis CorA-like subfamily; Region: MtCorA-like; cd12830 640512005919 oligomer interface [polypeptide binding]; other site 640512005920 metal binding site [ion binding]; metal-binding site 640512005921 metal binding site [ion binding]; metal-binding site 640512005922 putative Cl binding site [ion binding]; other site 640512005923 basic sphincter; other site 640512005924 hydrophobic gate; other site 640512005925 periplasmic entrance; other site 640512005926 AAA domain; Region: AAA_33; pfam13671 640512005927 AAA domain; Region: AAA_17; pfam13207 640512005928 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 640512005929 TrkA-N domain; Region: TrkA_N; pfam02254 640512005930 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 640512005931 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 640512005932 AsnC family; Region: AsnC_trans_reg; pfam01037 640512005933 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512005934 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512005935 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 640512005936 putative effector binding pocket; other site 640512005937 putative dimerization interface [polypeptide binding]; other site 640512005938 LTXXQ motif family protein; Region: LTXXQ; pfam07813 640512005939 PGDYG protein; Region: PGDYG; pfam14083 640512005940 Protein of unknown function (DUF3022); Region: DUF3022; pfam11226 640512005941 Putative membrane peptidase family (DUF2324); Region: DUF2324; pfam10086 640512005942 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640512005943 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640512005944 DNA binding site [nucleotide binding] 640512005945 domain linker motif; other site 640512005946 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 640512005947 putative dimerization interface [polypeptide binding]; other site 640512005948 putative ligand binding site [chemical binding]; other site 640512005949 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 640512005950 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 640512005951 dimerization interface [polypeptide binding]; other site 640512005952 ligand binding site [chemical binding]; other site 640512005953 NADP binding site [chemical binding]; other site 640512005954 catalytic site [active] 640512005955 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512005956 D-galactonate transporter; Region: 2A0114; TIGR00893 640512005957 putative substrate translocation pore; other site 640512005958 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 640512005959 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 640512005960 substrate binding site [chemical binding]; other site 640512005961 ATP binding site [chemical binding]; other site 640512005962 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 640512005963 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512005964 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512005965 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 640512005966 putative dimerization interface [polypeptide binding]; other site 640512005967 Predicted membrane protein [Function unknown]; Region: COG2855 640512005968 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 640512005969 glutathione s-transferase; Provisional; Region: PTZ00057 640512005970 GSH binding site (G-site) [chemical binding]; other site 640512005971 C-terminal domain interface [polypeptide binding]; other site 640512005972 dimer interface [polypeptide binding]; other site 640512005973 C-terminal, alpha helical domain of Class Sigma-like Glutathione S-transferases; Region: GST_C_Sigma_like; cd03192 640512005974 dimer interface [polypeptide binding]; other site 640512005975 N-terminal domain interface [polypeptide binding]; other site 640512005976 substrate binding pocket (H-site) [chemical binding]; other site 640512005977 putative voltage-gated ClC-type chloride channel ClcB; Provisional; Region: PRK01862 640512005978 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 640512005979 Cl- selectivity filter; other site 640512005980 Cl- binding residues [ion binding]; other site 640512005981 pore gating glutamate residue; other site 640512005982 dimer interface [polypeptide binding]; other site 640512005983 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 640512005984 Phospholipase B; Region: Phospholip_B; pfam04916 640512005985 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 640512005986 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 640512005987 Helix-turn-helix domain; Region: HTH_18; pfam12833 640512005988 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512005989 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 640512005990 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512005991 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512005992 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 640512005993 putative effector binding pocket; other site 640512005994 dimerization interface [polypeptide binding]; other site 640512005995 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640512005996 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640512005997 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 640512005998 HlyD family secretion protein; Region: HlyD_3; pfam13437 640512005999 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 640512006000 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640512006001 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 640512006002 Transglycosylase; Region: Transgly; pfam00912 640512006003 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 640512006004 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 640512006005 Tetratricopeptide repeat; Region: TPR_16; pfam13432 640512006006 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 640512006007 TPR motif; other site 640512006008 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640512006009 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640512006010 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 640512006011 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 640512006012 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640512006013 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 640512006014 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640512006015 dimer interface [polypeptide binding]; other site 640512006016 putative CheW interface [polypeptide binding]; other site 640512006017 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 640512006018 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512006019 dimer interface [polypeptide binding]; other site 640512006020 conserved gate region; other site 640512006021 putative PBP binding loops; other site 640512006022 ABC-ATPase subunit interface; other site 640512006023 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512006024 dimer interface [polypeptide binding]; other site 640512006025 conserved gate region; other site 640512006026 putative PBP binding loops; other site 640512006027 ABC-ATPase subunit interface; other site 640512006028 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 640512006029 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640512006030 Walker A/P-loop; other site 640512006031 ATP binding site [chemical binding]; other site 640512006032 Q-loop/lid; other site 640512006033 ABC transporter signature motif; other site 640512006034 Walker B; other site 640512006035 D-loop; other site 640512006036 H-loop/switch region; other site 640512006037 TOBE domain; Region: TOBE_2; pfam08402 640512006038 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 640512006039 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 640512006040 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; cl15845 640512006041 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 640512006042 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 640512006043 dimerization interface [polypeptide binding]; other site 640512006044 substrate binding site [chemical binding]; other site 640512006045 active site 640512006046 calcium binding site [ion binding]; other site 640512006047 Predicted Fe-S protein [General function prediction only]; Region: COG3313 640512006048 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 640512006049 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 640512006050 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 640512006051 FMN binding site [chemical binding]; other site 640512006052 substrate binding site [chemical binding]; other site 640512006053 putative catalytic residue [active] 640512006054 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 640512006055 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640512006056 NAD binding site [chemical binding]; other site 640512006057 catalytic residues [active] 640512006058 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 640512006059 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 640512006060 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 640512006061 ABC transporter; Region: ABC_tran_2; pfam12848 640512006062 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 640512006063 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 640512006064 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 640512006065 Dodecin; Region: Dodecin; pfam07311 640512006066 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 640512006067 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 640512006068 putative ligand binding site [chemical binding]; other site 640512006069 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 640512006070 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640512006071 TM-ABC transporter signature motif; other site 640512006072 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640512006073 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 640512006074 TM-ABC transporter signature motif; other site 640512006075 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 640512006076 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 640512006077 Walker A/P-loop; other site 640512006078 ATP binding site [chemical binding]; other site 640512006079 Q-loop/lid; other site 640512006080 ABC transporter signature motif; other site 640512006081 Walker B; other site 640512006082 D-loop; other site 640512006083 H-loop/switch region; other site 640512006084 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 640512006085 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512006086 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512006087 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 640512006088 putative substrate binding pocket [chemical binding]; other site 640512006089 putative dimerization interface [polypeptide binding]; other site 640512006090 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 640512006091 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 640512006092 active site 640512006093 putative substrate binding pocket [chemical binding]; other site 640512006094 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 640512006095 active site 640512006096 homotetramer interface [polypeptide binding]; other site 640512006097 Predicted membrane protein [Function unknown]; Region: COG3748 640512006098 Protein of unknown function (DUF989); Region: DUF989; pfam06181 640512006099 Cytochrome c; Region: Cytochrom_C; pfam00034 640512006100 Transposase, Mutator family; Region: Transposase_mut; pfam00872 640512006101 MULE transposase domain; Region: MULE; pfam10551 640512006102 ureidoglycolate hydrolase; Provisional; Region: PRK03606 640512006103 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 640512006104 allantoicase; Provisional; Region: PRK13257 640512006105 Allantoicase repeat; Region: Allantoicase; pfam03561 640512006106 Allantoicase repeat; Region: Allantoicase; pfam03561 640512006107 OHCU decarboxylase; Region: UHCUDC; TIGR03164 640512006108 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 640512006109 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 640512006110 active site 640512006111 catalytic site [active] 640512006112 tetramer interface [polypeptide binding]; other site 640512006113 Hydantoin racemase [Amino acid transport and metabolism]; Region: COG4126 640512006114 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 640512006115 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 640512006116 Na binding site [ion binding]; other site 640512006117 putative substrate binding site [chemical binding]; other site 640512006118 Transcriptional regulators [Transcription]; Region: GntR; COG1802 640512006119 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640512006120 DNA-binding site [nucleotide binding]; DNA binding site 640512006121 FCD domain; Region: FCD; pfam07729 640512006122 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 640512006123 dimer interface [polypeptide binding]; other site 640512006124 catalytic triad [active] 640512006125 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 640512006126 nucleoside/Zn binding site; other site 640512006127 dimer interface [polypeptide binding]; other site 640512006128 catalytic motif [active] 640512006129 Domain of unknown function (DUF1992); Region: DUF1992; cl08096 640512006130 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 640512006131 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 640512006132 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 640512006133 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 640512006134 FeS/SAM binding site; other site 640512006135 Domain of unknown function (DUF4130; Region: DUF4130; pfam13566 640512006136 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 640512006137 Fe-S cluster binding site [ion binding]; other site 640512006138 active site 640512006139 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 640512006140 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 640512006141 Chromate transporter; Region: Chromate_transp; pfam02417 640512006142 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 640512006143 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 640512006144 Low affinity iron permease; Region: Iron_permease; pfam04120 640512006145 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 640512006146 HAMP domain; Region: HAMP; pfam00672 640512006147 dimerization interface [polypeptide binding]; other site 640512006148 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640512006149 dimer interface [polypeptide binding]; other site 640512006150 putative CheW interface [polypeptide binding]; other site 640512006151 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 640512006152 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 640512006153 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 640512006154 Moco binding site; other site 640512006155 metal coordination site [ion binding]; other site 640512006156 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 640512006157 Shikimate / quinate 5-dehydrogenase; Region: Shikimate_DH; pfam01488 640512006158 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640512006159 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512006160 ATP binding site [chemical binding]; other site 640512006161 Mg2+ binding site [ion binding]; other site 640512006162 G-X-G motif; other site 640512006163 Response regulator receiver domain; Region: Response_reg; pfam00072 640512006164 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512006165 active site 640512006166 phosphorylation site [posttranslational modification] 640512006167 intermolecular recognition site; other site 640512006168 dimerization interface [polypeptide binding]; other site 640512006169 Response regulator receiver domain; Region: Response_reg; pfam00072 640512006170 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512006171 active site 640512006172 phosphorylation site [posttranslational modification] 640512006173 intermolecular recognition site; other site 640512006174 dimerization interface [polypeptide binding]; other site 640512006175 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 640512006176 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 640512006177 membrane-bound complex binding site; other site 640512006178 hinge residues; other site 640512006179 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512006180 active site 640512006181 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640512006182 phosphorylation site [posttranslational modification] 640512006183 intermolecular recognition site; other site 640512006184 dimerization interface [polypeptide binding]; other site 640512006185 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 640512006186 dimer interface [polypeptide binding]; other site 640512006187 phosphorylation site [posttranslational modification] 640512006188 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512006189 ATP binding site [chemical binding]; other site 640512006190 Mg2+ binding site [ion binding]; other site 640512006191 G-X-G motif; other site 640512006192 putative sialic acid transporter; Region: 2A0112; TIGR00891 640512006193 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512006194 putative substrate translocation pore; other site 640512006195 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640512006196 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640512006197 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 640512006198 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640512006199 active site 640512006200 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 640512006201 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08261 640512006202 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640512006203 active site 640512006204 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640512006205 NAD(P) binding site [chemical binding]; other site 640512006206 active site 640512006207 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 640512006208 active site 2 [active] 640512006209 active site 1 [active] 640512006210 acetyl-CoA acetyltransferase; Provisional; Region: PRK09268 640512006211 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 640512006212 dimer interface [polypeptide binding]; other site 640512006213 active site 640512006214 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 640512006215 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 640512006216 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 640512006217 acyl-activating enzyme (AAE) consensus motif; other site 640512006218 putative AMP binding site [chemical binding]; other site 640512006219 putative active site [active] 640512006220 putative CoA binding site [chemical binding]; other site 640512006221 Protein of unknown function (DUF1571); Region: DUF1571; pfam07608 640512006222 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 640512006223 FAD binding domain; Region: FAD_binding_4; pfam01565 640512006224 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 640512006225 Pleckstrin homology-like domain; Region: PH-like; cl17171 640512006226 RNA polymerase sigma factor; Provisional; Region: PRK12547 640512006227 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640512006228 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 640512006229 DNA binding residues [nucleotide binding] 640512006230 bacterial Hfq-like; Region: Hfq; cd01716 640512006231 hexamer interface [polypeptide binding]; other site 640512006232 Sm1 motif; other site 640512006233 RNA binding site [nucleotide binding]; other site 640512006234 Sm2 motif; other site 640512006235 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 640512006236 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 640512006237 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 640512006238 Walker A motif; other site 640512006239 ATP binding site [chemical binding]; other site 640512006240 Walker B motif; other site 640512006241 arginine finger; other site 640512006242 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 640512006243 Predicted membrane protein [Function unknown]; Region: COG4655 640512006244 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 640512006245 Protein of unknown function (DUF3613); Region: DUF3613; pfam12266 640512006246 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 640512006247 binding surface 640512006248 TPR motif; other site 640512006249 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 640512006250 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 640512006251 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 640512006252 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 640512006253 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 640512006254 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 640512006255 ATP binding site [chemical binding]; other site 640512006256 Walker A motif; other site 640512006257 hexamer interface [polypeptide binding]; other site 640512006258 Walker B motif; other site 640512006259 AAA domain; Region: AAA_31; pfam13614 640512006260 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 640512006261 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 640512006262 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 640512006263 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 640512006264 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 640512006265 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 640512006266 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 640512006267 TadE-like protein; Region: TadE; pfam07811 640512006268 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 640512006269 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 640512006270 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 640512006271 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 640512006272 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 640512006273 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 640512006274 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 640512006275 Predicted ATPase [General function prediction only]; Region: COG1485 640512006276 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640512006277 Walker B; other site 640512006278 D-loop; other site 640512006279 H-loop/switch region; other site 640512006280 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 640512006281 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640512006282 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 640512006283 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 640512006284 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 640512006285 E3 interaction surface; other site 640512006286 lipoyl attachment site [posttranslational modification]; other site 640512006287 e3 binding domain; Region: E3_binding; pfam02817 640512006288 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 640512006289 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 640512006290 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 640512006291 TPP-binding site [chemical binding]; other site 640512006292 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 640512006293 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 640512006294 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 640512006295 G1 box; other site 640512006296 putative GEF interaction site [polypeptide binding]; other site 640512006297 GTP/Mg2+ binding site [chemical binding]; other site 640512006298 Switch I region; other site 640512006299 G2 box; other site 640512006300 G3 box; other site 640512006301 Switch II region; other site 640512006302 G4 box; other site 640512006303 G5 box; other site 640512006304 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 640512006305 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 640512006306 Transcriptional regulators [Transcription]; Region: MarR; COG1846 640512006307 MarR family; Region: MarR_2; pfam12802 640512006308 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640512006309 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 640512006310 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640512006311 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 640512006312 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 640512006313 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512006314 putative substrate translocation pore; other site 640512006315 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512006316 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 640512006317 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 640512006318 RNA binding site [nucleotide binding]; other site 640512006319 active site 640512006320 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 640512006321 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 640512006322 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 640512006323 translation initiation factor IF-2; Region: IF-2; TIGR00487 640512006324 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 640512006325 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 640512006326 G1 box; other site 640512006327 putative GEF interaction site [polypeptide binding]; other site 640512006328 GTP/Mg2+ binding site [chemical binding]; other site 640512006329 Switch I region; other site 640512006330 G2 box; other site 640512006331 G3 box; other site 640512006332 Switch II region; other site 640512006333 G4 box; other site 640512006334 G5 box; other site 640512006335 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 640512006336 Translation-initiation factor 2; Region: IF-2; pfam11987 640512006337 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 640512006338 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 640512006339 NusA N-terminal domain; Region: NusA_N; pfam08529 640512006340 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 640512006341 RNA binding site [nucleotide binding]; other site 640512006342 homodimer interface [polypeptide binding]; other site 640512006343 NusA-like KH domain; Region: KH_5; pfam13184 640512006344 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 640512006345 G-X-X-G motif; other site 640512006346 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 640512006347 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 640512006348 ribosome maturation protein RimP; Reviewed; Region: PRK00092 640512006349 Sm and related proteins; Region: Sm_like; cl00259 640512006350 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 640512006351 putative oligomer interface [polypeptide binding]; other site 640512006352 putative RNA binding site [nucleotide binding]; other site 640512006353 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 640512006354 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 640512006355 RNA binding surface [nucleotide binding]; other site 640512006356 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 640512006357 probable active site [active] 640512006358 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 640512006359 aspartate aminotransferase; Provisional; Region: PRK06108 640512006360 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 640512006361 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640512006362 homodimer interface [polypeptide binding]; other site 640512006363 catalytic residue [active] 640512006364 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512006365 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512006366 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 640512006367 putative dimerization interface [polypeptide binding]; other site 640512006368 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 640512006369 Uncharacterized conserved protein [Function unknown]; Region: COG1434 640512006370 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 640512006371 putative active site [active] 640512006372 Uncharacterized conserved protein [Function unknown]; Region: COG1359 640512006373 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 640512006374 hypothetical protein; Provisional; Region: PRK09256 640512006375 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 640512006376 AAA domain; Region: AAA_30; pfam13604 640512006377 Family description; Region: UvrD_C_2; pfam13538 640512006378 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 640512006379 Family description; Region: UvrD_C_2; pfam13538 640512006380 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 640512006381 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 640512006382 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 640512006383 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 640512006384 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 640512006385 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 640512006386 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 640512006387 putative DNA binding site [nucleotide binding]; other site 640512006388 putative Zn2+ binding site [ion binding]; other site 640512006389 AsnC family; Region: AsnC_trans_reg; pfam01037 640512006390 Cysteine dioxygenase type I; Region: CDO_I; pfam05995 640512006391 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 640512006392 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 640512006393 Mechanosensitive ion channel; Region: MS_channel; pfam00924 640512006394 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 640512006395 NADH(P)-binding; Region: NAD_binding_10; pfam13460 640512006396 NAD binding site [chemical binding]; other site 640512006397 substrate binding site [chemical binding]; other site 640512006398 putative active site [active] 640512006399 Predicted transcriptional regulator [Transcription]; Region: COG1959 640512006400 Transcriptional regulator; Region: Rrf2; pfam02082 640512006401 intracellular protease, PfpI family; Region: PfpI; TIGR01382 640512006402 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 640512006403 conserved cys residue [active] 640512006404 CHASE3 domain; Region: CHASE3; pfam05227 640512006405 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 640512006406 dimer interface [polypeptide binding]; other site 640512006407 phosphorylation site [posttranslational modification] 640512006408 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512006409 ATP binding site [chemical binding]; other site 640512006410 Mg2+ binding site [ion binding]; other site 640512006411 G-X-G motif; other site 640512006412 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 640512006413 chromosome condensation membrane protein; Provisional; Region: PRK14196 640512006414 PRC-barrel domain; Region: PRC; pfam05239 640512006415 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 640512006416 Domain of unknown function (DUF3597); Region: DUF3597; pfam12200 640512006417 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 640512006418 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 640512006419 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 640512006420 putative active site [active] 640512006421 putative PHP Thumb interface [polypeptide binding]; other site 640512006422 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 640512006423 generic binding surface I; other site 640512006424 generic binding surface II; other site 640512006425 DNA Polymerase Y-family; Region: PolY_like; cd03468 640512006426 active site 640512006427 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 640512006428 DNA binding site [nucleotide binding] 640512006429 Uncharacterized conserved protein [Function unknown]; Region: COG4544 640512006430 NIPSNAP; Region: NIPSNAP; pfam07978 640512006431 NIPSNAP; Region: NIPSNAP; pfam07978 640512006432 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512006433 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512006434 The 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 640512006435 dimerization interface [polypeptide binding]; other site 640512006436 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 640512006437 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640512006438 Walker A/P-loop; other site 640512006439 ATP binding site [chemical binding]; other site 640512006440 Q-loop/lid; other site 640512006441 ABC transporter signature motif; other site 640512006442 Walker B; other site 640512006443 D-loop; other site 640512006444 H-loop/switch region; other site 640512006445 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 640512006446 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 640512006447 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640512006448 Walker A/P-loop; other site 640512006449 ATP binding site [chemical binding]; other site 640512006450 Q-loop/lid; other site 640512006451 ABC transporter signature motif; other site 640512006452 Walker B; other site 640512006453 D-loop; other site 640512006454 H-loop/switch region; other site 640512006455 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 640512006456 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_5; cd08511 640512006457 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 640512006458 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 640512006459 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512006460 dimer interface [polypeptide binding]; other site 640512006461 conserved gate region; other site 640512006462 ABC-ATPase subunit interface; other site 640512006463 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 640512006464 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512006465 putative PBP binding loops; other site 640512006466 dimer interface [polypeptide binding]; other site 640512006467 ABC-ATPase subunit interface; other site 640512006468 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 640512006469 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 640512006470 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 640512006471 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512006472 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640512006473 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640512006474 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 640512006475 NAD(P) binding site [chemical binding]; other site 640512006476 active site 640512006477 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 640512006478 active site 640512006479 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 640512006480 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 640512006481 catalytic site [active] 640512006482 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 640512006483 PAS domain; Region: PAS_9; pfam13426 640512006484 putative active site [active] 640512006485 heme pocket [chemical binding]; other site 640512006486 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640512006487 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 640512006488 dimer interface [polypeptide binding]; other site 640512006489 phosphorylation site [posttranslational modification] 640512006490 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512006491 ATP binding site [chemical binding]; other site 640512006492 Mg2+ binding site [ion binding]; other site 640512006493 G-X-G motif; other site 640512006494 Response regulator receiver domain; Region: Response_reg; pfam00072 640512006495 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512006496 active site 640512006497 phosphorylation site [posttranslational modification] 640512006498 intermolecular recognition site; other site 640512006499 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 640512006500 active site 640512006501 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 640512006502 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 640512006503 active site 640512006504 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG5610 640512006505 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 640512006506 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 640512006507 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 640512006508 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 640512006509 Fusaric acid resistance protein family; Region: FUSC; pfam04632 640512006510 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512006511 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512006512 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 640512006513 putative effector binding pocket; other site 640512006514 dimerization interface [polypeptide binding]; other site 640512006515 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 640512006516 L-lactate permease; Region: Lactate_perm; cl00701 640512006517 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 640512006518 manganese transport protein MntH; Reviewed; Region: PRK00701 640512006519 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 640512006520 Transcriptional regulators [Transcription]; Region: GntR; COG1802 640512006521 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640512006522 DNA-binding site [nucleotide binding]; DNA binding site 640512006523 FCD domain; Region: FCD; pfam07729 640512006524 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 640512006525 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 640512006526 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 640512006527 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 640512006528 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512006529 metabolite-proton symporter; Region: 2A0106; TIGR00883 640512006530 putative substrate translocation pore; other site 640512006531 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 640512006532 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 640512006533 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640512006534 NAD binding site [chemical binding]; other site 640512006535 catalytic residues [active] 640512006536 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 640512006537 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 640512006538 NIPSNAP; Region: NIPSNAP; pfam07978 640512006539 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 640512006540 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 640512006541 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 640512006542 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 640512006543 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640512006544 NAD(P) binding site [chemical binding]; other site 640512006545 active site 640512006546 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 640512006547 benzoate transport; Region: 2A0115; TIGR00895 640512006548 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512006549 putative substrate translocation pore; other site 640512006550 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512006551 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512006552 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512006553 The 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 640512006554 dimerization interface [polypeptide binding]; other site 640512006555 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 640512006556 EamA-like transporter family; Region: EamA; pfam00892 640512006557 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 640512006558 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 640512006559 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 640512006560 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640512006561 Walker A/P-loop; other site 640512006562 ATP binding site [chemical binding]; other site 640512006563 Q-loop/lid; other site 640512006564 ABC transporter signature motif; other site 640512006565 Walker B; other site 640512006566 D-loop; other site 640512006567 H-loop/switch region; other site 640512006568 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; cl01250 640512006569 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512006570 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512006571 The 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 640512006572 dimerization interface [polypeptide binding]; other site 640512006573 amidase; Provisional; Region: PRK07056 640512006574 Amidase; Region: Amidase; cl11426 640512006575 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 640512006576 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 640512006577 dimerization interface [polypeptide binding]; other site 640512006578 ligand binding site [chemical binding]; other site 640512006579 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 640512006580 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 640512006581 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640512006582 HlyD family secretion protein; Region: HlyD_3; pfam13437 640512006583 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640512006584 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 640512006585 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 640512006586 dimerization interface [polypeptide binding]; other site 640512006587 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 640512006588 dimer interface [polypeptide binding]; other site 640512006589 phosphorylation site [posttranslational modification] 640512006590 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512006591 ATP binding site [chemical binding]; other site 640512006592 Mg2+ binding site [ion binding]; other site 640512006593 G-X-G motif; other site 640512006594 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 640512006595 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512006596 active site 640512006597 phosphorylation site [posttranslational modification] 640512006598 intermolecular recognition site; other site 640512006599 dimerization interface [polypeptide binding]; other site 640512006600 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 640512006601 DNA binding site [nucleotide binding] 640512006602 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 640512006603 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640512006604 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640512006605 NAD(P) binding site [chemical binding]; other site 640512006606 active site 640512006607 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 640512006608 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 640512006609 putative NAD(P) binding site [chemical binding]; other site 640512006610 catalytic Zn binding site [ion binding]; other site 640512006611 acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional; Region: PRK14875 640512006612 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 640512006613 E3 interaction surface; other site 640512006614 lipoyl attachment site [posttranslational modification]; other site 640512006615 PGAP1-like protein; Region: PGAP1; pfam07819 640512006616 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 640512006617 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 640512006618 alpha subunit interface [polypeptide binding]; other site 640512006619 TPP binding site [chemical binding]; other site 640512006620 heterodimer interface [polypeptide binding]; other site 640512006621 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 640512006622 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 640512006623 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 640512006624 tetramer interface [polypeptide binding]; other site 640512006625 TPP-binding site [chemical binding]; other site 640512006626 heterodimer interface [polypeptide binding]; other site 640512006627 phosphorylation loop region [posttranslational modification] 640512006628 Predicted inorganic polyphosphate/ATP-NAD kinase [General function prediction only]; Region: COG3199 640512006629 ATP-NAD kinase; Region: NAD_kinase; pfam01513 640512006630 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 640512006631 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 640512006632 Walker A motif; other site 640512006633 ATP binding site [chemical binding]; other site 640512006634 Walker B motif; other site 640512006635 arginine finger; other site 640512006636 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 640512006637 DNA-binding interface [nucleotide binding]; DNA binding site 640512006638 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 640512006639 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512006640 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 640512006641 putative dimerization interface [polypeptide binding]; other site 640512006642 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640512006643 hydroxyglutarate oxidase; Provisional; Region: PRK11728 640512006644 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 640512006645 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 640512006646 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 640512006647 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 640512006648 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 640512006649 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 640512006650 substrate binding pocket [chemical binding]; other site 640512006651 membrane-bound complex binding site; other site 640512006652 hinge residues; other site 640512006653 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512006654 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512006655 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 640512006656 substrate binding pocket [chemical binding]; other site 640512006657 dimerization interface [polypeptide binding]; other site 640512006658 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 640512006659 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 640512006660 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 640512006661 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640512006662 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 640512006663 active site 640512006664 metal binding site [ion binding]; metal-binding site 640512006665 (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 640512006666 active site 640512006667 catalytic site [active] 640512006668 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 640512006669 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640512006670 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 640512006671 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 640512006672 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 640512006673 shikimate binding site; other site 640512006674 NAD(P) binding site [chemical binding]; other site 640512006675 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 640512006676 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 640512006677 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 640512006678 dimerization interface [polypeptide binding]; other site 640512006679 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640512006680 dimer interface [polypeptide binding]; other site 640512006681 putative CheW interface [polypeptide binding]; other site 640512006682 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 640512006683 putative CheA interaction surface; other site 640512006684 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 640512006685 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512006686 active site 640512006687 phosphorylation site [posttranslational modification] 640512006688 intermolecular recognition site; other site 640512006689 dimerization interface [polypeptide binding]; other site 640512006690 CheB methylesterase; Region: CheB_methylest; pfam01339 640512006691 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 640512006692 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 640512006693 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 640512006694 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 640512006695 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 640512006696 putative binding surface; other site 640512006697 active site 640512006698 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 640512006699 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512006700 ATP binding site [chemical binding]; other site 640512006701 Mg2+ binding site [ion binding]; other site 640512006702 G-X-G motif; other site 640512006703 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 640512006704 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 640512006705 anti sigma factor interaction site; other site 640512006706 regulatory phosphorylation site [posttranslational modification]; other site 640512006707 Response regulator receiver domain; Region: Response_reg; pfam00072 640512006708 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512006709 active site 640512006710 phosphorylation site [posttranslational modification] 640512006711 intermolecular recognition site; other site 640512006712 dimerization interface [polypeptide binding]; other site 640512006713 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640512006714 dimer interface [polypeptide binding]; other site 640512006715 putative CheW interface [polypeptide binding]; other site 640512006716 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 640512006717 substrate binding pocket [chemical binding]; other site 640512006718 membrane-bound complex binding site; other site 640512006719 hinge residues; other site 640512006720 Protein of unknown function (DUF3443); Region: DUF3443; pfam11925 640512006721 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 640512006722 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 640512006723 sequence-specific DNA binding site [nucleotide binding]; other site 640512006724 salt bridge; other site 640512006725 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 640512006726 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 640512006727 NAD(P) binding site [chemical binding]; other site 640512006728 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 640512006729 dimerization interface [polypeptide binding]; other site 640512006730 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640512006731 dimer interface [polypeptide binding]; other site 640512006732 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 640512006733 putative CheW interface [polypeptide binding]; other site 640512006734 Protein of unknown function (DUF3897); Region: DUF3897; cl17494 640512006735 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 640512006736 Sel1-like repeats; Region: SEL1; smart00671 640512006737 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 640512006738 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512006739 PAS domain S-box; Region: sensory_box; TIGR00229 640512006740 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 640512006741 putative active site [active] 640512006742 heme pocket [chemical binding]; other site 640512006743 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640512006744 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640512006745 metal binding site [ion binding]; metal-binding site 640512006746 active site 640512006747 I-site; other site 640512006748 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 640512006749 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640512006750 Bacterial transcriptional regulator; Region: IclR; pfam01614 640512006751 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 640512006752 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640512006753 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 640512006754 Protein export membrane protein; Region: SecD_SecF; cl14618 640512006755 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 640512006756 Protein export membrane protein; Region: SecD_SecF; cl14618 640512006757 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 640512006758 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 640512006759 catalytic triad [active] 640512006760 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 640512006761 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 640512006762 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640512006763 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640512006764 metal binding site [ion binding]; metal-binding site 640512006765 active site 640512006766 I-site; other site 640512006767 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 640512006768 HDOD domain; Region: HDOD; pfam08668 640512006769 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 640512006770 EAL domain; Region: EAL; pfam00563 640512006771 histidine ABC transporter substrate-binding protein HisJ; Provisional; Region: PRK15437 640512006772 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 640512006773 substrate binding pocket [chemical binding]; other site 640512006774 membrane-bound complex binding site; other site 640512006775 hinge residues; other site 640512006776 succinylglutamate desuccinylase; Provisional; Region: PRK05324 640512006777 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 640512006778 active site 640512006779 Zn binding site [ion binding]; other site 640512006780 succinylarginine dihydrolase; Provisional; Region: PRK13281 640512006781 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 640512006782 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 640512006783 NAD(P) binding site [chemical binding]; other site 640512006784 catalytic residues [active] 640512006785 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 640512006786 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 640512006787 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 640512006788 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 640512006789 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 640512006790 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 640512006791 inhibitor-cofactor binding pocket; inhibition site 640512006792 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640512006793 catalytic residue [active] 640512006794 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640512006795 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 640512006796 conserved cys residue [active] 640512006797 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512006798 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512006799 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 640512006800 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 640512006801 Walker A/P-loop; other site 640512006802 ATP binding site [chemical binding]; other site 640512006803 Q-loop/lid; other site 640512006804 ABC transporter signature motif; other site 640512006805 Walker B; other site 640512006806 D-loop; other site 640512006807 H-loop/switch region; other site 640512006808 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640512006809 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512006810 dimer interface [polypeptide binding]; other site 640512006811 conserved gate region; other site 640512006812 putative PBP binding loops; other site 640512006813 ABC-ATPase subunit interface; other site 640512006814 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640512006815 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512006816 dimer interface [polypeptide binding]; other site 640512006817 conserved gate region; other site 640512006818 putative PBP binding loops; other site 640512006819 ABC-ATPase subunit interface; other site 640512006820 hypothetical protein; Provisional; Region: PRK10279 640512006821 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 640512006822 active site 640512006823 nucleophile elbow; other site 640512006824 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 640512006825 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 640512006826 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512006827 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512006828 The 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 640512006829 dimerization interface [polypeptide binding]; other site 640512006830 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 640512006831 active site residue [active] 640512006832 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 640512006833 active site residue [active] 640512006834 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 640512006835 active site residue [active] 640512006836 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 640512006837 active site residue [active] 640512006838 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 640512006839 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 640512006840 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 640512006841 dimer interface [polypeptide binding]; other site 640512006842 active site 640512006843 non-prolyl cis peptide bond; other site 640512006844 insertion regions; other site 640512006845 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 640512006846 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 640512006847 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 640512006848 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 640512006849 Alpha/beta hydrolase of unknown function (DUF1057); Region: DUF1057; pfam06342 640512006850 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 640512006851 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 640512006852 ligand binding site; other site 640512006853 oligomer interface; other site 640512006854 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 640512006855 dimer interface [polypeptide binding]; other site 640512006856 N-terminal domain interface [polypeptide binding]; other site 640512006857 sulfate 1 binding site; other site 640512006858 glycogen synthase; Provisional; Region: glgA; PRK00654 640512006859 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 640512006860 ADP-binding pocket [chemical binding]; other site 640512006861 homodimer interface [polypeptide binding]; other site 640512006862 pyridoxamine kinase; Validated; Region: PRK05756 640512006863 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 640512006864 dimer interface [polypeptide binding]; other site 640512006865 pyridoxal binding site [chemical binding]; other site 640512006866 ATP binding site [chemical binding]; other site 640512006867 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 640512006868 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 640512006869 dimerization interface [polypeptide binding]; other site 640512006870 ligand binding site [chemical binding]; other site 640512006871 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 640512006872 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 640512006873 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 640512006874 N-formylglutamate amidohydrolase; Region: FGase; cl01522 640512006875 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 640512006876 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 640512006877 active site 640512006878 imidazolonepropionase; Validated; Region: PRK09356 640512006879 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 640512006880 active site 640512006881 HutD; Region: HutD; pfam05962 640512006882 urocanate hydratase; Provisional; Region: PRK05414 640512006883 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; cl00470 640512006884 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 640512006885 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640512006886 DNA-binding site [nucleotide binding]; DNA binding site 640512006887 UTRA domain; Region: UTRA; pfam07702 640512006888 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 640512006889 active sites [active] 640512006890 tetramer interface [polypeptide binding]; other site 640512006891 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512006892 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512006893 The 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 640512006894 dimerization interface [polypeptide binding]; other site 640512006895 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 640512006896 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640512006897 NAD(P) binding site [chemical binding]; other site 640512006898 active site 640512006899 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 640512006900 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 640512006901 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512006902 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640512006903 putative substrate translocation pore; other site 640512006904 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 640512006905 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512006906 The 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 640512006907 dimerization interface [polypeptide binding]; other site 640512006908 Lysine efflux permease [General function prediction only]; Region: COG1279 640512006909 Bacteriophage N adsorption protein A C-term; Region: NfrA_C; pfam13283 640512006910 bacteriophage N4 adsorption protein B; Provisional; Region: nfrB; PRK15489 640512006911 active site 640512006912 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 640512006913 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 640512006914 Bacterial cellulose synthase subunit; Region: BcsB; cl15851 640512006915 Bacterial cellulose synthase subunit; Region: BcsB; cl15851 640512006916 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 640512006917 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 640512006918 active site 640512006919 homodimer interface [polypeptide binding]; other site 640512006920 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512006921 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512006922 The 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 640512006923 dimerization interface [polypeptide binding]; other site 640512006924 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 640512006925 EamA-like transporter family; Region: EamA; pfam00892 640512006926 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 640512006927 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640512006928 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 640512006929 conserved cys residue [active] 640512006930 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512006931 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 640512006932 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 640512006933 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 640512006934 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640512006935 Walker A/P-loop; other site 640512006936 ATP binding site [chemical binding]; other site 640512006937 Q-loop/lid; other site 640512006938 ABC transporter signature motif; other site 640512006939 Walker B; other site 640512006940 D-loop; other site 640512006941 H-loop/switch region; other site 640512006942 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640512006943 Walker A/P-loop; other site 640512006944 ATP binding site [chemical binding]; other site 640512006945 Q-loop/lid; other site 640512006946 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 640512006947 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 640512006948 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512006949 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512006950 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 640512006951 putative effector binding pocket; other site 640512006952 putative dimerization interface [polypeptide binding]; other site 640512006953 short chain dehydrogenase; Provisional; Region: PRK12937 640512006954 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 640512006955 NADP binding site [chemical binding]; other site 640512006956 homodimer interface [polypeptide binding]; other site 640512006957 active site 640512006958 substrate binding site [chemical binding]; other site 640512006959 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 640512006960 active site 640512006961 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 640512006962 catalytic tetrad [active] 640512006963 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 640512006964 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 640512006965 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 640512006966 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512006967 active site 640512006968 phosphorylation site [posttranslational modification] 640512006969 intermolecular recognition site; other site 640512006970 dimerization interface [polypeptide binding]; other site 640512006971 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 640512006972 enterobactin exporter EntS; Provisional; Region: PRK10489 640512006973 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512006974 putative substrate translocation pore; other site 640512006975 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 640512006976 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 640512006977 N-terminal plug; other site 640512006978 ligand-binding site [chemical binding]; other site 640512006979 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 640512006980 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 640512006981 ABC-ATPase subunit interface; other site 640512006982 dimer interface [polypeptide binding]; other site 640512006983 putative PBP binding regions; other site 640512006984 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 640512006985 ABC-ATPase subunit interface; other site 640512006986 dimer interface [polypeptide binding]; other site 640512006987 putative PBP binding regions; other site 640512006988 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 640512006989 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 640512006990 intersubunit interface [polypeptide binding]; other site 640512006991 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 640512006992 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 640512006993 N-terminal plug; other site 640512006994 ligand-binding site [chemical binding]; other site 640512006995 Condensation domain; Region: Condensation; pfam00668 640512006996 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 640512006997 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 640512006998 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 640512006999 acyl-activating enzyme (AAE) consensus motif; other site 640512007000 AMP binding site [chemical binding]; other site 640512007001 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 640512007002 Condensation domain; Region: Condensation; pfam00668 640512007003 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 640512007004 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 640512007005 AMP-binding enzyme; Region: AMP-binding; pfam00501 640512007006 acyl-activating enzyme (AAE) consensus motif; other site 640512007007 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 640512007008 acyl-activating enzyme (AAE) consensus motif; other site 640512007009 AMP binding site [chemical binding]; other site 640512007010 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 640512007011 Condensation domain; Region: Condensation; pfam00668 640512007012 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 640512007013 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 640512007014 acyl-activating enzyme (AAE) consensus motif; other site 640512007015 AMP binding site [chemical binding]; other site 640512007016 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 640512007017 peptide synthase; Provisional; Region: PRK12467 640512007018 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 640512007019 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 640512007020 acyl-activating enzyme (AAE) consensus motif; other site 640512007021 AMP binding site [chemical binding]; other site 640512007022 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 640512007023 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 640512007024 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 640512007025 acyl-activating enzyme (AAE) consensus motif; other site 640512007026 AMP binding site [chemical binding]; other site 640512007027 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 640512007028 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 640512007029 The adenylation domain of nonribosomal peptide synthetases (NRPS), including salinosporamide A polyketide synthase; Region: A_NRPS_Ta1_like; cd12116 640512007030 acyl-activating enzyme (AAE) consensus motif; other site 640512007031 AMP binding site [chemical binding]; other site 640512007032 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 640512007033 acyl-CoA synthetase; Validated; Region: PRK05850 640512007034 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 640512007035 acyl-activating enzyme (AAE) consensus motif; other site 640512007036 active site 640512007037 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 640512007038 Condensation domain; Region: Condensation; pfam00668 640512007039 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 640512007040 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 640512007041 iron-hydroxamate transporter ATP-binding subunit; Provisional; Region: PRK10575 640512007042 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 640512007043 Walker A/P-loop; other site 640512007044 ATP binding site [chemical binding]; other site 640512007045 Q-loop/lid; other site 640512007046 ABC transporter signature motif; other site 640512007047 Walker B; other site 640512007048 D-loop; other site 640512007049 H-loop/switch region; other site 640512007050 multidrug transporter membrane component/ATP-binding component; Provisional; Region: PRK10522 640512007051 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 640512007052 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 640512007053 Walker A/P-loop; other site 640512007054 ATP binding site [chemical binding]; other site 640512007055 Q-loop/lid; other site 640512007056 ABC transporter signature motif; other site 640512007057 Walker B; other site 640512007058 D-loop; other site 640512007059 H-loop/switch region; other site 640512007060 YqcI/YcgG family; Region: YqcI_YcgG; cl01349 640512007061 Cupin domain; Region: Cupin_2; cl17218 640512007062 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 640512007063 MbtH-like protein; Region: MbtH; cl01279 640512007064 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 640512007065 putative FMN binding site [chemical binding]; other site 640512007066 Sensors of blue-light using FAD; Region: BLUF; pfam04940 640512007067 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 640512007068 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640512007069 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640512007070 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512007071 D-galactonate transporter; Region: 2A0114; TIGR00893 640512007072 putative substrate translocation pore; other site 640512007073 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512007074 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512007075 The 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 640512007076 dimerization interface [polypeptide binding]; other site 640512007077 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 640512007078 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640512007079 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 640512007080 dimer interface [polypeptide binding]; other site 640512007081 phosphorylation site [posttranslational modification] 640512007082 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512007083 ATP binding site [chemical binding]; other site 640512007084 G-X-G motif; other site 640512007085 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 640512007086 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 640512007087 active site 640512007088 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 640512007089 haemagglutination activity domain; Region: Haemagg_act; pfam05860 640512007090 PPIC-type PPIASE domain; Region: Rotamase_3; pfam13616 640512007091 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 640512007092 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 640512007093 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 640512007094 haemagglutination activity domain; Region: Haemagg_act; pfam05860 640512007095 PAAR motif; Region: PAAR_motif; pfam05488 640512007096 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 640512007097 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 640512007098 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 640512007099 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 640512007100 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 640512007101 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 640512007102 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 640512007103 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 640512007104 Ezrin/radixin/moesin family; Region: ERM; pfam00769 640512007105 probable sodium:solute symporter, VC_2705 subfamily; Region: Na_symport_lg; TIGR03648 640512007106 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 640512007107 acetyl-CoA synthetase; Provisional; Region: PRK00174 640512007108 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 640512007109 active site 640512007110 CoA binding site [chemical binding]; other site 640512007111 acyl-activating enzyme (AAE) consensus motif; other site 640512007112 AMP binding site [chemical binding]; other site 640512007113 acetate binding site [chemical binding]; other site 640512007114 EamA-like transporter family; Region: EamA; pfam00892 640512007115 EamA-like transporter family; Region: EamA; pfam00892 640512007116 hypothetical protein; Provisional; Region: PRK05208 640512007117 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 640512007118 Fumarase C-terminus; Region: Fumerase_C; pfam05683 640512007119 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 640512007120 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 640512007121 heme binding site [chemical binding]; other site 640512007122 ferroxidase pore; other site 640512007123 ferroxidase diiron center [ion binding]; other site 640512007124 glutamate racemase; Provisional; Region: PRK00865 640512007125 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 640512007126 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 640512007127 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 640512007128 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 640512007129 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 640512007130 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 640512007131 LysR family transcriptional regulator; Provisional; Region: PRK14997 640512007132 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512007133 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 640512007134 putative effector binding pocket; other site 640512007135 putative dimerization interface [polypeptide binding]; other site 640512007136 Pirin-related protein [General function prediction only]; Region: COG1741 640512007137 Pirin; Region: Pirin; pfam02678 640512007138 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 640512007139 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 640512007140 DUF1857, an uncharacterized ligand-binding domain of the SRPBCC domain superfamily; Region: SRPBCC_DUF1857; cd08863 640512007141 putative hydrophobic ligand binding site [chemical binding]; other site 640512007142 Hemin uptake protein hemP; Region: hemP; pfam10636 640512007143 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 640512007144 4Fe-4S binding domain; Region: Fer4_5; pfam12801 640512007145 Iron permease FTR1 family; Region: FTR1; cl00475 640512007146 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 640512007147 Fe2+ transport protein; Region: Iron_transport; pfam10634 640512007148 excinuclease ABC subunit B; Provisional; Region: PRK05298 640512007149 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 640512007150 ATP binding site [chemical binding]; other site 640512007151 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 640512007152 nucleotide binding region [chemical binding]; other site 640512007153 ATP-binding site [chemical binding]; other site 640512007154 Ultra-violet resistance protein B; Region: UvrB; pfam12344 640512007155 UvrB/uvrC motif; Region: UVR; pfam02151 640512007156 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 640512007157 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 640512007158 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640512007159 homodimer interface [polypeptide binding]; other site 640512007160 catalytic residue [active] 640512007161 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 640512007162 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 640512007163 nucleophile elbow; other site 640512007164 Patatin phospholipase; Region: DUF3734; pfam12536 640512007165 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK13394 640512007166 classical (c) SDRs; Region: SDR_c; cd05233 640512007167 NAD(P) binding site [chemical binding]; other site 640512007168 active site 640512007169 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 640512007170 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 640512007171 active site 640512007172 catalytic tetrad [active] 640512007173 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 640512007174 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 640512007175 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 640512007176 Protein of unknown function (DUF3563); Region: DUF3563; pfam12086 640512007177 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 640512007178 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 640512007179 DNA binding residues [nucleotide binding] 640512007180 dimer interface [polypeptide binding]; other site 640512007181 copper binding site [ion binding]; other site 640512007182 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 640512007183 metal-binding site [ion binding] 640512007184 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 640512007185 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 640512007186 NADP binding site [chemical binding]; other site 640512007187 active site 640512007188 putative substrate binding site [chemical binding]; other site 640512007189 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 640512007190 Domain of unknown function DUF20; Region: UPF0118; pfam01594 640512007191 Protein of unknown function (DUF2863); Region: DUF2863; pfam11062 640512007192 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640512007193 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 640512007194 phosphorylation site [posttranslational modification] 640512007195 intermolecular recognition site; other site 640512007196 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 640512007197 DNA binding residues [nucleotide binding] 640512007198 dimerization interface [polypeptide binding]; other site 640512007199 Predicted membrane protein [Function unknown]; Region: COG3235 640512007200 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 640512007201 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 640512007202 putative active site [active] 640512007203 Zn binding site [ion binding]; other site 640512007204 hypothetical protein; Validated; Region: PRK02101 640512007205 PIN domain; Region: PIN_3; pfam13470 640512007206 methionine aminotransferase; Validated; Region: PRK09082 640512007207 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 640512007208 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640512007209 homodimer interface [polypeptide binding]; other site 640512007210 catalytic residue [active] 640512007211 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 640512007212 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 640512007213 C-terminal domain interface [polypeptide binding]; other site 640512007214 GSH binding site (G-site) [chemical binding]; other site 640512007215 dimer interface [polypeptide binding]; other site 640512007216 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 640512007217 N-terminal domain interface [polypeptide binding]; other site 640512007218 dimer interface [polypeptide binding]; other site 640512007219 substrate binding pocket (H-site) [chemical binding]; other site 640512007220 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 640512007221 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 640512007222 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 640512007223 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 640512007224 enoyl-CoA hydratase; Provisional; Region: PRK07511 640512007225 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 640512007226 substrate binding site [chemical binding]; other site 640512007227 oxyanion hole (OAH) forming residues; other site 640512007228 trimer interface [polypeptide binding]; other site 640512007229 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 640512007230 catalytic core [active] 640512007231 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 640512007232 putative active site [active] 640512007233 putative substrate binding site [chemical binding]; other site 640512007234 ATP binding site [chemical binding]; other site 640512007235 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 640512007236 Acyl-CoA dehydrogenases similar to fadE2; Region: ACAD_FadE2; cd01155 640512007237 FAD binding site [chemical binding]; other site 640512007238 substrate binding site [chemical binding]; other site 640512007239 catalytic base [active] 640512007240 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 640512007241 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 640512007242 C-terminal domain interface [polypeptide binding]; other site 640512007243 GSH binding site (G-site) [chemical binding]; other site 640512007244 dimer interface [polypeptide binding]; other site 640512007245 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 640512007246 N-terminal domain interface [polypeptide binding]; other site 640512007247 putative dimer interface [polypeptide binding]; other site 640512007248 active site 640512007249 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 640512007250 putative active site [active] 640512007251 putative catalytic site [active] 640512007252 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 640512007253 putative active site [active] 640512007254 putative catalytic site [active] 640512007255 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 640512007256 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 640512007257 active site 640512007258 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 640512007259 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 640512007260 FAD binding site [chemical binding]; other site 640512007261 substrate binding site [chemical binding]; other site 640512007262 catalytic base [active] 640512007263 Protein of unknown function (DUF1178); Region: DUF1178; pfam06676 640512007264 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 640512007265 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 640512007266 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 640512007267 dimer interface [polypeptide binding]; other site 640512007268 ADP-ribose binding site [chemical binding]; other site 640512007269 active site 640512007270 nudix motif; other site 640512007271 metal binding site [ion binding]; metal-binding site 640512007272 Protein of unknown function (DUF2818); Region: DUF2818; pfam10993 640512007273 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 640512007274 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 640512007275 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 640512007276 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 640512007277 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 640512007278 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 640512007279 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 640512007280 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 640512007281 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 640512007282 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 640512007283 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 640512007284 4Fe-4S binding domain; Region: Fer4; cl02805 640512007285 4Fe-4S binding domain; Region: Fer4; pfam00037 640512007286 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 640512007287 NADH dehydrogenase subunit G; Validated; Region: PRK09129 640512007288 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 640512007289 catalytic loop [active] 640512007290 iron binding site [ion binding]; other site 640512007291 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 640512007292 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 640512007293 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 640512007294 SLBB domain; Region: SLBB; pfam10531 640512007295 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 640512007296 NADH dehydrogenase subunit E; Validated; Region: PRK07539 640512007297 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 640512007298 putative dimer interface [polypeptide binding]; other site 640512007299 [2Fe-2S] cluster binding site [ion binding]; other site 640512007300 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 640512007301 NADH dehydrogenase subunit D; Validated; Region: PRK06075 640512007302 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 640512007303 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 640512007304 NADH dehydrogenase subunit B; Validated; Region: PRK06411 640512007305 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 640512007306 Preprotein translocase SecG subunit; Region: SecG; pfam03840 640512007307 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 640512007308 triosephosphate isomerase; Provisional; Region: PRK14567 640512007309 substrate binding site [chemical binding]; other site 640512007310 dimer interface [polypeptide binding]; other site 640512007311 catalytic triad [active] 640512007312 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 640512007313 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 640512007314 NAD(P) binding site [chemical binding]; other site 640512007315 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 640512007316 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 640512007317 RNase E interface [polypeptide binding]; other site 640512007318 trimer interface [polypeptide binding]; other site 640512007319 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 640512007320 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 640512007321 RNase E interface [polypeptide binding]; other site 640512007322 trimer interface [polypeptide binding]; other site 640512007323 active site 640512007324 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 640512007325 putative nucleic acid binding region [nucleotide binding]; other site 640512007326 G-X-X-G motif; other site 640512007327 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 640512007328 RNA binding site [nucleotide binding]; other site 640512007329 domain interface; other site 640512007330 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 640512007331 16S/18S rRNA binding site [nucleotide binding]; other site 640512007332 S13e-L30e interaction site [polypeptide binding]; other site 640512007333 25S rRNA binding site [nucleotide binding]; other site 640512007334 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 640512007335 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 640512007336 putative ligand binding site [chemical binding]; other site 640512007337 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 640512007338 active site clefts [active] 640512007339 zinc binding site [ion binding]; other site 640512007340 dimer interface [polypeptide binding]; other site 640512007341 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 640512007342 Sulfate transporter family; Region: Sulfate_transp; pfam00916 640512007343 2-isopropylmalate synthase; Validated; Region: PRK00915 640512007344 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 640512007345 active site 640512007346 catalytic residues [active] 640512007347 metal binding site [ion binding]; metal-binding site 640512007348 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 640512007349 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 640512007350 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 640512007351 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 640512007352 ketol-acid reductoisomerase; Provisional; Region: PRK05479 640512007353 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 640512007354 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 640512007355 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 640512007356 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 640512007357 putative valine binding site [chemical binding]; other site 640512007358 dimer interface [polypeptide binding]; other site 640512007359 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 640512007360 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 640512007361 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 640512007362 PYR/PP interface [polypeptide binding]; other site 640512007363 dimer interface [polypeptide binding]; other site 640512007364 TPP binding site [chemical binding]; other site 640512007365 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 640512007366 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 640512007367 TPP-binding site [chemical binding]; other site 640512007368 dimer interface [polypeptide binding]; other site 640512007369 RNA polymerase factor sigma-70; Validated; Region: PRK09047 640512007370 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 640512007371 DNA binding residues [nucleotide binding] 640512007372 Protein of unknown function (DUF3619); Region: DUF3619; pfam12279 640512007373 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 640512007374 RDD family; Region: RDD; pfam06271 640512007375 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 640512007376 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 640512007377 putative active site [active] 640512007378 putative metal binding site [ion binding]; other site 640512007379 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640512007380 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 640512007381 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 640512007382 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640512007383 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640512007384 Bacterial transcriptional repressor; Region: TetR; pfam13972 640512007385 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 640512007386 glucose-1-dehydrogenase; Provisional; Region: PRK06947 640512007387 classical (c) SDRs; Region: SDR_c; cd05233 640512007388 NAD(P) binding site [chemical binding]; other site 640512007389 active site 640512007390 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 640512007391 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 640512007392 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 640512007393 apolar tunnel; other site 640512007394 heme binding site [chemical binding]; other site 640512007395 dimerization interface [polypeptide binding]; other site 640512007396 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 640512007397 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 640512007398 Domain of unknown function (DUF4126); Region: DUF4126; pfam13548 640512007399 multidrug efflux system protein; Provisional; Region: PRK11431 640512007400 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 640512007401 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512007402 active site 640512007403 phosphorylation site [posttranslational modification] 640512007404 intermolecular recognition site; other site 640512007405 dimerization interface [polypeptide binding]; other site 640512007406 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 640512007407 DNA binding site [nucleotide binding] 640512007408 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 640512007409 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 640512007410 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 640512007411 Ligand Binding Site [chemical binding]; other site 640512007412 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 640512007413 GAF domain; Region: GAF_3; pfam13492 640512007414 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 640512007415 dimer interface [polypeptide binding]; other site 640512007416 phosphorylation site [posttranslational modification] 640512007417 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512007418 ATP binding site [chemical binding]; other site 640512007419 Mg2+ binding site [ion binding]; other site 640512007420 G-X-G motif; other site 640512007421 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 640512007422 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 640512007423 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 640512007424 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 640512007425 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 640512007426 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 640512007427 NADP binding site [chemical binding]; other site 640512007428 dimer interface [polypeptide binding]; other site 640512007429 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 640512007430 active site 640512007431 dimer interfaces [polypeptide binding]; other site 640512007432 catalytic residues [active] 640512007433 short chain dehydrogenase; Provisional; Region: PRK08339 640512007434 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 640512007435 putative NAD(P) binding site [chemical binding]; other site 640512007436 putative active site [active] 640512007437 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 640512007438 active site 640512007439 hypothetical protein; Validated; Region: PRK00110 640512007440 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 640512007441 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 640512007442 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 640512007443 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 640512007444 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 640512007445 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 640512007446 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 640512007447 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 640512007448 active site 640512007449 (T/H)XGH motif; other site 640512007450 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 640512007451 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 640512007452 Maf-like protein; Region: Maf; pfam02545 640512007453 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 640512007454 active site 640512007455 dimer interface [polypeptide binding]; other site 640512007456 ribonuclease G; Provisional; Region: PRK11712 640512007457 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 640512007458 homodimer interface [polypeptide binding]; other site 640512007459 oligonucleotide binding site [chemical binding]; other site 640512007460 MEKHLA domain; Region: MEKHLA; pfam08670 640512007461 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 640512007462 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512007463 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640512007464 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 640512007465 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 640512007466 catalytic loop [active] 640512007467 iron binding site [ion binding]; other site 640512007468 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 640512007469 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 640512007470 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640512007471 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 640512007472 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640512007473 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 640512007474 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 640512007475 DNA binding residues [nucleotide binding] 640512007476 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 640512007477 IHF dimer interface [polypeptide binding]; other site 640512007478 IHF - DNA interface [nucleotide binding]; other site 640512007479 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 640512007480 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 640512007481 putative tRNA-binding site [nucleotide binding]; other site 640512007482 B3/4 domain; Region: B3_4; pfam03483 640512007483 tRNA synthetase B5 domain; Region: B5; smart00874 640512007484 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 640512007485 dimer interface [polypeptide binding]; other site 640512007486 motif 1; other site 640512007487 motif 3; other site 640512007488 motif 2; other site 640512007489 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 640512007490 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 640512007491 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 640512007492 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 640512007493 dimer interface [polypeptide binding]; other site 640512007494 motif 1; other site 640512007495 active site 640512007496 motif 2; other site 640512007497 motif 3; other site 640512007498 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 640512007499 23S rRNA binding site [nucleotide binding]; other site 640512007500 L21 binding site [polypeptide binding]; other site 640512007501 L13 binding site [polypeptide binding]; other site 640512007502 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 640512007503 translation initiation factor IF-3; Region: infC; TIGR00168 640512007504 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 640512007505 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 640512007506 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 640512007507 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 640512007508 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 640512007509 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 640512007510 active site 640512007511 dimer interface [polypeptide binding]; other site 640512007512 motif 1; other site 640512007513 motif 2; other site 640512007514 motif 3; other site 640512007515 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 640512007516 anticodon binding site; other site 640512007517 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 640512007518 HD domain; Region: HD_4; pfam13328 640512007519 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 640512007520 synthetase active site [active] 640512007521 NTP binding site [chemical binding]; other site 640512007522 metal binding site [ion binding]; metal-binding site 640512007523 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 640512007524 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 640512007525 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 640512007526 homotrimer interaction site [polypeptide binding]; other site 640512007527 putative active site [active] 640512007528 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 640512007529 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640512007530 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 640512007531 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 640512007532 PAS domain; Region: PAS_9; pfam13426 640512007533 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 640512007534 putative active site [active] 640512007535 heme pocket [chemical binding]; other site 640512007536 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 640512007537 DNA binding residues [nucleotide binding] 640512007538 dimerization interface [polypeptide binding]; other site 640512007539 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 640512007540 active site 640512007541 short chain dehydrogenase; Provisional; Region: PRK06949 640512007542 classical (c) SDRs; Region: SDR_c; cd05233 640512007543 NAD(P) binding site [chemical binding]; other site 640512007544 active site 640512007545 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 640512007546 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 640512007547 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 640512007548 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 640512007549 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 640512007550 TPR motif; other site 640512007551 binding surface 640512007552 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 640512007553 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 640512007554 Tetramer interface [polypeptide binding]; other site 640512007555 active site 640512007556 FMN-binding site [chemical binding]; other site 640512007557 lysophospholipid transporter LplT; Provisional; Region: PRK11195 640512007558 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512007559 putative substrate translocation pore; other site 640512007560 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 640512007561 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 640512007562 putative acyl-acceptor binding pocket; other site 640512007563 FOG: CBS domain [General function prediction only]; Region: COG0517 640512007564 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 640512007565 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK08134 640512007566 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 640512007567 homodimer interface [polypeptide binding]; other site 640512007568 substrate-cofactor binding pocket; other site 640512007569 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640512007570 catalytic residue [active] 640512007571 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 640512007572 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640512007573 Protein of unknown function (DUF962); Region: DUF962; cl01879 640512007574 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 640512007575 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 640512007576 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 640512007577 Predicted membrane protein (DUF2069); Region: DUF2069; pfam09842 640512007578 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 640512007579 FAD binding domain; Region: FAD_binding_4; pfam01565 640512007580 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 640512007581 Microscilla MS158 and related proteins, metallophosphatase domain; Region: MPP_MS158; cd07404 640512007582 putative active site [active] 640512007583 putative metal binding site [ion binding]; other site 640512007584 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512007585 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512007586 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 640512007587 putative effector binding pocket; other site 640512007588 dimerization interface [polypeptide binding]; other site 640512007589 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 640512007590 Fusaric acid resistance protein family; Region: FUSC; pfam04632 640512007591 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 640512007592 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 640512007593 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 640512007594 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640512007595 HlyD family secretion protein; Region: HlyD_3; pfam13437 640512007596 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 640512007597 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 640512007598 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640512007599 dimer interface [polypeptide binding]; other site 640512007600 putative CheW interface [polypeptide binding]; other site 640512007601 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512007602 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640512007603 putative substrate translocation pore; other site 640512007604 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 640512007605 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 640512007606 acyl-activating enzyme (AAE) consensus motif; other site 640512007607 AMP binding site [chemical binding]; other site 640512007608 active site 640512007609 CoA binding site [chemical binding]; other site 640512007610 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 640512007611 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 640512007612 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 640512007613 Part of AAA domain; Region: AAA_19; pfam13245 640512007614 Family description; Region: UvrD_C_2; pfam13538 640512007615 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 640512007616 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 640512007617 HIGH motif; other site 640512007618 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 640512007619 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 640512007620 active site 640512007621 KMSKS motif; other site 640512007622 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 640512007623 tRNA binding surface [nucleotide binding]; other site 640512007624 anticodon binding site; other site 640512007625 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 640512007626 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 640512007627 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 640512007628 active site 640512007629 tetramer interface; other site 640512007630 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 640512007631 CPxP motif; other site 640512007632 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 640512007633 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 640512007634 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 640512007635 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 640512007636 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 640512007637 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 640512007638 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 640512007639 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 640512007640 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 640512007641 putative active site [active] 640512007642 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_4; cd06312 640512007643 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640512007644 putative ligand binding site [chemical binding]; other site 640512007645 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640512007646 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 640512007647 TM-ABC transporter signature motif; other site 640512007648 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 640512007649 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 640512007650 Walker A/P-loop; other site 640512007651 ATP binding site [chemical binding]; other site 640512007652 Q-loop/lid; other site 640512007653 ABC transporter signature motif; other site 640512007654 Walker B; other site 640512007655 D-loop; other site 640512007656 H-loop/switch region; other site 640512007657 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 640512007658 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 640512007659 substrate binding site [chemical binding]; other site 640512007660 ATP binding site [chemical binding]; other site 640512007661 Uncharacterized protein conserved in bacteria (DUF2090); Region: DUF2090; pfam09863 640512007662 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3892 640512007663 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 640512007664 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 640512007665 PYR/PP interface [polypeptide binding]; other site 640512007666 dimer interface [polypeptide binding]; other site 640512007667 TPP binding site [chemical binding]; other site 640512007668 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 640512007669 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 640512007670 TPP-binding site [chemical binding]; other site 640512007671 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 640512007672 KduI/IolB family; Region: KduI; pfam04962 640512007673 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 640512007674 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 640512007675 Walker A/P-loop; other site 640512007676 ATP binding site [chemical binding]; other site 640512007677 Q-loop/lid; other site 640512007678 ABC transporter signature motif; other site 640512007679 Walker B; other site 640512007680 D-loop; other site 640512007681 H-loop/switch region; other site 640512007682 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 640512007683 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 640512007684 Walker A/P-loop; other site 640512007685 ATP binding site [chemical binding]; other site 640512007686 Q-loop/lid; other site 640512007687 ABC transporter signature motif; other site 640512007688 Walker B; other site 640512007689 D-loop; other site 640512007690 H-loop/switch region; other site 640512007691 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 640512007692 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 640512007693 TM-ABC transporter signature motif; other site 640512007694 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 640512007695 TM-ABC transporter signature motif; other site 640512007696 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 640512007697 active site 640512007698 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 640512007699 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 640512007700 nudix motif; other site 640512007701 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 640512007702 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 640512007703 tetramer interface [polypeptide binding]; other site 640512007704 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640512007705 catalytic residue [active] 640512007706 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 640512007707 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512007708 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512007709 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 640512007710 putative dimerization interface [polypeptide binding]; other site 640512007711 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 640512007712 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 640512007713 motif 1; other site 640512007714 active site 640512007715 motif 2; other site 640512007716 motif 3; other site 640512007717 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 640512007718 Bacillus haemolytic enterotoxin (HBL); Region: Bacillus_HBL; pfam05791 640512007719 DHHA1 domain; Region: DHHA1; pfam02272 640512007720 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 640512007721 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640512007722 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 640512007723 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 640512007724 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 640512007725 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 640512007726 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 640512007727 active site 640512007728 HIGH motif; other site 640512007729 nucleotide binding site [chemical binding]; other site 640512007730 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 640512007731 KMSKS motif; other site 640512007732 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 640512007733 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 640512007734 nudix motif; other site 640512007735 methylenetetrahydrofolate dehydrogenase (NADP+); Region: PLN02516 640512007736 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 640512007737 Phospholipase C [Cell envelope biogenesis, outer membrane]; Region: PlcC; COG3511 640512007738 acid phosphatase, Burkholderia-type; Region: acid_phos_Burk; TIGR03397 640512007739 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK12554 640512007740 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 640512007741 active site 640512007742 catalytic residues [active] 640512007743 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 640512007744 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 640512007745 Peptidase family M23; Region: Peptidase_M23; pfam01551 640512007746 Protein of unknown function (DUF2288); Region: DUF2288; pfam10052 640512007747 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 640512007748 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 640512007749 Protein of unknown function (DUF3309); Region: DUF3309; pfam11752 640512007750 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 640512007751 catalytic core [active] 640512007752 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 640512007753 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 640512007754 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 640512007755 polyphosphate kinase; Provisional; Region: PRK05443 640512007756 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 640512007757 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 640512007758 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 640512007759 putative active site [active] 640512007760 catalytic site [active] 640512007761 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 640512007762 putative domain interface [polypeptide binding]; other site 640512007763 putative active site [active] 640512007764 catalytic site [active] 640512007765 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 640512007766 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 640512007767 dimer interface [polypeptide binding]; other site 640512007768 phosphorylation site [posttranslational modification] 640512007769 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512007770 ATP binding site [chemical binding]; other site 640512007771 Mg2+ binding site [ion binding]; other site 640512007772 G-X-G motif; other site 640512007773 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 640512007774 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512007775 active site 640512007776 phosphorylation site [posttranslational modification] 640512007777 intermolecular recognition site; other site 640512007778 dimerization interface [polypeptide binding]; other site 640512007779 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 640512007780 DNA binding site [nucleotide binding] 640512007781 transcriptional regulator PhoU; Provisional; Region: PRK11115 640512007782 PhoU domain; Region: PhoU; pfam01895 640512007783 PhoU domain; Region: PhoU; pfam01895 640512007784 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 640512007785 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 640512007786 Walker A/P-loop; other site 640512007787 ATP binding site [chemical binding]; other site 640512007788 Q-loop/lid; other site 640512007789 ABC transporter signature motif; other site 640512007790 Walker B; other site 640512007791 D-loop; other site 640512007792 H-loop/switch region; other site 640512007793 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 640512007794 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512007795 dimer interface [polypeptide binding]; other site 640512007796 conserved gate region; other site 640512007797 putative PBP binding loops; other site 640512007798 ABC-ATPase subunit interface; other site 640512007799 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 640512007800 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512007801 dimer interface [polypeptide binding]; other site 640512007802 conserved gate region; other site 640512007803 putative PBP binding loops; other site 640512007804 ABC-ATPase subunit interface; other site 640512007805 PBP superfamily domain; Region: PBP_like_2; cl17296 640512007806 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 640512007807 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 640512007808 active site 640512007809 substrate binding site [chemical binding]; other site 640512007810 metal binding site [ion binding]; metal-binding site 640512007811 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 640512007812 dihydropteroate synthase; Region: DHPS; TIGR01496 640512007813 substrate binding pocket [chemical binding]; other site 640512007814 dimer interface [polypeptide binding]; other site 640512007815 inhibitor binding site; inhibition site 640512007816 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 640512007817 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 640512007818 Walker A motif; other site 640512007819 ATP binding site [chemical binding]; other site 640512007820 Walker B motif; other site 640512007821 arginine finger; other site 640512007822 Peptidase family M41; Region: Peptidase_M41; pfam01434 640512007823 FtsJ-like methyltransferase; Region: FtsJ; cl17430 640512007824 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 640512007825 Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly; Region: CRS1_YhbY; smart01103 640512007826 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 640512007827 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 640512007828 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 640512007829 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 640512007830 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 640512007831 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 640512007832 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 640512007833 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 640512007834 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 640512007835 ATP-grasp domain; Region: ATP-grasp_4; cl17255 640512007836 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 640512007837 IMP binding site; other site 640512007838 dimer interface [polypeptide binding]; other site 640512007839 interdomain contacts; other site 640512007840 partial ornithine binding site; other site 640512007841 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 640512007842 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 640512007843 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 640512007844 catalytic site [active] 640512007845 subunit interface [polypeptide binding]; other site 640512007846 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 640512007847 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 640512007848 N-acetyl-D-glucosamine binding site [chemical binding]; other site 640512007849 catalytic residue [active] 640512007850 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 640512007851 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 640512007852 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 640512007853 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 640512007854 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 640512007855 RNA/DNA hybrid binding site [nucleotide binding]; other site 640512007856 active site 640512007857 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 640512007858 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 640512007859 active site 640512007860 catalytic site [active] 640512007861 substrate binding site [chemical binding]; other site 640512007862 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 640512007863 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 640512007864 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 640512007865 Walker A/P-loop; other site 640512007866 ATP binding site [chemical binding]; other site 640512007867 Q-loop/lid; other site 640512007868 ABC transporter signature motif; other site 640512007869 Walker B; other site 640512007870 D-loop; other site 640512007871 H-loop/switch region; other site 640512007872 Predicted membrane protein (DUF2214); Region: DUF2214; pfam09980 640512007873 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 640512007874 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640512007875 putative ADP-binding pocket [chemical binding]; other site 640512007876 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 640512007877 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 640512007878 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640512007879 Walker A/P-loop; other site 640512007880 ATP binding site [chemical binding]; other site 640512007881 Q-loop/lid; other site 640512007882 ABC transporter signature motif; other site 640512007883 Walker B; other site 640512007884 D-loop; other site 640512007885 H-loop/switch region; other site 640512007886 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 640512007887 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 640512007888 active site 640512007889 homotetramer interface [polypeptide binding]; other site 640512007890 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 640512007891 Trehalose-phosphatase; Region: Trehalose_PPase; pfam02358 640512007892 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 640512007893 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 640512007894 Cu(I) binding site [ion binding]; other site 640512007895 Protein of unknown function (DUF461); Region: DUF461; pfam04314 640512007896 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 640512007897 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 640512007898 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 640512007899 Coenzyme A binding pocket [chemical binding]; other site 640512007900 TraB family; Region: TraB; pfam01963 640512007901 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 640512007902 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 640512007903 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 640512007904 GIY-YIG motif/motif A; other site 640512007905 active site 640512007906 catalytic site [active] 640512007907 putative DNA binding site [nucleotide binding]; other site 640512007908 metal binding site [ion binding]; metal-binding site 640512007909 UvrB/uvrC motif; Region: UVR; pfam02151 640512007910 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 640512007911 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 640512007912 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 640512007913 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 640512007914 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 640512007915 putative active site [active] 640512007916 putative NTP binding site [chemical binding]; other site 640512007917 putative nucleic acid binding site [nucleotide binding]; other site 640512007918 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 640512007919 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 640512007920 active site 640512007921 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 640512007922 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 640512007923 elongation factor P; Validated; Region: PRK00529 640512007924 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 640512007925 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 640512007926 RNA binding site [nucleotide binding]; other site 640512007927 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 640512007928 RNA binding site [nucleotide binding]; other site 640512007929 CsbD-like; Region: CsbD; cl17424 640512007930 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 640512007931 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512007932 active site 640512007933 phosphorylation site [posttranslational modification] 640512007934 intermolecular recognition site; other site 640512007935 dimerization interface [polypeptide binding]; other site 640512007936 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 640512007937 Walker A motif; other site 640512007938 ATP binding site [chemical binding]; other site 640512007939 Walker B motif; other site 640512007940 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 640512007941 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 640512007942 beta-hexosaminidase; Provisional; Region: PRK05337 640512007943 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 640512007944 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 640512007945 active site 640512007946 hydrophilic channel; other site 640512007947 dimerization interface [polypeptide binding]; other site 640512007948 catalytic residues [active] 640512007949 active site lid [active] 640512007950 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 640512007951 Recombination protein O N terminal; Region: RecO_N; pfam11967 640512007952 Recombination protein O C terminal; Region: RecO_C; pfam02565 640512007953 GTPase Era; Reviewed; Region: era; PRK00089 640512007954 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 640512007955 G1 box; other site 640512007956 GTP/Mg2+ binding site [chemical binding]; other site 640512007957 Switch I region; other site 640512007958 G2 box; other site 640512007959 Switch II region; other site 640512007960 G3 box; other site 640512007961 G4 box; other site 640512007962 G5 box; other site 640512007963 KH domain; Region: KH_2; pfam07650 640512007964 ribonuclease III; Reviewed; Region: PRK12372 640512007965 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 640512007966 dimerization interface [polypeptide binding]; other site 640512007967 active site 640512007968 metal binding site [ion binding]; metal-binding site 640512007969 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 640512007970 signal peptidase I; Provisional; Region: PRK10861 640512007971 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 640512007972 Catalytic site [active] 640512007973 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 640512007974 GTP-binding protein LepA; Provisional; Region: PRK05433 640512007975 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 640512007976 G1 box; other site 640512007977 putative GEF interaction site [polypeptide binding]; other site 640512007978 GTP/Mg2+ binding site [chemical binding]; other site 640512007979 Switch I region; other site 640512007980 G2 box; other site 640512007981 G3 box; other site 640512007982 Switch II region; other site 640512007983 G4 box; other site 640512007984 G5 box; other site 640512007985 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 640512007986 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 640512007987 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 640512007988 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 640512007989 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 640512007990 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 640512007991 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 640512007992 protein binding site [polypeptide binding]; other site 640512007993 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 640512007994 protein binding site [polypeptide binding]; other site 640512007995 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 640512007996 anti-sigma E factor; Provisional; Region: rseB; PRK09455 640512007997 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 640512007998 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 640512007999 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640512008000 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 640512008001 DNA binding residues [nucleotide binding] 640512008002 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 640512008003 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 640512008004 dimer interface [polypeptide binding]; other site 640512008005 active site 640512008006 acyl carrier protein; Provisional; Region: acpP; PRK00982 640512008007 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 640512008008 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 640512008009 NAD(P) binding site [chemical binding]; other site 640512008010 homotetramer interface [polypeptide binding]; other site 640512008011 homodimer interface [polypeptide binding]; other site 640512008012 active site 640512008013 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 640512008014 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 640512008015 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 640512008016 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 640512008017 dimer interface [polypeptide binding]; other site 640512008018 active site 640512008019 CoA binding pocket [chemical binding]; other site 640512008020 putative phosphate acyltransferase; Provisional; Region: PRK05331 640512008021 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 640512008022 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 640512008023 Maf-like protein; Region: Maf; pfam02545 640512008024 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 640512008025 active site 640512008026 dimer interface [polypeptide binding]; other site 640512008027 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 640512008028 putative SAM binding site [chemical binding]; other site 640512008029 homodimer interface [polypeptide binding]; other site 640512008030 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 640512008031 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 640512008032 tandem repeat interface [polypeptide binding]; other site 640512008033 oligomer interface [polypeptide binding]; other site 640512008034 active site residues [active] 640512008035 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 640512008036 iron-sulfur cluster [ion binding]; other site 640512008037 [2Fe-2S] cluster binding site [ion binding]; other site 640512008038 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 640512008039 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 640512008040 motif II; other site 640512008041 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 640512008042 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 640512008043 RNA binding surface [nucleotide binding]; other site 640512008044 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 640512008045 active site 640512008046 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 640512008047 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 640512008048 homodimer interface [polypeptide binding]; other site 640512008049 oligonucleotide binding site [chemical binding]; other site 640512008050 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 640512008051 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 640512008052 FeS/SAM binding site; other site 640512008053 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 640512008054 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 640512008055 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 640512008056 GTP binding site; other site 640512008057 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 640512008058 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 640512008059 dimer interface [polypeptide binding]; other site 640512008060 putative functional site; other site 640512008061 putative MPT binding site; other site 640512008062 RmuC family; Region: RmuC; pfam02646 640512008063 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 640512008064 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 640512008065 dimerization interface [polypeptide binding]; other site 640512008066 ligand binding site [chemical binding]; other site 640512008067 NADP binding site [chemical binding]; other site 640512008068 catalytic site [active] 640512008069 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 640512008070 Uncharacterized conserved protein [Function unknown]; Region: COG1556 640512008071 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 640512008072 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 640512008073 active site 640512008074 Ferredoxin [Energy production and conversion]; Region: COG1146 640512008075 4Fe-4S binding domain; Region: Fer4; cl02805 640512008076 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 640512008077 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 640512008078 CreA protein; Region: CreA; pfam05981 640512008079 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 640512008080 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 640512008081 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512008082 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512008083 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 640512008084 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 640512008085 Protein of unknown function (DUF4088); Region: DUF4088; pfam13317 640512008086 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 640512008087 Part of AAA domain; Region: AAA_19; pfam13245 640512008088 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 640512008089 Family description; Region: UvrD_C_2; pfam13538 640512008090 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 640512008091 RNA binding surface [nucleotide binding]; other site 640512008092 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 640512008093 multidrug efflux protein; Reviewed; Region: PRK01766 640512008094 cation binding site [ion binding]; other site 640512008095 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 640512008096 Sodium Bile acid symporter family; Region: SBF; pfam01758 640512008097 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 640512008098 PLD-like domain; Region: PLDc_2; pfam13091 640512008099 putative active site [active] 640512008100 catalytic site [active] 640512008101 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 640512008102 PLD-like domain; Region: PLDc_2; pfam13091 640512008103 putative active site [active] 640512008104 catalytic site [active] 640512008105 fumarate hydratase; Reviewed; Region: fumC; PRK00485 640512008106 Class II fumarases; Region: Fumarase_classII; cd01362 640512008107 active site 640512008108 tetramer interface [polypeptide binding]; other site 640512008109 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 640512008110 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 640512008111 conserved cys residue [active] 640512008112 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640512008113 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512008114 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512008115 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640512008116 putative substrate translocation pore; other site 640512008117 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 640512008118 dimerization interface [polypeptide binding]; other site 640512008119 putative DNA binding site [nucleotide binding]; other site 640512008120 putative Zn2+ binding site [ion binding]; other site 640512008121 thymidylate synthase; Provisional; Region: thyA; PRK13821 640512008122 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 640512008123 dimerization interface [polypeptide binding]; other site 640512008124 active site 640512008125 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 640512008126 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 640512008127 Walker A motif; other site 640512008128 ATP binding site [chemical binding]; other site 640512008129 Walker B motif; other site 640512008130 arginine finger; other site 640512008131 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 640512008132 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 640512008133 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 640512008134 folate binding site [chemical binding]; other site 640512008135 NADP+ binding site [chemical binding]; other site 640512008136 peptidase PmbA; Provisional; Region: PRK11040 640512008137 hypothetical protein; Provisional; Region: PRK05255 640512008138 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 640512008139 MPT binding site; other site 640512008140 trimer interface [polypeptide binding]; other site 640512008141 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 640512008142 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 640512008143 catalytic site [active] 640512008144 putative active site [active] 640512008145 putative substrate binding site [chemical binding]; other site 640512008146 dimer interface [polypeptide binding]; other site 640512008147 Peptidase family M48; Region: Peptidase_M48; pfam01435 640512008148 GTPase RsgA; Reviewed; Region: PRK00098 640512008149 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 640512008150 RNA binding site [nucleotide binding]; other site 640512008151 homodimer interface [polypeptide binding]; other site 640512008152 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 640512008153 GTPase/Zn-binding domain interface [polypeptide binding]; other site 640512008154 GTP/Mg2+ binding site [chemical binding]; other site 640512008155 G4 box; other site 640512008156 G5 box; other site 640512008157 G1 box; other site 640512008158 Switch I region; other site 640512008159 G2 box; other site 640512008160 G3 box; other site 640512008161 Switch II region; other site 640512008162 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 640512008163 CobD/CbiB family protein; Provisional; Region: PRK07630 640512008164 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 640512008165 putative active site [active] 640512008166 putative CoA binding site [chemical binding]; other site 640512008167 nudix motif; other site 640512008168 metal binding site [ion binding]; metal-binding site 640512008169 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 640512008170 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 640512008171 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 640512008172 RimM N-terminal domain; Region: RimM; pfam01782 640512008173 PRC-barrel domain; Region: PRC; pfam05239 640512008174 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 640512008175 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 640512008176 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5353 640512008177 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 640512008178 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 640512008179 FeS/SAM binding site; other site 640512008180 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 640512008181 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 640512008182 putative DNA binding site [nucleotide binding]; other site 640512008183 putative Zn2+ binding site [ion binding]; other site 640512008184 AsnC family; Region: AsnC_trans_reg; pfam01037 640512008185 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 640512008186 hydroxyglutarate oxidase; Provisional; Region: PRK11728 640512008187 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 640512008188 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 640512008189 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640512008190 active site 640512008191 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 640512008192 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 640512008193 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 640512008194 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 640512008195 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 640512008196 Ligand binding site [chemical binding]; other site 640512008197 Electron transfer flavoprotein domain; Region: ETF; pfam01012 640512008198 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 640512008199 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 640512008200 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512008201 dimer interface [polypeptide binding]; other site 640512008202 conserved gate region; other site 640512008203 ABC-ATPase subunit interface; other site 640512008204 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 640512008205 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 640512008206 Walker A/P-loop; other site 640512008207 ATP binding site [chemical binding]; other site 640512008208 Q-loop/lid; other site 640512008209 ABC transporter signature motif; other site 640512008210 Walker B; other site 640512008211 D-loop; other site 640512008212 H-loop/switch region; other site 640512008213 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 640512008214 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 640512008215 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 640512008216 enoyl-CoA hydratase; Validated; Region: PRK08139 640512008217 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 640512008218 substrate binding site [chemical binding]; other site 640512008219 oxyanion hole (OAH) forming residues; other site 640512008220 trimer interface [polypeptide binding]; other site 640512008221 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 640512008222 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 640512008223 putative active site [active] 640512008224 Zn binding site [ion binding]; other site 640512008225 Transglycosylase SLT domain; Region: SLT_2; pfam13406 640512008226 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 640512008227 N-acetyl-D-glucosamine binding site [chemical binding]; other site 640512008228 cysteine synthase B; Region: cysM; TIGR01138 640512008229 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 640512008230 dimer interface [polypeptide binding]; other site 640512008231 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640512008232 catalytic residue [active] 640512008233 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 640512008234 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 640512008235 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 640512008236 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 640512008237 NADP binding site [chemical binding]; other site 640512008238 homopentamer interface [polypeptide binding]; other site 640512008239 substrate binding site [chemical binding]; other site 640512008240 active site 640512008241 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 640512008242 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 640512008243 putative ribose interaction site [chemical binding]; other site 640512008244 putative ADP binding site [chemical binding]; other site 640512008245 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 640512008246 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 640512008247 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 640512008248 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 640512008249 tetratricopeptide repeat protein; Provisional; Region: PRK11788 640512008250 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 640512008251 binding surface 640512008252 TPR motif; other site 640512008253 Protein of unknown function (DUF1049); Region: DUF1049; pfam06305 640512008254 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 640512008255 IHF dimer interface [polypeptide binding]; other site 640512008256 IHF - DNA interface [nucleotide binding]; other site 640512008257 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 640512008258 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 640512008259 RNA binding site [nucleotide binding]; other site 640512008260 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 640512008261 RNA binding site [nucleotide binding]; other site 640512008262 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 640512008263 RNA binding site [nucleotide binding]; other site 640512008264 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 640512008265 RNA binding site [nucleotide binding]; other site 640512008266 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 640512008267 RNA binding site [nucleotide binding]; other site 640512008268 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 640512008269 RNA binding site [nucleotide binding]; other site 640512008270 cytidylate kinase; Provisional; Region: cmk; PRK00023 640512008271 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 640512008272 CMP-binding site; other site 640512008273 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 640512008274 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 640512008275 hinge; other site 640512008276 active site 640512008277 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 640512008278 prephenate dehydrogenase; Validated; Region: PRK08507 640512008279 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 640512008280 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 640512008281 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640512008282 homodimer interface [polypeptide binding]; other site 640512008283 catalytic residue [active] 640512008284 Chorismate mutase type II; Region: CM_2; smart00830 640512008285 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 640512008286 Prephenate dehydratase; Region: PDT; pfam00800 640512008287 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 640512008288 putative L-Phe binding site [chemical binding]; other site 640512008289 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 640512008290 homodimer interface [polypeptide binding]; other site 640512008291 substrate-cofactor binding pocket; other site 640512008292 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640512008293 catalytic residue [active] 640512008294 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 640512008295 DNA gyrase subunit A; Validated; Region: PRK05560 640512008296 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 640512008297 CAP-like domain; other site 640512008298 active site 640512008299 primary dimer interface [polypeptide binding]; other site 640512008300 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 640512008301 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 640512008302 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 640512008303 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 640512008304 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 640512008305 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 640512008306 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640512008307 ligand binding site [chemical binding]; other site 640512008308 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 640512008309 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 640512008310 S-adenosylmethionine binding site [chemical binding]; other site 640512008311 phosphoglycolate phosphatase; Provisional; Region: PRK13222 640512008312 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 640512008313 motif II; other site 640512008314 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 640512008315 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 640512008316 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 640512008317 putative active site [active] 640512008318 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 640512008319 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 640512008320 Walker A/P-loop; other site 640512008321 ATP binding site [chemical binding]; other site 640512008322 Q-loop/lid; other site 640512008323 ABC transporter signature motif; other site 640512008324 Walker B; other site 640512008325 D-loop; other site 640512008326 H-loop/switch region; other site 640512008327 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 640512008328 HlyD family secretion protein; Region: HlyD_3; pfam13437 640512008329 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 640512008330 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 640512008331 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 640512008332 PBP superfamily domain; Region: PBP_like; pfam12727 640512008333 formate dehydrogenase subunit gamma; Validated; Region: PRK05988 640512008334 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 640512008335 putative dimer interface [polypeptide binding]; other site 640512008336 [2Fe-2S] cluster binding site [ion binding]; other site 640512008337 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 640512008338 putative dimer interface [polypeptide binding]; other site 640512008339 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 640512008340 SLBB domain; Region: SLBB; pfam10531 640512008341 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 640512008342 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 640512008343 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 640512008344 catalytic loop [active] 640512008345 iron binding site [ion binding]; other site 640512008346 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; smart00929 640512008347 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 640512008348 [4Fe-4S] binding site [ion binding]; other site 640512008349 molybdopterin cofactor binding site; other site 640512008350 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 640512008351 molybdopterin cofactor binding site; other site 640512008352 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 640512008353 hypothetical protein; Provisional; Region: PRK06184 640512008354 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 640512008355 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 640512008356 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 640512008357 dimerization interface [polypeptide binding]; other site 640512008358 putative DNA binding site [nucleotide binding]; other site 640512008359 putative Zn2+ binding site [ion binding]; other site 640512008360 Tetratricopeptide repeat; Region: TPR_16; pfam13432 640512008361 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 640512008362 TPR motif; other site 640512008363 binding surface 640512008364 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 640512008365 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 640512008366 binding surface 640512008367 TPR motif; other site 640512008368 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 640512008369 binding surface 640512008370 TPR motif; other site 640512008371 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 640512008372 binding surface 640512008373 TPR motif; other site 640512008374 ADP-heptose:LPS heptosyl transferase I; Provisional; Region: PRK10964; cl15782 640512008375 citrate-proton symporter; Provisional; Region: PRK15075 640512008376 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512008377 putative substrate translocation pore; other site 640512008378 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 640512008379 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640512008380 Coenzyme A binding pocket [chemical binding]; other site 640512008381 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 640512008382 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 640512008383 Peptidase C26; Region: Peptidase_C26; pfam07722 640512008384 catalytic triad [active] 640512008385 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 640512008386 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 640512008387 Protein of unknown function (DUF2848); Region: DUF2848; pfam11010 640512008388 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 640512008389 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512008390 putative substrate translocation pore; other site 640512008391 Transcriptional regulators [Transcription]; Region: GntR; COG1802 640512008392 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640512008393 DNA-binding site [nucleotide binding]; DNA binding site 640512008394 FCD domain; Region: FCD; pfam07729 640512008395 amidase; Provisional; Region: PRK07056 640512008396 Amidase; Region: Amidase; cl11426 640512008397 disulfide bond formation protein B; Provisional; Region: PRK02110 640512008398 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 640512008399 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 640512008400 catalytic loop [active] 640512008401 iron binding site [ion binding]; other site 640512008402 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 640512008403 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 640512008404 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 640512008405 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 640512008406 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640512008407 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 640512008408 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 640512008409 XdhC Rossmann domain; Region: XdhC_C; pfam13478 640512008410 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 640512008411 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 640512008412 active site 640512008413 purine riboside binding site [chemical binding]; other site 640512008414 guanine deaminase; Provisional; Region: PRK09228 640512008415 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 640512008416 active site 640512008417 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 640512008418 Methyltransferase domain; Region: Methyltransf_23; pfam13489 640512008419 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 640512008420 S-adenosylmethionine binding site [chemical binding]; other site 640512008421 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 640512008422 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 640512008423 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 640512008424 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 640512008425 dimer interface [polypeptide binding]; other site 640512008426 active site 640512008427 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 640512008428 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 640512008429 dimer interface [polypeptide binding]; other site 640512008430 active site 640512008431 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640512008432 3-oxoacyl-(acyl-carrier-protein) reductase, putative; Region: fabG_rel; TIGR01831 640512008433 NAD(P) binding site [chemical binding]; other site 640512008434 active site 640512008435 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 640512008436 putative active site 1 [active] 640512008437 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 640512008438 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 640512008439 dimer interface [polypeptide binding]; other site 640512008440 active site 640512008441 Predicted exporter [General function prediction only]; Region: COG4258 640512008442 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 640512008443 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 640512008444 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 640512008445 active site 640512008446 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 640512008447 active sites [active] 640512008448 tetramer interface [polypeptide binding]; other site 640512008449 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 640512008450 Ligand binding site; other site 640512008451 Putative Catalytic site; other site 640512008452 DXD motif; other site 640512008453 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 640512008454 putative acyl-acceptor binding pocket; other site 640512008455 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 640512008456 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 640512008457 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 640512008458 AMP binding site [chemical binding]; other site 640512008459 active site 640512008460 acyl-activating enzyme (AAE) consensus motif; other site 640512008461 acyl-activating enzyme (AAE) consensus motif; other site 640512008462 CoA binding site [chemical binding]; other site 640512008463 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 640512008464 active site 2 [active] 640512008465 dimer interface [polypeptide binding]; other site 640512008466 active site 1 [active] 640512008467 Predicted membrane protein [Function unknown]; Region: COG4648 640512008468 acyl carrier protein; Provisional; Region: PRK05350 640512008469 Phosphopantetheine attachment site; Region: PP-binding; cl09936 640512008470 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 640512008471 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 640512008472 putative acyl-acceptor binding pocket; other site 640512008473 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 640512008474 Predicted membrane protein [Function unknown]; Region: COG2119 640512008475 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 640512008476 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 640512008477 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 640512008478 aminopeptidase N; Provisional; Region: pepN; PRK14015 640512008479 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 640512008480 active site 640512008481 Zn binding site [ion binding]; other site 640512008482 fructose-1,6-bisphosphatase family protein; Region: PLN02628 640512008483 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 640512008484 AMP binding site [chemical binding]; other site 640512008485 metal binding site [ion binding]; metal-binding site 640512008486 active site 640512008487 chorismate mutase; Provisional; Region: PRK09269 640512008488 Chorismate mutase type II; Region: CM_2; cl00693 640512008489 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 640512008490 active site 640512008491 catalytic site [active] 640512008492 substrate binding site [chemical binding]; other site 640512008493 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 640512008494 GIY-YIG motif/motif A; other site 640512008495 active site 640512008496 catalytic site [active] 640512008497 putative DNA binding site [nucleotide binding]; other site 640512008498 metal binding site [ion binding]; metal-binding site 640512008499 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 640512008500 DNA-binding site [nucleotide binding]; DNA binding site 640512008501 RNA-binding motif; other site 640512008502 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640512008503 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 640512008504 trimer interface [polypeptide binding]; other site 640512008505 eyelet of channel; other site 640512008506 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 640512008507 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 640512008508 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 640512008509 Protein of unknown function (DUF2591); Region: DUF2591; cl11584 640512008510 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 640512008511 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 640512008512 Zn2+ binding site [ion binding]; other site 640512008513 Mg2+ binding site [ion binding]; other site 640512008514 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 640512008515 synthetase active site [active] 640512008516 NTP binding site [chemical binding]; other site 640512008517 metal binding site [ion binding]; metal-binding site 640512008518 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 640512008519 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 640512008520 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 640512008521 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 640512008522 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 640512008523 catalytic site [active] 640512008524 G-X2-G-X-G-K; other site 640512008525 hypothetical protein; Provisional; Region: PRK11820 640512008526 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 640512008527 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 640512008528 ribonuclease PH; Reviewed; Region: rph; PRK00173 640512008529 Ribonuclease PH; Region: RNase_PH_bact; cd11362 640512008530 hexamer interface [polypeptide binding]; other site 640512008531 active site 640512008532 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 640512008533 active site 640512008534 dimerization interface [polypeptide binding]; other site 640512008535 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 640512008536 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 640512008537 FeS/SAM binding site; other site 640512008538 HemN C-terminal domain; Region: HemN_C; pfam06969 640512008539 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512008540 putative substrate translocation pore; other site 640512008541 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 640512008542 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 640512008543 inhibitor-cofactor binding pocket; inhibition site 640512008544 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640512008545 catalytic residue [active] 640512008546 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 640512008547 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 640512008548 catalytic motif [active] 640512008549 Zn binding site [ion binding]; other site 640512008550 RibD C-terminal domain; Region: RibD_C; cl17279 640512008551 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 640512008552 Lumazine binding domain; Region: Lum_binding; pfam00677 640512008553 Lumazine binding domain; Region: Lum_binding; pfam00677 640512008554 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 640512008555 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 640512008556 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 640512008557 dimerization interface [polypeptide binding]; other site 640512008558 active site 640512008559 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 640512008560 homopentamer interface [polypeptide binding]; other site 640512008561 active site 640512008562 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 640512008563 putative RNA binding site [nucleotide binding]; other site 640512008564 aminotransferase; Validated; Region: PRK07337 640512008565 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 640512008566 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640512008567 homodimer interface [polypeptide binding]; other site 640512008568 catalytic residue [active] 640512008569 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 640512008570 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 640512008571 N-acetyl-D-glucosamine binding site [chemical binding]; other site 640512008572 catalytic residue [active] 640512008573 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 640512008574 LysE type translocator; Region: LysE; cl00565 640512008575 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 640512008576 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 640512008577 tetramer interface [polypeptide binding]; other site 640512008578 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640512008579 catalytic residue [active] 640512008580 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 640512008581 Uncharacterized conserved protein [Function unknown]; Region: COG5495 640512008582 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 640512008583 EthD domain; Region: EthD; cl17553 640512008584 YGGT family; Region: YGGT; pfam02325 640512008585 YGGT family; Region: YGGT; pfam02325 640512008586 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 640512008587 catalytic residue [active] 640512008588 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 640512008589 S-adenosylmethionine binding site [chemical binding]; other site 640512008590 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 640512008591 Protein of unknown function (DUF1439); Region: DUF1439; cl06345 640512008592 Flagellin N-methylase; Region: FliB; pfam03692 640512008593 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 640512008594 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 640512008595 FeS/SAM binding site; other site 640512008596 HemN C-terminal domain; Region: HemN_C; pfam06969 640512008597 aromatic amino acid transporter; Provisional; Region: PRK10238 640512008598 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 640512008599 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640512008600 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_1; cd08663 640512008601 SxDxEG motif; other site 640512008602 active site 640512008603 metal binding site [ion binding]; metal-binding site 640512008604 homopentamer interface [polypeptide binding]; other site 640512008605 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 640512008606 homodimer interface [polypeptide binding]; other site 640512008607 homotetramer interface [polypeptide binding]; other site 640512008608 active site pocket [active] 640512008609 cleavage site 640512008610 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 640512008611 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512008612 dimer interface [polypeptide binding]; other site 640512008613 conserved gate region; other site 640512008614 putative PBP binding loops; other site 640512008615 ABC-ATPase subunit interface; other site 640512008616 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 640512008617 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512008618 dimer interface [polypeptide binding]; other site 640512008619 conserved gate region; other site 640512008620 putative PBP binding loops; other site 640512008621 ABC-ATPase subunit interface; other site 640512008622 glutathione ABC transporter substrate-binding protein GsiB; Provisional; Region: PRK15413 640512008623 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 640512008624 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 640512008625 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640512008626 Walker A/P-loop; other site 640512008627 ATP binding site [chemical binding]; other site 640512008628 Q-loop/lid; other site 640512008629 ABC transporter signature motif; other site 640512008630 Walker B; other site 640512008631 D-loop; other site 640512008632 H-loop/switch region; other site 640512008633 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640512008634 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640512008635 Walker A/P-loop; other site 640512008636 ATP binding site [chemical binding]; other site 640512008637 Q-loop/lid; other site 640512008638 ABC transporter signature motif; other site 640512008639 Walker B; other site 640512008640 D-loop; other site 640512008641 H-loop/switch region; other site 640512008642 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 640512008643 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 640512008644 active site 640512008645 dimer interface [polypeptide binding]; other site 640512008646 catalytic nucleophile [active] 640512008647 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 640512008648 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 640512008649 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 640512008650 putative active site [active] 640512008651 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 640512008652 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 640512008653 active site 640512008654 uracil binding [chemical binding]; other site 640512008655 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 640512008656 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640512008657 NAD(P) binding site [chemical binding]; other site 640512008658 active site 640512008659 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 640512008660 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 640512008661 catalytic loop [active] 640512008662 iron binding site [ion binding]; other site 640512008663 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 640512008664 FAD binding pocket [chemical binding]; other site 640512008665 FAD binding motif [chemical binding]; other site 640512008666 phosphate binding motif [ion binding]; other site 640512008667 beta-alpha-beta structure motif; other site 640512008668 NAD binding pocket [chemical binding]; other site 640512008669 acetylornithine transaminase protein; Provisional; Region: argD; PRK03715 640512008670 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 640512008671 inhibitor-cofactor binding pocket; inhibition site 640512008672 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640512008673 catalytic residue [active] 640512008674 putative acetyltransferase; Provisional; Region: PRK03624 640512008675 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640512008676 Coenzyme A binding pocket [chemical binding]; other site 640512008677 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 640512008678 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 640512008679 Walker A/P-loop; other site 640512008680 ATP binding site [chemical binding]; other site 640512008681 Q-loop/lid; other site 640512008682 ABC transporter signature motif; other site 640512008683 Walker B; other site 640512008684 D-loop; other site 640512008685 H-loop/switch region; other site 640512008686 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 640512008687 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 640512008688 Walker A/P-loop; other site 640512008689 ATP binding site [chemical binding]; other site 640512008690 Q-loop/lid; other site 640512008691 ABC transporter signature motif; other site 640512008692 Walker B; other site 640512008693 D-loop; other site 640512008694 H-loop/switch region; other site 640512008695 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 640512008696 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 640512008697 TM-ABC transporter signature motif; other site 640512008698 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640512008699 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 640512008700 TM-ABC transporter signature motif; other site 640512008701 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 640512008702 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 640512008703 dimerization interface [polypeptide binding]; other site 640512008704 ligand binding site [chemical binding]; other site 640512008705 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 640512008706 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 640512008707 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 640512008708 hypothetical protein; Reviewed; Region: PRK00024 640512008709 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 640512008710 MPN+ (JAMM) motif; other site 640512008711 Zinc-binding site [ion binding]; other site 640512008712 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 640512008713 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 640512008714 L-aspartate oxidase; Provisional; Region: PRK09077 640512008715 L-aspartate oxidase; Provisional; Region: PRK06175 640512008716 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 640512008717 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06978 640512008718 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 640512008719 dimerization interface [polypeptide binding]; other site 640512008720 active site 640512008721 quinolinate synthetase; Provisional; Region: PRK09375 640512008722 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 640512008723 Fatty acid desaturase; Region: FA_desaturase; pfam00487 640512008724 Di-iron ligands [ion binding]; other site 640512008725 Transposase; Region: DDE_Tnp_ISL3; pfam01610 640512008726 Mechanosensitive ion channel; Region: MS_channel; pfam00924 640512008727 ribosomal RNA small subunit methyltransferase RsmB; Region: rsmB; TIGR00563 640512008728 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 640512008729 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 640512008730 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 640512008731 active site 640512008732 substrate binding site [chemical binding]; other site 640512008733 cosubstrate binding site; other site 640512008734 catalytic site [active] 640512008735 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 640512008736 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 640512008737 active site 640512008738 Riboflavin kinase; Region: Flavokinase; smart00904 640512008739 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 640512008740 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 640512008741 active site 640512008742 HIGH motif; other site 640512008743 nucleotide binding site [chemical binding]; other site 640512008744 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 640512008745 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 640512008746 active site 640512008747 KMSKS motif; other site 640512008748 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 640512008749 tRNA binding surface [nucleotide binding]; other site 640512008750 anticodon binding site; other site 640512008751 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 640512008752 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 640512008753 lipoprotein signal peptidase; Provisional; Region: PRK14787 640512008754 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 640512008755 Flavoprotein; Region: Flavoprotein; pfam02441 640512008756 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 640512008757 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 640512008758 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 640512008759 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 640512008760 trimer interface [polypeptide binding]; other site 640512008761 active site 640512008762 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 640512008763 Clp amino terminal domain; Region: Clp_N; pfam02861 640512008764 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 640512008765 Walker A motif; other site 640512008766 ATP binding site [chemical binding]; other site 640512008767 Walker B motif; other site 640512008768 arginine finger; other site 640512008769 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 640512008770 Walker A motif; other site 640512008771 ATP binding site [chemical binding]; other site 640512008772 Walker B motif; other site 640512008773 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 640512008774 Uncharacterized conserved protein [Function unknown]; Region: COG2127 640512008775 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 640512008776 DNA-binding site [nucleotide binding]; DNA binding site 640512008777 RNA-binding motif; other site 640512008778 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 640512008779 PAAR motif; Region: PAAR_motif; pfam05488 640512008780 isocitrate dehydrogenase; Validated; Region: PRK07362 640512008781 isocitrate dehydrogenase; Reviewed; Region: PRK07006 640512008782 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 640512008783 pseudouridine synthase; Region: TIGR00093 640512008784 active site 640512008785 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 640512008786 elongation factor G; Reviewed; Region: PRK00007 640512008787 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 640512008788 G1 box; other site 640512008789 putative GEF interaction site [polypeptide binding]; other site 640512008790 GTP/Mg2+ binding site [chemical binding]; other site 640512008791 Switch I region; other site 640512008792 G2 box; other site 640512008793 G3 box; other site 640512008794 Switch II region; other site 640512008795 G4 box; other site 640512008796 G5 box; other site 640512008797 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 640512008798 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 640512008799 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 640512008800 Cupin domain; Region: Cupin_2; cl17218 640512008801 High-affinity nickel-transport protein; Region: NicO; cl00964 640512008802 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 640512008803 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 640512008804 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 640512008805 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512008806 dimer interface [polypeptide binding]; other site 640512008807 conserved gate region; other site 640512008808 putative PBP binding loops; other site 640512008809 ABC-ATPase subunit interface; other site 640512008810 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 640512008811 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512008812 dimer interface [polypeptide binding]; other site 640512008813 conserved gate region; other site 640512008814 putative PBP binding loops; other site 640512008815 ABC-ATPase subunit interface; other site 640512008816 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 640512008817 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640512008818 Walker A/P-loop; other site 640512008819 ATP binding site [chemical binding]; other site 640512008820 Q-loop/lid; other site 640512008821 ABC transporter signature motif; other site 640512008822 Walker B; other site 640512008823 D-loop; other site 640512008824 H-loop/switch region; other site 640512008825 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640512008826 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 640512008827 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640512008828 Walker A/P-loop; other site 640512008829 ATP binding site [chemical binding]; other site 640512008830 Q-loop/lid; other site 640512008831 ABC transporter signature motif; other site 640512008832 Walker B; other site 640512008833 D-loop; other site 640512008834 H-loop/switch region; other site 640512008835 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640512008836 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 640512008837 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 640512008838 active site 640512008839 catalytic tetrad [active] 640512008840 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 640512008841 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640512008842 DNA-binding site [nucleotide binding]; DNA binding site 640512008843 UTRA domain; Region: UTRA; pfam07702 640512008844 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 640512008845 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640512008846 Helix-turn-helix domain; Region: HTH_17; pfam12728 640512008847 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 640512008848 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 640512008849 active site 640512008850 coenzyme A binding site [chemical binding]; other site 640512008851 citrylCoA binding site [chemical binding]; other site 640512008852 dimer interface [polypeptide binding]; other site 640512008853 Citrate synthase; Region: Citrate_synt; pfam00285 640512008854 oxalacetate/citrate binding site [chemical binding]; other site 640512008855 catalytic triad [active] 640512008856 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 640512008857 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 640512008858 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640512008859 DNA-binding site [nucleotide binding]; DNA binding site 640512008860 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 640512008861 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640512008862 homodimer interface [polypeptide binding]; other site 640512008863 catalytic residue [active] 640512008864 putative transporter; Provisional; Region: PRK10504 640512008865 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512008866 putative substrate translocation pore; other site 640512008867 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 640512008868 RNA polymerase sigma factor SigJ; Provisional; Region: PRK09636 640512008869 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 640512008870 DNA binding residues [nucleotide binding] 640512008871 Clp protease; Region: CLP_protease; pfam00574 640512008872 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 640512008873 oligomer interface [polypeptide binding]; other site 640512008874 active site residues [active] 640512008875 LabA_like proteins; Region: LabA_like; cd06167 640512008876 putative metal binding site [ion binding]; other site 640512008877 Uncharacterized conserved protein [Function unknown]; Region: COG1432 640512008878 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 640512008879 Glycine-zipper containing OmpA-like membrane domain; Region: Gly-zipper_OmpA; pfam13436 640512008880 superoxide dismutase; Provisional; Region: PRK10543 640512008881 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 640512008882 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 640512008883 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 640512008884 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 640512008885 generic binding surface II; other site 640512008886 generic binding surface I; other site 640512008887 tetraacyldisaccharide 4'-kinase; Provisional; Region: PRK01906 640512008888 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 640512008889 Uncharacterized conserved protein [Function unknown]; Region: COG2835 640512008890 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 640512008891 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 640512008892 Ligand binding site; other site 640512008893 oligomer interface; other site 640512008894 adenylate kinase; Reviewed; Region: adk; PRK00279 640512008895 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 640512008896 AMP-binding site [chemical binding]; other site 640512008897 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 640512008898 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 640512008899 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 640512008900 NAD binding site [chemical binding]; other site 640512008901 homodimer interface [polypeptide binding]; other site 640512008902 homotetramer interface [polypeptide binding]; other site 640512008903 active site 640512008904 Uncharacterized conserved protein [Function unknown]; Region: COG2912 640512008905 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 640512008906 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 640512008907 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 640512008908 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 640512008909 ornithine carbamoyltransferase; Provisional; Region: PRK00779 640512008910 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 640512008911 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 640512008912 argininosuccinate synthase; Provisional; Region: PRK13820 640512008913 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 640512008914 ANP binding site [chemical binding]; other site 640512008915 Substrate Binding Site II [chemical binding]; other site 640512008916 Substrate Binding Site I [chemical binding]; other site 640512008917 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 640512008918 FAD binding domain; Region: FAD_binding_4; pfam01565 640512008919 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 640512008920 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 640512008921 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 640512008922 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 640512008923 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 640512008924 putative deacylase active site [active] 640512008925 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 640512008926 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 640512008927 acyl-activating enzyme (AAE) consensus motif; other site 640512008928 AMP binding site [chemical binding]; other site 640512008929 active site 640512008930 CoA binding site [chemical binding]; other site 640512008931 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 640512008932 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 640512008933 active site 640512008934 DNA binding site [nucleotide binding] 640512008935 Int/Topo IB signature motif; other site 640512008936 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 640512008937 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 640512008938 DNA binding site [nucleotide binding] 640512008939 active site 640512008940 epoxyqueuosine reductase; Region: TIGR00276 640512008941 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 640512008942 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 640512008943 AMIN domain; Region: AMIN; pfam11741 640512008944 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 640512008945 active site 640512008946 metal binding site [ion binding]; metal-binding site 640512008947 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 640512008948 EamA-like transporter family; Region: EamA; pfam00892 640512008949 Pirin-related protein [General function prediction only]; Region: COG1741 640512008950 Pirin; Region: Pirin; pfam02678 640512008951 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 640512008952 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 640512008953 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 640512008954 catalytic residues [active] 640512008955 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 640512008956 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 640512008957 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 640512008958 putative ATP binding site [chemical binding]; other site 640512008959 putative substrate interface [chemical binding]; other site 640512008960 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 640512008961 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 640512008962 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 640512008963 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 640512008964 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 640512008965 S-adenosylmethionine binding site [chemical binding]; other site 640512008966 Protein of unknown function DUF72; Region: DUF72; pfam01904 640512008967 methionine sulfoxide reductase A; Provisional; Region: PRK14054 640512008968 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 640512008969 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 640512008970 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 640512008971 putative DNA binding site [nucleotide binding]; other site 640512008972 putative Zn2+ binding site [ion binding]; other site 640512008973 AsnC family; Region: AsnC_trans_reg; pfam01037 640512008974 Putative cyclase; Region: Cyclase; cl00814 640512008975 Kynureninase [Amino acid transport and metabolism]; Region: COG3844 640512008976 kynureninase; Region: kynureninase; TIGR01814 640512008977 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640512008978 catalytic residue [active] 640512008979 tryptophan 2,3-dioxygenase; Region: trp_2_3_diox; TIGR03036 640512008980 short chain dehydrogenase; Provisional; Region: PRK07060 640512008981 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640512008982 NAD(P) binding site [chemical binding]; other site 640512008983 active site 640512008984 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 640512008985 uncharacterized xylulose kinase-like proteins; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_XK_like_1; cd07804 640512008986 N- and C-terminal domain interface [polypeptide binding]; other site 640512008987 putative active site [active] 640512008988 MgATP binding site [chemical binding]; other site 640512008989 catalytic site [active] 640512008990 metal binding site [ion binding]; metal-binding site 640512008991 putative xylulose binding site [chemical binding]; other site 640512008992 putative homodimer interface [polypeptide binding]; other site 640512008993 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 640512008994 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH2; cd08256 640512008995 putative NAD(P) binding site [chemical binding]; other site 640512008996 catalytic Zn binding site [ion binding]; other site 640512008997 structural Zn binding site [ion binding]; other site 640512008998 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 640512008999 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640512009000 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 640512009001 TM-ABC transporter signature motif; other site 640512009002 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 640512009003 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 640512009004 Walker A/P-loop; other site 640512009005 ATP binding site [chemical binding]; other site 640512009006 Q-loop/lid; other site 640512009007 ABC transporter signature motif; other site 640512009008 Walker B; other site 640512009009 D-loop; other site 640512009010 H-loop/switch region; other site 640512009011 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 640512009012 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_11; cd06321 640512009013 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640512009014 putative ligand binding site [chemical binding]; other site 640512009015 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 640512009016 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 640512009017 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512009018 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 640512009019 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 640512009020 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 640512009021 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 640512009022 N- and C-terminal domain interface [polypeptide binding]; other site 640512009023 D-xylulose kinase; Region: XylB; TIGR01312 640512009024 active site 640512009025 MgATP binding site [chemical binding]; other site 640512009026 catalytic site [active] 640512009027 metal binding site [ion binding]; metal-binding site 640512009028 xylulose binding site [chemical binding]; other site 640512009029 homodimer interface [polypeptide binding]; other site 640512009030 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 640512009031 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 640512009032 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 640512009033 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 640512009034 Walker A/P-loop; other site 640512009035 ATP binding site [chemical binding]; other site 640512009036 Q-loop/lid; other site 640512009037 ABC transporter signature motif; other site 640512009038 Walker B; other site 640512009039 D-loop; other site 640512009040 H-loop/switch region; other site 640512009041 TOBE domain; Region: TOBE_2; pfam08402 640512009042 TOBE domain; Region: TOBE_2; pfam08402 640512009043 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 640512009044 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 640512009045 active site 640512009046 motif I; other site 640512009047 motif II; other site 640512009048 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 640512009049 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 640512009050 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512009051 dimer interface [polypeptide binding]; other site 640512009052 conserved gate region; other site 640512009053 putative PBP binding loops; other site 640512009054 ABC-ATPase subunit interface; other site 640512009055 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512009056 ABC-ATPase subunit interface; other site 640512009057 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 640512009058 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 640512009059 sorbitol dehydrogenase; Provisional; Region: PRK07067 640512009060 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640512009061 NAD(P) binding site [chemical binding]; other site 640512009062 active site 640512009063 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 640512009064 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 640512009065 metal binding site [ion binding]; metal-binding site 640512009066 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 640512009067 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 640512009068 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 640512009069 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 640512009070 ABC-ATPase subunit interface; other site 640512009071 dimer interface [polypeptide binding]; other site 640512009072 putative PBP binding regions; other site 640512009073 S-formylglutathione hydrolase; Region: PLN02442 640512009074 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 640512009075 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 640512009076 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 640512009077 substrate binding site [chemical binding]; other site 640512009078 catalytic Zn binding site [ion binding]; other site 640512009079 NAD binding site [chemical binding]; other site 640512009080 structural Zn binding site [ion binding]; other site 640512009081 dimer interface [polypeptide binding]; other site 640512009082 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 640512009083 D-xylulose kinase; Region: XylB; TIGR01312 640512009084 nucleotide binding site [chemical binding]; other site 640512009085 xanthine permease; Region: pbuX; TIGR03173 640512009086 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640512009087 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 640512009088 Protein export membrane protein; Region: SecD_SecF; cl14618 640512009089 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 640512009090 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 640512009091 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640512009092 HlyD family secretion protein; Region: HlyD_3; pfam13437 640512009093 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 640512009094 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640512009095 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 640512009096 Isochorismatase family; Region: Isochorismatase; pfam00857 640512009097 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 640512009098 catalytic triad [active] 640512009099 conserved cis-peptide bond; other site 640512009100 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 640512009101 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 640512009102 conserved cys residue [active] 640512009103 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 640512009104 hydrophobic ligand binding site; other site 640512009105 Domain of unknown function (DUF427); Region: DUF427; pfam04248 640512009106 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 640512009107 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 640512009108 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 640512009109 protein binding site [polypeptide binding]; other site 640512009110 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 640512009111 protein binding site [polypeptide binding]; other site 640512009112 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640512009113 HAMP domain; Region: HAMP; pfam00672 640512009114 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 640512009115 dimer interface [polypeptide binding]; other site 640512009116 phosphorylation site [posttranslational modification] 640512009117 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512009118 ATP binding site [chemical binding]; other site 640512009119 Mg2+ binding site [ion binding]; other site 640512009120 G-X-G motif; other site 640512009121 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 640512009122 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512009123 active site 640512009124 phosphorylation site [posttranslational modification] 640512009125 intermolecular recognition site; other site 640512009126 dimerization interface [polypeptide binding]; other site 640512009127 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 640512009128 DNA binding site [nucleotide binding] 640512009129 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 640512009130 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 640512009131 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 640512009132 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 640512009133 active site 640512009134 catalytic triad [active] 640512009135 oxyanion hole [active] 640512009136 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 640512009137 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 640512009138 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 640512009139 ATP-grasp domain; Region: ATP-grasp; pfam02222 640512009140 AIR carboxylase; Region: AIRC; pfam00731 640512009141 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 640512009142 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 640512009143 ATP binding site [chemical binding]; other site 640512009144 active site 640512009145 substrate binding site [chemical binding]; other site 640512009146 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 640512009147 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 640512009148 intersubunit interface [polypeptide binding]; other site 640512009149 active site 640512009150 zinc binding site [ion binding]; other site 640512009151 Na+ binding site [ion binding]; other site 640512009152 pyruvate kinase; Provisional; Region: PRK05826 640512009153 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 640512009154 domain interfaces; other site 640512009155 active site 640512009156 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 640512009157 Phosphoglycerate kinase; Region: PGK; pfam00162 640512009158 substrate binding site [chemical binding]; other site 640512009159 hinge regions; other site 640512009160 ADP binding site [chemical binding]; other site 640512009161 catalytic site [active] 640512009162 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 640512009163 AzlC protein; Region: AzlC; pfam03591 640512009164 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 640512009165 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 640512009166 homodimer interface [polypeptide binding]; other site 640512009167 substrate-cofactor binding pocket; other site 640512009168 catalytic residue [active] 640512009169 Zinc-finger domain; Region: zf-CHCC; cl01821 640512009170 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 640512009171 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 640512009172 putative active site [active] 640512009173 SnoaL-like domain; Region: SnoaL_3; pfam13474 640512009174 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 640512009175 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 640512009176 Protein of unknown function (DUF2946); Region: DUF2944; pfam11161 640512009177 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 640512009178 Peptidase family M48; Region: Peptidase_M48; pfam01435 640512009179 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 640512009180 trimer interface [polypeptide binding]; other site 640512009181 dimer interface [polypeptide binding]; other site 640512009182 putative active site [active] 640512009183 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 640512009184 O-Antigen ligase; Region: Wzy_C; pfam04932 640512009185 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 640512009186 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 640512009187 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 640512009188 Pilin (bacterial filament); Region: Pilin; pfam00114 640512009189 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 640512009190 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 640512009191 CoA binding domain; Region: CoA_binding; smart00881 640512009192 CoA-ligase; Region: Ligase_CoA; pfam00549 640512009193 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 640512009194 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 640512009195 CoA-ligase; Region: Ligase_CoA; pfam00549 640512009196 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 640512009197 RecX family; Region: RecX; cl00936 640512009198 recombinase A; Provisional; Region: recA; PRK09354 640512009199 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 640512009200 hexamer interface [polypeptide binding]; other site 640512009201 Walker A motif; other site 640512009202 ATP binding site [chemical binding]; other site 640512009203 Walker B motif; other site 640512009204 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 640512009205 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512009206 active site 640512009207 phosphorylation site [posttranslational modification] 640512009208 intermolecular recognition site; other site 640512009209 dimerization interface [polypeptide binding]; other site 640512009210 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 640512009211 DNA binding site [nucleotide binding] 640512009212 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 640512009213 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640512009214 HAMP domain; Region: HAMP; pfam00672 640512009215 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 640512009216 dimer interface [polypeptide binding]; other site 640512009217 phosphorylation site [posttranslational modification] 640512009218 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512009219 ATP binding site [chemical binding]; other site 640512009220 Mg2+ binding site [ion binding]; other site 640512009221 G-X-G motif; other site 640512009222 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512009223 putative substrate translocation pore; other site 640512009224 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640512009225 MarR family; Region: MarR; pfam01047 640512009226 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 640512009227 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512009228 putative substrate translocation pore; other site 640512009229 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512009230 Transcriptional regulators [Transcription]; Region: FadR; COG2186 640512009231 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640512009232 DNA-binding site [nucleotide binding]; DNA binding site 640512009233 FCD domain; Region: FCD; pfam07729 640512009234 galactonate dehydratase; Provisional; Region: PRK14017 640512009235 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 640512009236 putative active site pocket [active] 640512009237 putative metal binding site [ion binding]; other site 640512009238 Uncharacterized small protein (DUF2158); Region: DUF2158; pfam09926 640512009239 CopC domain; Region: CopC; pfam04234 640512009240 Cytochrome c553 [Energy production and conversion]; Region: COG2863 640512009241 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640512009242 Cytochrome c; Region: Cytochrom_C; cl11414 640512009243 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640512009244 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640512009245 Cytochrome c; Region: Cytochrom_C; pfam00034 640512009246 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 640512009247 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 640512009248 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 640512009249 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 640512009250 ATP binding site [chemical binding]; other site 640512009251 Mg++ binding site [ion binding]; other site 640512009252 motif III; other site 640512009253 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 640512009254 nucleotide binding region [chemical binding]; other site 640512009255 ATP-binding site [chemical binding]; other site 640512009256 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 640512009257 dinuclear metal binding motif [ion binding]; other site 640512009258 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 640512009259 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 640512009260 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 640512009261 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 640512009262 glycerol kinase; Provisional; Region: glpK; PRK00047 640512009263 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 640512009264 N- and C-terminal domain interface [polypeptide binding]; other site 640512009265 active site 640512009266 MgATP binding site [chemical binding]; other site 640512009267 catalytic site [active] 640512009268 metal binding site [ion binding]; metal-binding site 640512009269 glycerol binding site [chemical binding]; other site 640512009270 homotetramer interface [polypeptide binding]; other site 640512009271 homodimer interface [polypeptide binding]; other site 640512009272 FBP binding site [chemical binding]; other site 640512009273 protein IIAGlc interface [polypeptide binding]; other site 640512009274 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 640512009275 amphipathic channel; other site 640512009276 Asn-Pro-Ala signature motifs; other site 640512009277 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 640512009278 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 640512009279 motif II; other site 640512009280 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 640512009281 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 640512009282 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 640512009283 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 640512009284 non-specific DNA binding site [nucleotide binding]; other site 640512009285 salt bridge; other site 640512009286 sequence-specific DNA binding site [nucleotide binding]; other site 640512009287 Cupin domain; Region: Cupin_2; pfam07883 640512009288 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 640512009289 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512009290 putative substrate translocation pore; other site 640512009291 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640512009292 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 640512009293 dimer interface [polypeptide binding]; other site 640512009294 putative metal binding site [ion binding]; other site 640512009295 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512009296 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512009297 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 640512009298 putative effector binding pocket; other site 640512009299 dimerization interface [polypeptide binding]; other site 640512009300 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 640512009301 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 640512009302 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 640512009303 FeS/SAM binding site; other site 640512009304 TRAM domain; Region: TRAM; pfam01938 640512009305 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 640512009306 PhoH-like protein; Region: PhoH; pfam02562 640512009307 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 640512009308 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 640512009309 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 640512009310 putative active site pocket [active] 640512009311 dimerization interface [polypeptide binding]; other site 640512009312 putative catalytic residue [active] 640512009313 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 640512009314 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 640512009315 Transporter associated domain; Region: CorC_HlyC; smart01091 640512009316 Apolipoprotein N-acyltransferase [Cell envelope biogenesis, outer membrane]; Region: Lnt; COG0815 640512009317 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 640512009318 putative active site [active] 640512009319 catalytic triad [active] 640512009320 putative dimer interface [polypeptide binding]; other site 640512009321 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 640512009322 putative glutathione S-transferase; Provisional; Region: PRK10357 640512009323 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 640512009324 putative C-terminal domain interface [polypeptide binding]; other site 640512009325 putative GSH binding site (G-site) [chemical binding]; other site 640512009326 putative dimer interface [polypeptide binding]; other site 640512009327 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 640512009328 dimer interface [polypeptide binding]; other site 640512009329 N-terminal domain interface [polypeptide binding]; other site 640512009330 putative substrate binding pocket (H-site) [chemical binding]; other site 640512009331 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 640512009332 proline aminopeptidase P II; Provisional; Region: PRK10879 640512009333 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 640512009334 active site 640512009335 hypothetical protein; Provisional; Region: PRK06996 640512009336 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 640512009337 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 640512009338 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 640512009339 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 640512009340 FMN binding site [chemical binding]; other site 640512009341 active site 640512009342 catalytic residues [active] 640512009343 substrate binding site [chemical binding]; other site 640512009344 DNA-binding protein Fis; Provisional; Region: PRK01905 640512009345 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 640512009346 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 640512009347 purine monophosphate binding site [chemical binding]; other site 640512009348 dimer interface [polypeptide binding]; other site 640512009349 putative catalytic residues [active] 640512009350 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 640512009351 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 640512009352 cystathionine gamma-lyase; Validated; Region: PRK07582 640512009353 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 640512009354 active site 640512009355 putative DNA-binding cleft [nucleotide binding]; other site 640512009356 dimer interface [polypeptide binding]; other site 640512009357 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 640512009358 RuvA N terminal domain; Region: RuvA_N; pfam01330 640512009359 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 640512009360 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 640512009361 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 640512009362 Walker A motif; other site 640512009363 ATP binding site [chemical binding]; other site 640512009364 Walker B motif; other site 640512009365 arginine finger; other site 640512009366 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 640512009367 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 640512009368 catalytic core [active] 640512009369 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 640512009370 putative active site [active] 640512009371 dimerization interface [polypeptide binding]; other site 640512009372 putative tRNAtyr binding site [nucleotide binding]; other site 640512009373 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 640512009374 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 640512009375 active site 640512009376 HIGH motif; other site 640512009377 dimer interface [polypeptide binding]; other site 640512009378 KMSKS motif; other site 640512009379 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 640512009380 RNA binding surface [nucleotide binding]; other site 640512009381 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 640512009382 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 640512009383 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 640512009384 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 640512009385 23S rRNA interface [nucleotide binding]; other site 640512009386 L3 interface [polypeptide binding]; other site 640512009387 OsmC-like protein; Region: OsmC; cl00767 640512009388 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 640512009389 active site 640512009390 substrate binding pocket [chemical binding]; other site 640512009391 dimer interface [polypeptide binding]; other site 640512009392 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 640512009393 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 640512009394 putative active site [active] 640512009395 putative dimer interface [polypeptide binding]; other site 640512009396 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 640512009397 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 640512009398 Walker A/P-loop; other site 640512009399 ATP binding site [chemical binding]; other site 640512009400 Q-loop/lid; other site 640512009401 ABC transporter signature motif; other site 640512009402 Walker B; other site 640512009403 D-loop; other site 640512009404 H-loop/switch region; other site 640512009405 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640512009406 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512009407 dimer interface [polypeptide binding]; other site 640512009408 conserved gate region; other site 640512009409 putative PBP binding loops; other site 640512009410 ABC-ATPase subunit interface; other site 640512009411 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640512009412 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512009413 dimer interface [polypeptide binding]; other site 640512009414 conserved gate region; other site 640512009415 putative PBP binding loops; other site 640512009416 ABC-ATPase subunit interface; other site 640512009417 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 640512009418 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 640512009419 substrate binding pocket [chemical binding]; other site 640512009420 membrane-bound complex binding site; other site 640512009421 hinge residues; other site 640512009422 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 640512009423 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 640512009424 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 640512009425 NAD(P) binding site [chemical binding]; other site 640512009426 cell density-dependent motility repressor; Provisional; Region: PRK10082 640512009427 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512009428 The 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 640512009429 dimerization interface [polypeptide binding]; other site 640512009430 adenylosuccinate lyase; Provisional; Region: PRK09285 640512009431 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 640512009432 tetramer interface [polypeptide binding]; other site 640512009433 active site 640512009434 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 640512009435 ATP-binding site [chemical binding]; other site 640512009436 Gluconate-6-phosphate binding site [chemical binding]; other site 640512009437 Shikimate kinase; Region: SKI; pfam01202 640512009438 fructuronate transporter; Provisional; Region: PRK10034; cl15264 640512009439 GntP family permease; Region: GntP_permease; pfam02447 640512009440 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 640512009441 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 640512009442 active site 640512009443 intersubunit interface [polypeptide binding]; other site 640512009444 catalytic residue [active] 640512009445 phosphogluconate dehydratase; Validated; Region: PRK09054 640512009446 6-phosphogluconate dehydratase; Region: edd; TIGR01196 640512009447 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 640512009448 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 640512009449 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 640512009450 putative active site [active] 640512009451 Methyltransferase domain; Region: Methyltransf_23; pfam13489 640512009452 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 640512009453 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 640512009454 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 640512009455 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 640512009456 Surface antigen; Region: Bac_surface_Ag; pfam01103 640512009457 filamentous hemagglutinin family N-terminal domain; Region: adhes_NPXG; TIGR01901 640512009458 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 640512009459 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 640512009460 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 640512009461 putative catalytic cysteine [active] 640512009462 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 640512009463 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 640512009464 Lipopolysaccharide-assembly; Region: LptE; cl01125 640512009465 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 640512009466 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 640512009467 HIGH motif; other site 640512009468 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 640512009469 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 640512009470 active site 640512009471 KMSKS motif; other site 640512009472 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 640512009473 tRNA binding surface [nucleotide binding]; other site 640512009474 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 640512009475 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 640512009476 TolR protein; Region: tolR; TIGR02801 640512009477 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 640512009478 dihydrodipicolinate reductase; Provisional; Region: PRK00048 640512009479 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 640512009480 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 640512009481 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 640512009482 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 640512009483 ferric uptake regulator; Provisional; Region: fur; PRK09462 640512009484 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 640512009485 metal binding site 2 [ion binding]; metal-binding site 640512009486 putative DNA binding helix; other site 640512009487 metal binding site 1 [ion binding]; metal-binding site 640512009488 dimer interface [polypeptide binding]; other site 640512009489 structural Zn2+ binding site [ion binding]; other site 640512009490 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 640512009491 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 640512009492 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 640512009493 transketolase; Reviewed; Region: PRK12753 640512009494 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 640512009495 TPP-binding site [chemical binding]; other site 640512009496 dimer interface [polypeptide binding]; other site 640512009497 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 640512009498 PYR/PP interface [polypeptide binding]; other site 640512009499 dimer interface [polypeptide binding]; other site 640512009500 TPP binding site [chemical binding]; other site 640512009501 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 640512009502 spermidine synthase; Provisional; Region: PRK00811 640512009503 Spermidine synthase [Amino acid transport and metabolism]; Region: SpeE; COG0421 640512009504 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 640512009505 putative dimer interface [polypeptide binding]; other site 640512009506 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 640512009507 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 640512009508 putative RNAase interaction site [polypeptide binding]; other site 640512009509 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 640512009510 active site 640512009511 barstar interaction site; other site 640512009512 malic enzyme; Reviewed; Region: PRK12862 640512009513 Malic enzyme, N-terminal domain; Region: malic; pfam00390 640512009514 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 640512009515 putative NAD(P) binding site [chemical binding]; other site 640512009516 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 640512009517 thiamine monophosphate kinase; Provisional; Region: PRK05731 640512009518 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 640512009519 ATP binding site [chemical binding]; other site 640512009520 dimerization interface [polypeptide binding]; other site 640512009521 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 640512009522 tetramer interfaces [polypeptide binding]; other site 640512009523 binuclear metal-binding site [ion binding]; other site 640512009524 Competence-damaged protein; Region: CinA; pfam02464 640512009525 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 640512009526 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 640512009527 active site 640512009528 dimer interface [polypeptide binding]; other site 640512009529 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 640512009530 active site 640512009531 catalytic residues [active] 640512009532 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 640512009533 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 640512009534 classical (c) SDRs; Region: SDR_c; cd05233 640512009535 NAD(P) binding site [chemical binding]; other site 640512009536 active site 640512009537 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640512009538 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 640512009539 TM-ABC transporter signature motif; other site 640512009540 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 640512009541 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 640512009542 Walker A/P-loop; other site 640512009543 ATP binding site [chemical binding]; other site 640512009544 Q-loop/lid; other site 640512009545 ABC transporter signature motif; other site 640512009546 Walker B; other site 640512009547 D-loop; other site 640512009548 H-loop/switch region; other site 640512009549 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 640512009550 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 640512009551 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 640512009552 ligand binding site [chemical binding]; other site 640512009553 short chain dehydrogenase; Provisional; Region: PRK07063 640512009554 classical (c) SDRs; Region: SDR_c; cd05233 640512009555 NAD(P) binding site [chemical binding]; other site 640512009556 active site 640512009557 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 640512009558 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 640512009559 active site 640512009560 intersubunit interface [polypeptide binding]; other site 640512009561 catalytic residue [active] 640512009562 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 640512009563 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 640512009564 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640512009565 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 640512009566 Bacterial transcriptional regulator; Region: IclR; pfam01614 640512009567 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640512009568 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 640512009569 catalytic site [active] 640512009570 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 640512009571 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 640512009572 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 640512009573 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 640512009574 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 640512009575 Transglycosylase; Region: Transgly; cl17702 640512009576 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 640512009577 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 640512009578 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 640512009579 shikimate binding site; other site 640512009580 NAD(P) binding site [chemical binding]; other site 640512009581 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 640512009582 RNB domain; Region: RNB; pfam00773 640512009583 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 640512009584 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640512009585 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 640512009586 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 640512009587 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 640512009588 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 640512009589 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 640512009590 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 640512009591 catalytic residues [active] 640512009592 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 640512009593 Dehydroquinase class II; Region: DHquinase_II; pfam01220 640512009594 active site 640512009595 trimer interface [polypeptide binding]; other site 640512009596 dimer interface [polypeptide binding]; other site 640512009597 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 640512009598 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 640512009599 carboxyltransferase (CT) interaction site; other site 640512009600 biotinylation site [posttranslational modification]; other site 640512009601 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 640512009602 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 640512009603 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 640512009604 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 640512009605 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 640512009606 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 640512009607 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 640512009608 S-adenosylmethionine binding site [chemical binding]; other site 640512009609 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 640512009610 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 640512009611 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 640512009612 dimer interface [polypeptide binding]; other site 640512009613 catalytic triad [active] 640512009614 peroxidatic and resolving cysteines [active] 640512009615 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 640512009616 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 640512009617 substrate binding site [chemical binding]; other site 640512009618 ATP binding site [chemical binding]; other site 640512009619 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 640512009620 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 640512009621 dimer interface [polypeptide binding]; other site 640512009622 putative radical transfer pathway; other site 640512009623 diiron center [ion binding]; other site 640512009624 tyrosyl radical; other site 640512009625 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 640512009626 ATP cone domain; Region: ATP-cone; pfam03477 640512009627 Class I ribonucleotide reductase; Region: RNR_I; cd01679 640512009628 active site 640512009629 dimer interface [polypeptide binding]; other site 640512009630 catalytic residues [active] 640512009631 effector binding site; other site 640512009632 R2 peptide binding site; other site 640512009633 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 640512009634 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 640512009635 amidase catalytic site [active] 640512009636 Zn binding residues [ion binding]; other site 640512009637 substrate binding site [chemical binding]; other site 640512009638 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 640512009639 signal recognition particle protein; Provisional; Region: PRK10867 640512009640 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 640512009641 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 640512009642 P loop; other site 640512009643 GTP binding site [chemical binding]; other site 640512009644 Signal peptide binding domain; Region: SRP_SPB; pfam02978 640512009645 Methyl-coenzyme M reductase operon protein C; Region: MCR_C; cl01674 640512009646 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 640512009647 active site 640512009648 MarC family integral membrane protein; Region: MarC; cl00919 640512009649 prolyl-tRNA synthetase; Provisional; Region: PRK09194 640512009650 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 640512009651 dimer interface [polypeptide binding]; other site 640512009652 motif 1; other site 640512009653 active site 640512009654 motif 2; other site 640512009655 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 640512009656 putative deacylase active site [active] 640512009657 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 640512009658 active site 640512009659 motif 3; other site 640512009660 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 640512009661 anticodon binding site; other site 640512009662 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 640512009663 putative active site [active] 640512009664 Ap4A binding site [chemical binding]; other site 640512009665 nudix motif; other site 640512009666 putative metal binding site [ion binding]; other site 640512009667 CNP1-like family; Region: CNP1; pfam08750 640512009668 gamma-glutamyl kinase; Provisional; Region: PRK05429 640512009669 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 640512009670 nucleotide binding site [chemical binding]; other site 640512009671 homotetrameric interface [polypeptide binding]; other site 640512009672 putative phosphate binding site [ion binding]; other site 640512009673 putative allosteric binding site; other site 640512009674 PUA domain; Region: PUA; pfam01472 640512009675 GTPase CgtA; Reviewed; Region: obgE; PRK12299 640512009676 GTP1/OBG; Region: GTP1_OBG; pfam01018 640512009677 Obg GTPase; Region: Obg; cd01898 640512009678 G1 box; other site 640512009679 GTP/Mg2+ binding site [chemical binding]; other site 640512009680 Switch I region; other site 640512009681 G2 box; other site 640512009682 G3 box; other site 640512009683 Switch II region; other site 640512009684 G4 box; other site 640512009685 G5 box; other site 640512009686 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 640512009687 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 640512009688 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 640512009689 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 640512009690 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 640512009691 substrate binding pocket [chemical binding]; other site 640512009692 chain length determination region; other site 640512009693 substrate-Mg2+ binding site; other site 640512009694 catalytic residues [active] 640512009695 aspartate-rich region 1; other site 640512009696 active site lid residues [active] 640512009697 aspartate-rich region 2; other site 640512009698 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 640512009699 Domain of unknown function DUF21; Region: DUF21; pfam01595 640512009700 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 640512009701 Transporter associated domain; Region: CorC_HlyC; smart01091 640512009702 Type II/IV secretion system protein; Region: T2SE; pfam00437 640512009703 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 640512009704 Walker A motif; other site 640512009705 ATP binding site [chemical binding]; other site 640512009706 Walker B motif; other site 640512009707 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 640512009708 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 640512009709 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 640512009710 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 640512009711 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 640512009712 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 640512009713 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 640512009714 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 640512009715 CoA-binding site [chemical binding]; other site 640512009716 ATP-binding [chemical binding]; other site 640512009717 hypothetical protein; Provisional; Region: PRK05287 640512009718 Domain of unknown function (DUF329); Region: DUF329; pfam03884 640512009719 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 640512009720 active site 640512009721 8-oxo-dGMP binding site [chemical binding]; other site 640512009722 nudix motif; other site 640512009723 metal binding site [ion binding]; metal-binding site 640512009724 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 640512009725 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 640512009726 Walker A motif; other site 640512009727 ATP binding site [chemical binding]; other site 640512009728 Walker B motif; other site 640512009729 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 640512009730 heterotetramer interface [polypeptide binding]; other site 640512009731 active site pocket [active] 640512009732 cleavage site 640512009733 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 640512009734 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 640512009735 SEC-C motif; Region: SEC-C; pfam02810 640512009736 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 640512009737 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 640512009738 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 640512009739 catalytic triad [active] 640512009740 dimer interface [polypeptide binding]; other site 640512009741 cell division protein FtsZ; Validated; Region: PRK09330 640512009742 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 640512009743 nucleotide binding site [chemical binding]; other site 640512009744 SulA interaction site; other site 640512009745 cell division protein FtsA; Region: ftsA; TIGR01174 640512009746 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 640512009747 nucleotide binding site [chemical binding]; other site 640512009748 Cell division protein FtsA; Region: FtsA; pfam14450 640512009749 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 640512009750 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 640512009751 Cell division protein FtsQ; Region: FtsQ; pfam03799 640512009752 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 640512009753 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 640512009754 ATP-grasp domain; Region: ATP-grasp_4; cl17255 640512009755 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 640512009756 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 640512009757 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 640512009758 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 640512009759 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 640512009760 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 640512009761 active site 640512009762 homodimer interface [polypeptide binding]; other site 640512009763 cell division protein FtsW; Region: ftsW; TIGR02614 640512009764 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02006 640512009765 The 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 640512009766 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 640512009767 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 640512009768 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 640512009769 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 640512009770 Mg++ binding site [ion binding]; other site 640512009771 putative catalytic motif [active] 640512009772 putative substrate binding site [chemical binding]; other site 640512009773 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 640512009774 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 640512009775 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 640512009776 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 640512009777 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 640512009778 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 640512009779 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 640512009780 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 640512009781 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 640512009782 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 640512009783 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 640512009784 Cell division protein FtsL; Region: FtsL; cl11433 640512009785 MraW methylase family; Region: Methyltransf_5; cl17771 640512009786 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 640512009787 cell division protein MraZ; Reviewed; Region: PRK00326 640512009788 MraZ protein; Region: MraZ; pfam02381 640512009789 MraZ protein; Region: MraZ; pfam02381 640512009790 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 640512009791 diiron binding motif [ion binding]; other site 640512009792 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640512009793 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 640512009794 trimer interface [polypeptide binding]; other site 640512009795 eyelet of channel; other site 640512009796 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 640512009797 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 640512009798 acyl-activating enzyme (AAE) consensus motif; other site 640512009799 putative AMP binding site [chemical binding]; other site 640512009800 putative active site [active] 640512009801 putative CoA binding site [chemical binding]; other site 640512009802 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 640512009803 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 640512009804 putative [4Fe-4S] binding site [ion binding]; other site 640512009805 putative molybdopterin cofactor binding site [chemical binding]; other site 640512009806 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 640512009807 putative molybdopterin cofactor binding site; other site 640512009808 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 640512009809 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 640512009810 metal binding site [ion binding]; metal-binding site 640512009811 putative dimer interface [polypeptide binding]; other site 640512009812 enoyl-CoA hydratase; Provisional; Region: PRK05862 640512009813 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 640512009814 substrate binding site [chemical binding]; other site 640512009815 oxyanion hole (OAH) forming residues; other site 640512009816 trimer interface [polypeptide binding]; other site 640512009817 phenylacetic acid degradation protein paaN; Region: PaaN_2; TIGR02288 640512009818 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 640512009819 NAD(P) binding site [chemical binding]; other site 640512009820 catalytic residues [active] 640512009821 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 640512009822 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 640512009823 dimer interface [polypeptide binding]; other site 640512009824 active site 640512009825 enoyl-CoA hydratase; Provisional; Region: PRK08140 640512009826 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 640512009827 substrate binding site [chemical binding]; other site 640512009828 oxyanion hole (OAH) forming residues; other site 640512009829 trimer interface [polypeptide binding]; other site 640512009830 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 640512009831 CoenzymeA binding site [chemical binding]; other site 640512009832 subunit interaction site [polypeptide binding]; other site 640512009833 PHB binding site; other site 640512009834 Phenylacetate-CoA ligase (also known as PaaK); Region: PaaK; cd05913 640512009835 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 640512009836 active site 640512009837 AMP binding site [chemical binding]; other site 640512009838 homodimer interface [polypeptide binding]; other site 640512009839 acyl-activating enzyme (AAE) consensus motif; other site 640512009840 CoA binding site [chemical binding]; other site 640512009841 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 640512009842 MltA specific insert domain; Region: MltA; smart00925 640512009843 3D domain; Region: 3D; pfam06725 640512009844 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 640512009845 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 640512009846 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 640512009847 substrate binding site [chemical binding]; other site 640512009848 hexamer interface [polypeptide binding]; other site 640512009849 metal binding site [ion binding]; metal-binding site 640512009850 phosphoglycolate phosphatase; Provisional; Region: PRK13222 640512009851 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 640512009852 motif II; other site 640512009853 anthranilate synthase component I; Provisional; Region: PRK13565 640512009854 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 640512009855 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 640512009856 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 640512009857 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 640512009858 glutamine binding [chemical binding]; other site 640512009859 catalytic triad [active] 640512009860 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 640512009861 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 640512009862 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 640512009863 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 640512009864 active site 640512009865 ribulose/triose binding site [chemical binding]; other site 640512009866 phosphate binding site [ion binding]; other site 640512009867 substrate (anthranilate) binding pocket [chemical binding]; other site 640512009868 product (indole) binding pocket [chemical binding]; other site 640512009869 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 640512009870 putative active site [active] 640512009871 putative metal binding residues [ion binding]; other site 640512009872 signature motif; other site 640512009873 putative triphosphate binding site [ion binding]; other site 640512009874 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 640512009875 ligand binding site [chemical binding]; other site 640512009876 active site 640512009877 UGI interface [polypeptide binding]; other site 640512009878 catalytic site [active] 640512009879 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 640512009880 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 640512009881 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 640512009882 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 640512009883 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 640512009884 protein binding site [polypeptide binding]; other site 640512009885 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 640512009886 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 640512009887 dimerization domain [polypeptide binding]; other site 640512009888 dimer interface [polypeptide binding]; other site 640512009889 catalytic residues [active] 640512009890 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608 640512009891 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 640512009892 GTP-binding protein YchF; Reviewed; Region: PRK09601 640512009893 YchF GTPase; Region: YchF; cd01900 640512009894 G1 box; other site 640512009895 GTP/Mg2+ binding site [chemical binding]; other site 640512009896 Switch I region; other site 640512009897 G2 box; other site 640512009898 Switch II region; other site 640512009899 G3 box; other site 640512009900 G4 box; other site 640512009901 G5 box; other site 640512009902 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 640512009903 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 640512009904 glycerol-3-phosphate transporter periplasmic binding protein; Provisional; Region: PRK10974 640512009905 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512009906 dimer interface [polypeptide binding]; other site 640512009907 conserved gate region; other site 640512009908 putative PBP binding loops; other site 640512009909 ABC-ATPase subunit interface; other site 640512009910 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 640512009911 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512009912 dimer interface [polypeptide binding]; other site 640512009913 conserved gate region; other site 640512009914 putative PBP binding loops; other site 640512009915 ABC-ATPase subunit interface; other site 640512009916 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 640512009917 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 640512009918 Walker A/P-loop; other site 640512009919 ATP binding site [chemical binding]; other site 640512009920 Q-loop/lid; other site 640512009921 ABC transporter signature motif; other site 640512009922 Walker B; other site 640512009923 D-loop; other site 640512009924 H-loop/switch region; other site 640512009925 TOBE domain; Region: TOBE_2; pfam08402 640512009926 Protein of unknown function (DUF3761); Region: DUF3761; pfam12587 640512009927 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 640512009928 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640512009929 Walker A/P-loop; other site 640512009930 ATP binding site [chemical binding]; other site 640512009931 Q-loop/lid; other site 640512009932 ABC transporter signature motif; other site 640512009933 Walker B; other site 640512009934 D-loop; other site 640512009935 H-loop/switch region; other site 640512009936 ABC transporter; Region: ABC_tran_2; pfam12848 640512009937 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 640512009938 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 640512009939 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 640512009940 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 640512009941 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 640512009942 PAAR motif; Region: PAAR_motif; pfam05488 640512009943 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 640512009944 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 640512009945 PAAR motif; Region: PAAR_motif; pfam05488 640512009946 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 640512009947 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 640512009948 Phage-related baseplate assembly protein; Region: Phage_base_V; cl17812 640512009949 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 640512009950 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 640512009951 Pentraxins are plasma proteins characterized by their pentameric discoid assembly and their Ca2+ dependent ligand binding, such as Serum amyloid P component (SAP) and C-reactive Protein (CRP), which are cytokine-inducible acute-phase proteins implicated...; Region: PTX; cl00102 640512009952 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 640512009953 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 640512009954 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 640512009955 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 640512009956 active site 640512009957 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 640512009958 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512009959 active site 640512009960 phosphorylation site [posttranslational modification] 640512009961 intermolecular recognition site; other site 640512009962 dimerization interface [polypeptide binding]; other site 640512009963 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 640512009964 DNA binding site [nucleotide binding] 640512009965 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 640512009966 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 640512009967 tRNA; other site 640512009968 putative tRNA binding site [nucleotide binding]; other site 640512009969 putative NADP binding site [chemical binding]; other site 640512009970 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 640512009971 peptide chain release factor 1; Validated; Region: prfA; PRK00591 640512009972 This domain is found in peptide chain release factors; Region: PCRF; smart00937 640512009973 RF-1 domain; Region: RF-1; pfam00472 640512009974 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 640512009975 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 640512009976 S-adenosylmethionine binding site [chemical binding]; other site 640512009977 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 640512009978 putative GSH binding site [chemical binding]; other site 640512009979 catalytic residues [active] 640512009980 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 640512009981 Flavoprotein; Region: Flavoprotein; pfam02441 640512009982 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 640512009983 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 640512009984 putative active site [active] 640512009985 metal binding site [ion binding]; metal-binding site 640512009986 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 640512009987 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 640512009988 DNA-binding site [nucleotide binding]; DNA binding site 640512009989 RNA-binding motif; other site 640512009990 putative chaperone; Provisional; Region: PRK11678 640512009991 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 640512009992 nucleotide binding site [chemical binding]; other site 640512009993 putative NEF/HSP70 interaction site [polypeptide binding]; other site 640512009994 SBD interface [polypeptide binding]; other site 640512009995 benzoate transport; Region: 2A0115; TIGR00895 640512009996 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512009997 putative substrate translocation pore; other site 640512009998 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512009999 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 640512010000 putative FMN binding site [chemical binding]; other site 640512010001 D-galactonate transporter; Region: 2A0114; TIGR00893 640512010002 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512010003 putative substrate translocation pore; other site 640512010004 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640512010005 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640512010006 Protein of unknown function (DUF1415); Region: DUF1415; pfam07209 640512010007 Methyltransferase domain; Region: Methyltransf_32; pfam13679 640512010008 Methyltransferase domain; Region: Methyltransf_31; pfam13847 640512010009 Protein of unknown function (DUF1059); Region: DUF1059; cl02284 640512010010 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 640512010011 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 640512010012 Methyltransferase domain; Region: Methyltransf_23; pfam13489 640512010013 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 640512010014 S-adenosylmethionine binding site [chemical binding]; other site 640512010015 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 640512010016 stringent starvation protein A; Provisional; Region: sspA; PRK09481 640512010017 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 640512010018 C-terminal domain interface [polypeptide binding]; other site 640512010019 putative GSH binding site (G-site) [chemical binding]; other site 640512010020 dimer interface [polypeptide binding]; other site 640512010021 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 640512010022 dimer interface [polypeptide binding]; other site 640512010023 N-terminal domain interface [polypeptide binding]; other site 640512010024 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 640512010025 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 640512010026 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 640512010027 Qi binding site; other site 640512010028 intrachain domain interface; other site 640512010029 interchain domain interface [polypeptide binding]; other site 640512010030 heme bH binding site [chemical binding]; other site 640512010031 heme bL binding site [chemical binding]; other site 640512010032 Qo binding site; other site 640512010033 interchain domain interface [polypeptide binding]; other site 640512010034 intrachain domain interface; other site 640512010035 Qi binding site; other site 640512010036 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 640512010037 Qo binding site; other site 640512010038 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 640512010039 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 640512010040 [2Fe-2S] cluster binding site [ion binding]; other site 640512010041 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 640512010042 Uncharacterized conserved protein [Function unknown]; Region: COG0327 640512010043 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 640512010044 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 640512010045 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 640512010046 protein binding site [polypeptide binding]; other site 640512010047 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 640512010048 sec-independent translocase; Provisional; Region: tatB; PRK01919 640512010049 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 640512010050 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 640512010051 nucleotide binding site/active site [active] 640512010052 HIT family signature motif; other site 640512010053 catalytic residue [active] 640512010054 Predicted membrane protein [Function unknown]; Region: COG3671 640512010055 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 640512010056 metal binding site [ion binding]; metal-binding site 640512010057 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 640512010058 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 640512010059 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 640512010060 substrate binding site [chemical binding]; other site 640512010061 glutamase interaction surface [polypeptide binding]; other site 640512010062 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 640512010063 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 640512010064 catalytic residues [active] 640512010065 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 640512010066 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 640512010067 putative active site [active] 640512010068 oxyanion strand; other site 640512010069 catalytic triad [active] 640512010070 MarC family integral membrane protein; Region: MarC; cl00919 640512010071 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 640512010072 putative active site pocket [active] 640512010073 4-fold oligomerization interface [polypeptide binding]; other site 640512010074 metal binding residues [ion binding]; metal-binding site 640512010075 3-fold/trimer interface [polypeptide binding]; other site 640512010076 histidinol-phosphate aminotransferase; Provisional; Region: PRK04870 640512010077 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 640512010078 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640512010079 homodimer interface [polypeptide binding]; other site 640512010080 catalytic residue [active] 640512010081 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 640512010082 histidinol dehydrogenase; Region: hisD; TIGR00069 640512010083 NAD binding site [chemical binding]; other site 640512010084 dimerization interface [polypeptide binding]; other site 640512010085 product binding site; other site 640512010086 substrate binding site [chemical binding]; other site 640512010087 zinc binding site [ion binding]; other site 640512010088 catalytic residues [active] 640512010089 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 640512010090 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 640512010091 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 640512010092 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 640512010093 hinge; other site 640512010094 active site 640512010095 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 640512010096 ABC-2 type transporter; Region: ABC2_membrane; cl17235 640512010097 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 640512010098 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 640512010099 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 640512010100 Walker A/P-loop; other site 640512010101 ATP binding site [chemical binding]; other site 640512010102 Q-loop/lid; other site 640512010103 ABC transporter signature motif; other site 640512010104 Walker B; other site 640512010105 D-loop; other site 640512010106 H-loop/switch region; other site 640512010107 STAS domain; Region: STAS_2; pfam13466 640512010108 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 640512010109 VacJ like lipoprotein; Region: VacJ; cl01073 640512010110 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 640512010111 mce related protein; Region: MCE; pfam02470 640512010112 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 640512010113 Permease; Region: Permease; pfam02405 640512010114 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 640512010115 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 640512010116 Walker A/P-loop; other site 640512010117 ATP binding site [chemical binding]; other site 640512010118 Q-loop/lid; other site 640512010119 ABC transporter signature motif; other site 640512010120 Walker B; other site 640512010121 D-loop; other site 640512010122 H-loop/switch region; other site 640512010123 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 640512010124 thiamine phosphate binding site [chemical binding]; other site 640512010125 active site 640512010126 pyrophosphate binding site [ion binding]; other site 640512010127 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 640512010128 ThiS interaction site; other site 640512010129 putative active site [active] 640512010130 tetramer interface [polypeptide binding]; other site 640512010131 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 640512010132 thiS-thiF/thiG interaction site; other site 640512010133 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 640512010134 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 640512010135 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 640512010136 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 640512010137 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 640512010138 osmolarity response regulator; Provisional; Region: ompR; PRK09468 640512010139 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512010140 active site 640512010141 phosphorylation site [posttranslational modification] 640512010142 intermolecular recognition site; other site 640512010143 dimerization interface [polypeptide binding]; other site 640512010144 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 640512010145 DNA binding site [nucleotide binding] 640512010146 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 640512010147 Flagellar L-ring protein; Region: FlgH; pfam02107 640512010148 osmolarity response regulator; Provisional; Region: ompR; PRK09468 640512010149 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512010150 active site 640512010151 phosphorylation site [posttranslational modification] 640512010152 intermolecular recognition site; other site 640512010153 dimerization interface [polypeptide binding]; other site 640512010154 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 640512010155 DNA binding site [nucleotide binding] 640512010156 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 640512010157 dimerization interface [polypeptide binding]; other site 640512010158 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 640512010159 dimer interface [polypeptide binding]; other site 640512010160 phosphorylation site [posttranslational modification] 640512010161 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512010162 ATP binding site [chemical binding]; other site 640512010163 Mg2+ binding site [ion binding]; other site 640512010164 G-X-G motif; other site 640512010165 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 640512010166 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 640512010167 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 640512010168 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640512010169 Streptococcal 67 kDa myosin-cross-reactive antigen like family; Region: Strep_67kDa_ant; cl17487 640512010170 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 640512010171 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 640512010172 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 640512010173 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 640512010174 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 640512010175 active site 640512010176 dimer interface [polypeptide binding]; other site 640512010177 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 640512010178 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 640512010179 active site 640512010180 FMN binding site [chemical binding]; other site 640512010181 substrate binding site [chemical binding]; other site 640512010182 3Fe-4S cluster binding site [ion binding]; other site 640512010183 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 640512010184 domain interface; other site 640512010185 Transposase IS200 like; Region: Y1_Tnp; cl00848 640512010186 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 640512010187 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 640512010188 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 640512010189 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 640512010190 Zn2+ binding site [ion binding]; other site 640512010191 Mg2+ binding site [ion binding]; other site 640512010192 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 640512010193 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 640512010194 active site 640512010195 dimer interface [polypeptide binding]; other site 640512010196 metal binding site [ion binding]; metal-binding site 640512010197 shikimate kinase; Reviewed; Region: aroK; PRK00131 640512010198 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 640512010199 ADP binding site [chemical binding]; other site 640512010200 magnesium binding site [ion binding]; other site 640512010201 putative shikimate binding site; other site 640512010202 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 640512010203 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 640512010204 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 640512010205 Tfp pilus assembly protein PilP [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilP; COG3168 640512010206 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 640512010207 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 640512010208 Transglycosylase; Region: Transgly; pfam00912 640512010209 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 640512010210 frataxin-like protein; Provisional; Region: cyaY; PRK00446 640512010211 diaminopimelate decarboxylase; Region: lysA; TIGR01048 640512010212 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 640512010213 active site 640512010214 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 640512010215 substrate binding site [chemical binding]; other site 640512010216 catalytic residues [active] 640512010217 dimer interface [polypeptide binding]; other site 640512010218 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 640512010219 TMAO/DMSO reductase; Reviewed; Region: PRK05363 640512010220 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 640512010221 Moco binding site; other site 640512010222 metal coordination site [ion binding]; other site 640512010223 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 640512010224 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 640512010225 ResB-like family; Region: ResB; pfam05140 640512010226 Cytochrome c553 [Energy production and conversion]; Region: COG2863 640512010227 Cytochrome c; Region: Cytochrom_C; cl11414 640512010228 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 640512010229 G1 box; other site 640512010230 GTP/Mg2+ binding site [chemical binding]; other site 640512010231 Switch I region; other site 640512010232 G2 box; other site 640512010233 G3 box; other site 640512010234 Switch II region; other site 640512010235 G4 box; other site 640512010236 G5 box; other site 640512010237 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 640512010238 dimer interface [polypeptide binding]; other site 640512010239 active site 640512010240 aspartate-rich active site metal binding site; other site 640512010241 allosteric magnesium binding site [ion binding]; other site 640512010242 Schiff base residues; other site 640512010243 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 640512010244 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 640512010245 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 640512010246 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 640512010247 DsbD alpha interface [polypeptide binding]; other site 640512010248 catalytic residues [active] 640512010249 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 640512010250 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 640512010251 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 640512010252 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 640512010253 alphaNTD homodimer interface [polypeptide binding]; other site 640512010254 alphaNTD - beta interaction site [polypeptide binding]; other site 640512010255 alphaNTD - beta' interaction site [polypeptide binding]; other site 640512010256 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 640512010257 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 640512010258 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 640512010259 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 640512010260 RNA binding surface [nucleotide binding]; other site 640512010261 30S ribosomal protein S11; Validated; Region: PRK05309 640512010262 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 640512010263 30S ribosomal protein S13; Region: bact_S13; TIGR03631 640512010264 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 640512010265 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 640512010266 rRNA binding site [nucleotide binding]; other site 640512010267 predicted 30S ribosome binding site; other site 640512010268 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 640512010269 SecY translocase; Region: SecY; pfam00344 640512010270 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 640512010271 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 640512010272 23S rRNA binding site [nucleotide binding]; other site 640512010273 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 640512010274 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 640512010275 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 640512010276 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 640512010277 5S rRNA interface [nucleotide binding]; other site 640512010278 L27 interface [polypeptide binding]; other site 640512010279 23S rRNA interface [nucleotide binding]; other site 640512010280 L5 interface [polypeptide binding]; other site 640512010281 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 640512010282 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 640512010283 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 640512010284 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 640512010285 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 640512010286 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 640512010287 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 640512010288 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 640512010289 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 640512010290 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 640512010291 RNA binding site [nucleotide binding]; other site 640512010292 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 640512010293 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 640512010294 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 640512010295 23S rRNA interface [nucleotide binding]; other site 640512010296 putative translocon interaction site; other site 640512010297 signal recognition particle (SRP54) interaction site; other site 640512010298 L23 interface [polypeptide binding]; other site 640512010299 trigger factor interaction site; other site 640512010300 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 640512010301 23S rRNA interface [nucleotide binding]; other site 640512010302 5S rRNA interface [nucleotide binding]; other site 640512010303 putative antibiotic binding site [chemical binding]; other site 640512010304 L25 interface [polypeptide binding]; other site 640512010305 L27 interface [polypeptide binding]; other site 640512010306 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 640512010307 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 640512010308 G-X-X-G motif; other site 640512010309 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 640512010310 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 640512010311 putative translocon binding site; other site 640512010312 protein-rRNA interface [nucleotide binding]; other site 640512010313 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 640512010314 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 640512010315 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 640512010316 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 640512010317 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 640512010318 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 640512010319 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 640512010320 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 640512010321 elongation factor Tu; Reviewed; Region: PRK00049 640512010322 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 640512010323 G1 box; other site 640512010324 GEF interaction site [polypeptide binding]; other site 640512010325 GTP/Mg2+ binding site [chemical binding]; other site 640512010326 Switch I region; other site 640512010327 G2 box; other site 640512010328 G3 box; other site 640512010329 Switch II region; other site 640512010330 G4 box; other site 640512010331 G5 box; other site 640512010332 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 640512010333 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 640512010334 Antibiotic Binding Site [chemical binding]; other site 640512010335 elongation factor G; Reviewed; Region: PRK00007 640512010336 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 640512010337 G1 box; other site 640512010338 putative GEF interaction site [polypeptide binding]; other site 640512010339 GTP/Mg2+ binding site [chemical binding]; other site 640512010340 Switch I region; other site 640512010341 G2 box; other site 640512010342 G3 box; other site 640512010343 Switch II region; other site 640512010344 G4 box; other site 640512010345 G5 box; other site 640512010346 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 640512010347 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 640512010348 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 640512010349 30S ribosomal protein S7; Validated; Region: PRK05302 640512010350 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 640512010351 S17 interaction site [polypeptide binding]; other site 640512010352 S8 interaction site; other site 640512010353 16S rRNA interaction site [nucleotide binding]; other site 640512010354 streptomycin interaction site [chemical binding]; other site 640512010355 23S rRNA interaction site [nucleotide binding]; other site 640512010356 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 640512010357 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 640512010358 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 640512010359 ATP binding site [chemical binding]; other site 640512010360 putative Mg++ binding site [ion binding]; other site 640512010361 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 640512010362 nucleotide binding region [chemical binding]; other site 640512010363 ATP-binding site [chemical binding]; other site 640512010364 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 640512010365 HRDC domain; Region: HRDC; pfam00570 640512010366 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 640512010367 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 640512010368 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 640512010369 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 640512010370 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 640512010371 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 640512010372 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 640512010373 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 640512010374 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 640512010375 DNA binding site [nucleotide binding] 640512010376 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 640512010377 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 640512010378 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 640512010379 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 640512010380 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 640512010381 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 640512010382 RPB12 interaction site [polypeptide binding]; other site 640512010383 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 640512010384 RPB3 interaction site [polypeptide binding]; other site 640512010385 RPB1 interaction site [polypeptide binding]; other site 640512010386 RPB11 interaction site [polypeptide binding]; other site 640512010387 RPB10 interaction site [polypeptide binding]; other site 640512010388 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 640512010389 peripheral dimer interface [polypeptide binding]; other site 640512010390 core dimer interface [polypeptide binding]; other site 640512010391 L10 interface [polypeptide binding]; other site 640512010392 L11 interface [polypeptide binding]; other site 640512010393 putative EF-Tu interaction site [polypeptide binding]; other site 640512010394 putative EF-G interaction site [polypeptide binding]; other site 640512010395 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 640512010396 23S rRNA interface [nucleotide binding]; other site 640512010397 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 640512010398 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 640512010399 mRNA/rRNA interface [nucleotide binding]; other site 640512010400 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 640512010401 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 640512010402 23S rRNA interface [nucleotide binding]; other site 640512010403 L7/L12 interface [polypeptide binding]; other site 640512010404 putative thiostrepton binding site; other site 640512010405 L25 interface [polypeptide binding]; other site 640512010406 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 640512010407 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 640512010408 putative homodimer interface [polypeptide binding]; other site 640512010409 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 640512010410 heterodimer interface [polypeptide binding]; other site 640512010411 homodimer interface [polypeptide binding]; other site 640512010412 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 640512010413 elongation factor Tu; Reviewed; Region: PRK00049 640512010414 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 640512010415 G1 box; other site 640512010416 GEF interaction site [polypeptide binding]; other site 640512010417 GTP/Mg2+ binding site [chemical binding]; other site 640512010418 Switch I region; other site 640512010419 G2 box; other site 640512010420 G3 box; other site 640512010421 Switch II region; other site 640512010422 G4 box; other site 640512010423 G5 box; other site 640512010424 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 640512010425 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 640512010426 Antibiotic Binding Site [chemical binding]; other site 640512010427 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 640512010428 active site 640512010429 catalytic triad [active] 640512010430 oxyanion hole [active] 640512010431 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 640512010432 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 640512010433 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 640512010434 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 640512010435 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 640512010436 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 640512010437 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 640512010438 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 640512010439 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 640512010440 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 640512010441 FAD binding pocket [chemical binding]; other site 640512010442 FAD binding motif [chemical binding]; other site 640512010443 phosphate binding motif [ion binding]; other site 640512010444 beta-alpha-beta structure motif; other site 640512010445 NAD(p) ribose binding residues [chemical binding]; other site 640512010446 NAD binding pocket [chemical binding]; other site 640512010447 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 640512010448 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 640512010449 catalytic loop [active] 640512010450 iron binding site [ion binding]; other site 640512010451 Domain of unknown function (DUF1835); Region: DUF1835; pfam08874 640512010452 Protein of unknown function; Region: DUF3658; pfam12395 640512010453 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640512010454 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640512010455 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 640512010456 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640512010457 Coenzyme A binding pocket [chemical binding]; other site 640512010458 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 640512010459 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 640512010460 putative DNA binding site [nucleotide binding]; other site 640512010461 putative Zn2+ binding site [ion binding]; other site 640512010462 AsnC family; Region: AsnC_trans_reg; pfam01037 640512010463 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 640512010464 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 640512010465 dimer interface [polypeptide binding]; other site 640512010466 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 640512010467 active site 640512010468 Fe binding site [ion binding]; other site 640512010469 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 640512010470 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 640512010471 dimer interface [polypeptide binding]; other site 640512010472 PYR/PP interface [polypeptide binding]; other site 640512010473 TPP binding site [chemical binding]; other site 640512010474 substrate binding site [chemical binding]; other site 640512010475 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 640512010476 TPP-binding site; other site 640512010477 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 640512010478 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 640512010479 Malic enzyme, N-terminal domain; Region: malic; pfam00390 640512010480 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 640512010481 putative NAD(P) binding site [chemical binding]; other site 640512010482 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 640512010483 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 640512010484 active site 640512010485 transcriptional regulator RcsB; Provisional; Region: PRK10840 640512010486 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512010487 active site 640512010488 phosphorylation site [posttranslational modification] 640512010489 intermolecular recognition site; other site 640512010490 dimerization interface [polypeptide binding]; other site 640512010491 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 640512010492 DNA binding residues [nucleotide binding] 640512010493 dimerization interface [polypeptide binding]; other site 640512010494 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 640512010495 substrate binding site [chemical binding]; other site 640512010496 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 640512010497 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 640512010498 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 640512010499 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 640512010500 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 640512010501 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 640512010502 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 640512010503 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 640512010504 Ub domain fused to Mut7-C; Region: Ub-Mut7C; pfam14451 640512010505 Uncharacterized conserved protein [Function unknown]; Region: COG1656 640512010506 Protein of unknown function DUF82; Region: DUF82; pfam01927 640512010507 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 640512010508 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 640512010509 Bacterial transcriptional regulator; Region: IclR; pfam01614 640512010510 Uncharacterized protein conserved in bacteria (DUF2242); Region: DUF2242; pfam10001 640512010511 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 640512010512 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 640512010513 N-acetyl-D-glucosamine binding site [chemical binding]; other site 640512010514 catalytic residue [active] 640512010515 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 640512010516 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 640512010517 glutaminase active site [active] 640512010518 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 640512010519 dimer interface [polypeptide binding]; other site 640512010520 active site 640512010521 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 640512010522 dimer interface [polypeptide binding]; other site 640512010523 active site 640512010524 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 640512010525 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 640512010526 Substrate binding site; other site 640512010527 Mg++ binding site; other site 640512010528 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 640512010529 active site 640512010530 substrate binding site [chemical binding]; other site 640512010531 CoA binding site [chemical binding]; other site 640512010532 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 640512010533 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 640512010534 Ligand Binding Site [chemical binding]; other site 640512010535 Dihydroneopterin aldolase; Region: FolB; smart00905 640512010536 active site 640512010537 short chain dehydrogenase; Provisional; Region: PRK09134 640512010538 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640512010539 NAD(P) binding site [chemical binding]; other site 640512010540 active site 640512010541 Uncharacterized conserved protein [Function unknown]; Region: COG1565 640512010542 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 640512010543 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 640512010544 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 640512010545 active site 640512010546 NTP binding site [chemical binding]; other site 640512010547 metal binding triad [ion binding]; metal-binding site 640512010548 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 640512010549 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cl17503 640512010550 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 640512010551 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 640512010552 putative C-terminal domain interface [polypeptide binding]; other site 640512010553 putative GSH binding site (G-site) [chemical binding]; other site 640512010554 putative dimer interface [polypeptide binding]; other site 640512010555 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 640512010556 putative dimer interface [polypeptide binding]; other site 640512010557 putative N-terminal domain interface [polypeptide binding]; other site 640512010558 putative substrate binding pocket (H-site) [chemical binding]; other site 640512010559 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 640512010560 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 640512010561 putative NAD(P) binding site [chemical binding]; other site 640512010562 active site 640512010563 lytic murein transglycosylase; Provisional; Region: PRK11619 640512010564 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 640512010565 N-acetyl-D-glucosamine binding site [chemical binding]; other site 640512010566 catalytic residue [active] 640512010567 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 640512010568 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 640512010569 MarR family; Region: MarR_2; cl17246 640512010570 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 640512010571 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 640512010572 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 640512010573 Escherichia coli putative lactam utilization protein YbgL and similar proteins; Region: LamB_YcsF_YbgL_like; cd10800 640512010574 putative active site [active] 640512010575 Protein of unknown function (DUF969); Region: DUF969; pfam06149 640512010576 Predicted membrane protein [Function unknown]; Region: COG3817 640512010577 Protein of unknown function (DUF979); Region: DUF979; pfam06166 640512010578 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 640512010579 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 640512010580 binding surface 640512010581 TPR motif; other site 640512010582 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 640512010583 TPR motif; other site 640512010584 binding surface 640512010585 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 640512010586 binding surface 640512010587 TPR motif; other site 640512010588 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 640512010589 binding surface 640512010590 TPR motif; other site 640512010591 TPR repeat; Region: TPR_11; pfam13414 640512010592 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 640512010593 TraB family; Region: TraB; pfam01963 640512010594 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 640512010595 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640512010596 Walker A/P-loop; other site 640512010597 ATP binding site [chemical binding]; other site 640512010598 Q-loop/lid; other site 640512010599 ABC transporter signature motif; other site 640512010600 Walker B; other site 640512010601 D-loop; other site 640512010602 H-loop/switch region; other site 640512010603 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 640512010604 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 640512010605 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640512010606 Walker A/P-loop; other site 640512010607 ATP binding site [chemical binding]; other site 640512010608 Q-loop/lid; other site 640512010609 ABC transporter signature motif; other site 640512010610 Walker B; other site 640512010611 D-loop; other site 640512010612 H-loop/switch region; other site 640512010613 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640512010614 dipeptide transporter; Provisional; Region: PRK10913 640512010615 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512010616 dimer interface [polypeptide binding]; other site 640512010617 conserved gate region; other site 640512010618 putative PBP binding loops; other site 640512010619 ABC-ATPase subunit interface; other site 640512010620 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 640512010621 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512010622 dimer interface [polypeptide binding]; other site 640512010623 conserved gate region; other site 640512010624 putative PBP binding loops; other site 640512010625 ABC-ATPase subunit interface; other site 640512010626 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 640512010627 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 640512010628 peptide binding site [polypeptide binding]; other site 640512010629 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 640512010630 FAD binding site [chemical binding]; other site 640512010631 Membrane protein of unknown function; Region: DUF360; pfam04020 640512010632 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 640512010633 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 640512010634 homotetramer interface [polypeptide binding]; other site 640512010635 ligand binding site [chemical binding]; other site 640512010636 catalytic site [active] 640512010637 NAD binding site [chemical binding]; other site 640512010638 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 640512010639 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 640512010640 active site 640512010641 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512010642 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512010643 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 640512010644 putative dimerization interface [polypeptide binding]; other site 640512010645 choline dehydrogenase; Validated; Region: PRK02106 640512010646 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 640512010647 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640512010648 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 640512010649 active site 640512010650 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 640512010651 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 640512010652 NAD(P) binding site [chemical binding]; other site 640512010653 catalytic residues [active] 640512010654 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 640512010655 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 640512010656 Flagellar protein FliT; Region: FliT; cl05125 640512010657 flagellar protein FliS; Validated; Region: fliS; PRK05685 640512010658 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 640512010659 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 640512010660 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 640512010661 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 640512010662 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 640512010663 FliG C-terminal domain; Region: FliG_C; pfam01706 640512010664 flagellar assembly protein H; Validated; Region: fliH; PRK05687 640512010665 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 640512010666 Flagellar assembly protein FliH; Region: FliH; pfam02108 640512010667 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 640512010668 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 640512010669 Walker A motif/ATP binding site; other site 640512010670 Walker B motif; other site 640512010671 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 640512010672 Flagellar FliJ protein; Region: FliJ; pfam02050 640512010673 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 640512010674 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07021 640512010675 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 640512010676 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 640512010677 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 640512010678 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 640512010679 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 640512010680 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 640512010681 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 640512010682 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 640512010683 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 640512010684 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 640512010685 Flagellar regulator YcgR; Region: YcgR; pfam07317 640512010686 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 640512010687 PilZ domain; Region: PilZ; pfam07238 640512010688 flagellar rod assembly protein/muramidase FlgJ; Provisional; Region: flgJ; PRK12709 640512010689 Rod binding protein; Region: Rod-binding; cl01626 640512010690 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 640512010691 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 640512010692 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 640512010693 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12697 640512010694 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 640512010695 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12694 640512010696 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 640512010697 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 640512010698 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 640512010699 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 640512010700 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 640512010701 flagellar hook protein FlgE; Provisional; Region: flgE; PRK12637 640512010702 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 640512010703 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 640512010704 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 640512010705 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 640512010706 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 640512010707 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 640512010708 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 640512010709 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 640512010710 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 640512010711 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12626 640512010712 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 640512010713 SAF-like; Region: SAF_2; pfam13144 640512010714 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 640512010715 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 640512010716 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 640512010717 FlgN protein; Region: FlgN; pfam05130 640512010718 YcfA-like protein; Region: YcfA; pfam07927 640512010719 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 640512010720 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 640512010721 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 640512010722 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640512010723 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 640512010724 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 640512010725 DNA binding residues [nucleotide binding] 640512010726 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 640512010727 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 640512010728 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 640512010729 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14722 640512010730 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 640512010731 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 640512010732 FHIPEP family; Region: FHIPEP; pfam00771 640512010733 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 640512010734 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 640512010735 Protein of unknown function (DUF3443); Region: DUF3443; pfam11925 640512010736 Protein of unknown function (DUF2844); Region: DUF2844; pfam11005 640512010737 chemotaxis regulator CheZ; Provisional; Region: PRK11166 640512010738 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 640512010739 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512010740 active site 640512010741 phosphorylation site [posttranslational modification] 640512010742 intermolecular recognition site; other site 640512010743 dimerization interface [polypeptide binding]; other site 640512010744 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 640512010745 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512010746 active site 640512010747 phosphorylation site [posttranslational modification] 640512010748 intermolecular recognition site; other site 640512010749 dimerization interface [polypeptide binding]; other site 640512010750 CheB methylesterase; Region: CheB_methylest; pfam01339 640512010751 chemoreceptor glutamine deamidase CheD; Provisional; Region: PRK13489 640512010752 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 640512010753 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 640512010754 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 640512010755 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 640512010756 dimer interface [polypeptide binding]; other site 640512010757 ligand binding site [chemical binding]; other site 640512010758 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 640512010759 dimerization interface [polypeptide binding]; other site 640512010760 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640512010761 dimer interface [polypeptide binding]; other site 640512010762 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 640512010763 putative CheW interface [polypeptide binding]; other site 640512010764 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 640512010765 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 640512010766 putative binding surface; other site 640512010767 active site 640512010768 CheY binding; Region: CheY-binding; pfam09078 640512010769 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 640512010770 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512010771 ATP binding site [chemical binding]; other site 640512010772 Mg2+ binding site [ion binding]; other site 640512010773 G-X-G motif; other site 640512010774 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 640512010775 Response regulator receiver domain; Region: Response_reg; pfam00072 640512010776 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512010777 active site 640512010778 phosphorylation site [posttranslational modification] 640512010779 intermolecular recognition site; other site 640512010780 dimerization interface [polypeptide binding]; other site 640512010781 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 640512010782 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 640512010783 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640512010784 ligand binding site [chemical binding]; other site 640512010785 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 640512010786 flagellar motor protein MotA; Validated; Region: PRK09110 640512010787 transcriptional activator FlhC; Provisional; Region: PRK12722 640512010788 transcriptional activator FlhD; Provisional; Region: PRK02909 640512010789 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640512010790 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 640512010791 putative ADP-binding pocket [chemical binding]; other site 640512010792 H-NS histone family; Region: Histone_HNS; pfam00816 640512010793 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 640512010794 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 640512010795 amphipathic channel; other site 640512010796 Asn-Pro-Ala signature motifs; other site 640512010797 putative hydrolase; Provisional; Region: PRK10976 640512010798 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 640512010799 active site 640512010800 motif I; other site 640512010801 motif II; other site 640512010802 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 640512010803 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 640512010804 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 640512010805 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 640512010806 flagellin; Validated; Region: PRK06819 640512010807 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 640512010808 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 640512010809 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 640512010810 Flagellar protein FliT; Region: FliT; pfam05400 640512010811 Tetratricopeptide repeat; Region: TPR_16; pfam13432 640512010812 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 640512010813 binding surface 640512010814 TPR motif; other site 640512010815 TPR repeat; Region: TPR_11; pfam13414 640512010816 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 640512010817 binding surface 640512010818 TPR motif; other site 640512010819 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 640512010820 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 640512010821 TPR motif; other site 640512010822 binding surface 640512010823 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 640512010824 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 640512010825 inhibitor-cofactor binding pocket; inhibition site 640512010826 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640512010827 catalytic residue [active] 640512010828 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 640512010829 trimer interface [polypeptide binding]; other site 640512010830 active site 640512010831 substrate binding site [chemical binding]; other site 640512010832 CoA binding site [chemical binding]; other site 640512010833 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 640512010834 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 640512010835 PYR/PP interface [polypeptide binding]; other site 640512010836 dimer interface [polypeptide binding]; other site 640512010837 TPP binding site [chemical binding]; other site 640512010838 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 640512010839 transketolase; Reviewed; Region: PRK05899 640512010840 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 640512010841 TPP-binding site [chemical binding]; other site 640512010842 dimer interface [polypeptide binding]; other site 640512010843 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 640512010844 classical (c) SDRs; Region: SDR_c; cd05233 640512010845 NAD(P) binding site [chemical binding]; other site 640512010846 active site 640512010847 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 640512010848 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 640512010849 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 640512010850 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 640512010851 NAD(P) binding site [chemical binding]; other site 640512010852 catalytic residues [active] 640512010853 Acyl-protein synthetase, LuxE; Region: LuxE; pfam04443 640512010854 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 640512010855 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 640512010856 acyl-activating enzyme (AAE) consensus motif; other site 640512010857 AMP binding site [chemical binding]; other site 640512010858 active site 640512010859 CoA binding site [chemical binding]; other site 640512010860 Phosphopantetheine attachment site; Region: PP-binding; cl09936 640512010861 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 640512010862 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 640512010863 putative trimer interface [polypeptide binding]; other site 640512010864 putative CoA binding site [chemical binding]; other site 640512010865 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 640512010866 CopC domain; Region: CopC; pfam04234 640512010867 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 640512010868 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 640512010869 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 640512010870 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 640512010871 Outer membrane efflux protein; Region: OEP; pfam02321 640512010872 Outer membrane efflux protein; Region: OEP; pfam02321 640512010873 PAAR motif; Region: PAAR_motif; pfam05488 640512010874 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 640512010875 Protein of unknown function (DUF3396); Region: DUF3396; pfam11876 640512010876 Cytochrome c; Region: Cytochrom_C; cl11414 640512010877 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640512010878 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 640512010879 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 640512010880 Part of AAA domain; Region: AAA_19; pfam13245 640512010881 Family description; Region: UvrD_C_2; pfam13538 640512010882 putative oxidoreductase; Provisional; Region: PRK11579 640512010883 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 640512010884 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 640512010885 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 640512010886 POPLD (NUC188) domain; Region: POPLD; pfam08170 640512010887 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 640512010888 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 640512010889 lipoyl attachment site [posttranslational modification]; other site 640512010890 glycine dehydrogenase; Provisional; Region: PRK05367 640512010891 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 640512010892 tetramer interface [polypeptide binding]; other site 640512010893 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640512010894 catalytic residue [active] 640512010895 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 640512010896 tetramer interface [polypeptide binding]; other site 640512010897 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640512010898 catalytic residue [active] 640512010899 Alginate lyase; Region: Alginate_lyase; pfam05426 640512010900 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 640512010901 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 640512010902 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 640512010903 thiamine pyrophosphate protein; Validated; Region: PRK08199 640512010904 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 640512010905 PYR/PP interface [polypeptide binding]; other site 640512010906 dimer interface [polypeptide binding]; other site 640512010907 TPP binding site [chemical binding]; other site 640512010908 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 640512010909 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 640512010910 TPP-binding site [chemical binding]; other site 640512010911 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 640512010912 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640512010913 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 640512010914 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640512010915 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 640512010916 Domain of unknown function (DUF4260); Region: DUF4260; pfam14079 640512010917 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 640512010918 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 640512010919 C-terminal domain interface [polypeptide binding]; other site 640512010920 GSH binding site (G-site) [chemical binding]; other site 640512010921 dimer interface [polypeptide binding]; other site 640512010922 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 640512010923 N-terminal domain interface [polypeptide binding]; other site 640512010924 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 640512010925 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 640512010926 Cytochrome P450; Region: p450; cl12078 640512010927 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07769 640512010928 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 640512010929 acyl-activating enzyme (AAE) consensus motif; other site 640512010930 active site 640512010931 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 640512010932 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 640512010933 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 640512010934 inhibitor-cofactor binding pocket; inhibition site 640512010935 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640512010936 catalytic residue [active] 640512010937 Predicted dehydrogenase [General function prediction only]; Region: COG5322 640512010938 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 640512010939 NAD(P) binding pocket [chemical binding]; other site 640512010940 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 640512010941 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 640512010942 dimerization interface [polypeptide binding]; other site 640512010943 ligand binding site [chemical binding]; other site 640512010944 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 640512010945 Predicted transcriptional regulator [Transcription]; Region: COG3905 640512010946 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 640512010947 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 640512010948 Glutamate binding site [chemical binding]; other site 640512010949 NAD binding site [chemical binding]; other site 640512010950 catalytic residues [active] 640512010951 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 640512010952 primosome assembly protein PriA; Validated; Region: PRK05580 640512010953 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 640512010954 ATP binding site [chemical binding]; other site 640512010955 putative Mg++ binding site [ion binding]; other site 640512010956 helicase superfamily c-terminal domain; Region: HELICc; smart00490 640512010957 ATP-binding site [chemical binding]; other site 640512010958 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 640512010959 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 640512010960 substrate binding site [chemical binding]; other site 640512010961 active site 640512010962 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 640512010963 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 640512010964 substrate binding pocket [chemical binding]; other site 640512010965 membrane-bound complex binding site; other site 640512010966 hinge residues; other site 640512010967 AMP-binding domain protein; Validated; Region: PRK08315 640512010968 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 640512010969 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 640512010970 acyl-activating enzyme (AAE) consensus motif; other site 640512010971 putative AMP binding site [chemical binding]; other site 640512010972 putative active site [active] 640512010973 putative CoA binding site [chemical binding]; other site 640512010974 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 640512010975 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 640512010976 gamma subunit interface [polypeptide binding]; other site 640512010977 epsilon subunit interface [polypeptide binding]; other site 640512010978 LBP interface [polypeptide binding]; other site 640512010979 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 640512010980 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 640512010981 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 640512010982 alpha subunit interaction interface [polypeptide binding]; other site 640512010983 Walker A motif; other site 640512010984 ATP binding site [chemical binding]; other site 640512010985 Walker B motif; other site 640512010986 inhibitor binding site; inhibition site 640512010987 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 640512010988 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 640512010989 core domain interface [polypeptide binding]; other site 640512010990 delta subunit interface [polypeptide binding]; other site 640512010991 epsilon subunit interface [polypeptide binding]; other site 640512010992 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 640512010993 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 640512010994 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 640512010995 beta subunit interaction interface [polypeptide binding]; other site 640512010996 Walker A motif; other site 640512010997 ATP binding site [chemical binding]; other site 640512010998 Walker B motif; other site 640512010999 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 640512011000 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 640512011001 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 640512011002 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 640512011003 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 640512011004 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 640512011005 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 640512011006 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 640512011007 ATP synthase I chain; Region: ATP_synt_I; cl09170 640512011008 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 640512011009 ParB-like nuclease domain; Region: ParBc; pfam02195 640512011010 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 640512011011 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 640512011012 P-loop; other site 640512011013 Magnesium ion binding site [ion binding]; other site 640512011014 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 640512011015 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 640512011016 Magnesium ion binding site [ion binding]; other site 640512011017 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 640512011018 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 640512011019 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 640512011020 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 640512011021 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 640512011022 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 640512011023 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 640512011024 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 640512011025 Walker A/P-loop; other site 640512011026 ATP binding site [chemical binding]; other site 640512011027 Q-loop/lid; other site 640512011028 ABC transporter signature motif; other site 640512011029 Walker B; other site 640512011030 D-loop; other site 640512011031 H-loop/switch region; other site 640512011032 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 640512011033 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 640512011034 TM-ABC transporter signature motif; other site 640512011035 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 640512011036 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 640512011037 Walker A/P-loop; other site 640512011038 ATP binding site [chemical binding]; other site 640512011039 Q-loop/lid; other site 640512011040 ABC transporter signature motif; other site 640512011041 Walker B; other site 640512011042 D-loop; other site 640512011043 H-loop/switch region; other site 640512011044 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 640512011045 TM-ABC transporter signature motif; other site 640512011046 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 640512011047 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 640512011048 putative ligand binding site [chemical binding]; other site 640512011049 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 640512011050 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 640512011051 putative ligand binding site [chemical binding]; other site 640512011052 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 640512011053 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 640512011054 TM-ABC transporter signature motif; other site 640512011055 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640512011056 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 640512011057 TM-ABC transporter signature motif; other site 640512011058 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 640512011059 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 640512011060 putative ligand binding site [chemical binding]; other site 640512011061 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 640512011062 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 640512011063 Walker A/P-loop; other site 640512011064 ATP binding site [chemical binding]; other site 640512011065 Q-loop/lid; other site 640512011066 ABC transporter signature motif; other site 640512011067 Walker B; other site 640512011068 D-loop; other site 640512011069 H-loop/switch region; other site 640512011070 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 640512011071 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 640512011072 Walker A/P-loop; other site 640512011073 ATP binding site [chemical binding]; other site 640512011074 Q-loop/lid; other site 640512011075 ABC transporter signature motif; other site 640512011076 Walker B; other site 640512011077 D-loop; other site 640512011078 H-loop/switch region; other site 640512011079 choline dehydrogenase; Validated; Region: PRK02106 640512011080 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 640512011081 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 640512011082 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 640512011083 tetrameric interface [polypeptide binding]; other site 640512011084 NAD binding site [chemical binding]; other site 640512011085 catalytic residues [active] 640512011086 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512011087 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512011088 The 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 640512011089 dimerization interface [polypeptide binding]; other site 640512011090 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 640512011091 putative active site [active] 640512011092 putative metal binding residues [ion binding]; other site 640512011093 signature motif; other site 640512011094 putative triphosphate binding site [ion binding]; other site 640512011095 dimer interface [polypeptide binding]; other site 640512011096 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 640512011097 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 640512011098 AsnC family; Region: AsnC_trans_reg; pfam01037 640512011099 Protein of unknown function (DUF3717); Region: DUF3717; pfam12512 640512011100 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 640512011101 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512011102 active site 640512011103 phosphorylation site [posttranslational modification] 640512011104 intermolecular recognition site; other site 640512011105 dimerization interface [polypeptide binding]; other site 640512011106 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 640512011107 DNA binding site [nucleotide binding] 640512011108 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 640512011109 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640512011110 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 640512011111 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 640512011112 dimer interface [polypeptide binding]; other site 640512011113 phosphorylation site [posttranslational modification] 640512011114 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512011115 ATP binding site [chemical binding]; other site 640512011116 Mg2+ binding site [ion binding]; other site 640512011117 G-X-G motif; other site 640512011118 Proteins containing SET domain [General function prediction only]; Region: COG2940 640512011119 SET domain; Region: SET; pfam00856 640512011120 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 640512011121 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 640512011122 active site 640512011123 FMN binding site [chemical binding]; other site 640512011124 substrate binding site [chemical binding]; other site 640512011125 homotetramer interface [polypeptide binding]; other site 640512011126 catalytic residue [active] 640512011127 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 640512011128 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 640512011129 catalytic triad [active] 640512011130 Transcriptional regulators [Transcription]; Region: MarR; COG1846 640512011131 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 640512011132 putative DNA binding site [nucleotide binding]; other site 640512011133 putative Zn2+ binding site [ion binding]; other site 640512011134 gamma-glutamyl:cysteine ligase; Provisional; Region: PRK13516 640512011135 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 640512011136 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 640512011137 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 640512011138 Uncharacterized conserved protein [Function unknown]; Region: COG4121 640512011139 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 640512011140 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 640512011141 IHF dimer interface [polypeptide binding]; other site 640512011142 IHF - DNA interface [nucleotide binding]; other site 640512011143 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 640512011144 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 640512011145 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 640512011146 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 640512011147 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 640512011148 N-acetyl-D-glucosamine binding site [chemical binding]; other site 640512011149 catalytic residue [active] 640512011150 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 640512011151 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 640512011152 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 640512011153 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 640512011154 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 640512011155 type II secretion system protein E; Region: type_II_gspE; TIGR02533 640512011156 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 640512011157 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 640512011158 Walker A motif; other site 640512011159 ATP binding site [chemical binding]; other site 640512011160 Walker B motif; other site 640512011161 type II secretion system protein F; Region: GspF; TIGR02120 640512011162 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 640512011163 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 640512011164 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 640512011165 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 640512011166 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 640512011167 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 640512011168 Type II transport protein GspH; Region: GspH; pfam12019 640512011169 type II secretion system protein I; Region: gspI; TIGR01707 640512011170 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 640512011171 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 640512011172 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 640512011173 GspL periplasmic domain; Region: GspL_C; pfam12693 640512011174 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 640512011175 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 640512011176 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640512011177 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640512011178 MarR family; Region: MarR_2; cl17246 640512011179 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 640512011180 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512011181 putative substrate translocation pore; other site 640512011182 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512011183 glutamate--cysteine ligase; Provisional; Region: PRK02107 640512011184 AlkA N-terminal domain; Region: AlkA_N; pfam06029 640512011185 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 640512011186 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 640512011187 minor groove reading motif; other site 640512011188 helix-hairpin-helix signature motif; other site 640512011189 substrate binding pocket [chemical binding]; other site 640512011190 active site 640512011191 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 640512011192 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 640512011193 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512011194 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 640512011195 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 640512011196 DNA binding site [nucleotide binding] 640512011197 active site 640512011198 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 640512011199 dimer interface [polypeptide binding]; other site 640512011200 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640512011201 metal binding site [ion binding]; metal-binding site 640512011202 YaeQ protein; Region: YaeQ; pfam07152 640512011203 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512011204 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512011205 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 640512011206 putative dimerization interface [polypeptide binding]; other site 640512011207 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 640512011208 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640512011209 NAD(P) binding site [chemical binding]; other site 640512011210 catalytic residues [active] 640512011211 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 640512011212 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 640512011213 ligand binding site [chemical binding]; other site 640512011214 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 640512011215 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 640512011216 Walker A/P-loop; other site 640512011217 ATP binding site [chemical binding]; other site 640512011218 Q-loop/lid; other site 640512011219 ABC transporter signature motif; other site 640512011220 Walker B; other site 640512011221 D-loop; other site 640512011222 H-loop/switch region; other site 640512011223 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 640512011224 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640512011225 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 640512011226 TM-ABC transporter signature motif; other site 640512011227 dihydroxy-acid dehydratase; Validated; Region: PRK06131 640512011228 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 640512011229 HIT family signature motif; other site 640512011230 catalytic residue [active] 640512011231 2-oxoacid dehydrogenase subunit E1; Provisional; Region: PRK13012 640512011232 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 640512011233 dimer interface [polypeptide binding]; other site 640512011234 TPP-binding site [chemical binding]; other site 640512011235 Transketolase, pyrimidine binding domain; Region: Transket_pyr; smart00861 640512011236 integrase; Provisional; Region: PRK09692 640512011237 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 640512011238 active site 640512011239 Int/Topo IB signature motif; other site 640512011240 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 640512011241 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 640512011242 trmE is a tRNA modification GTPase; Region: trmE; cd04164 640512011243 G1 box; other site 640512011244 GTP/Mg2+ binding site [chemical binding]; other site 640512011245 Switch I region; other site 640512011246 G2 box; other site 640512011247 Switch II region; other site 640512011248 G3 box; other site 640512011249 G4 box; other site 640512011250 G5 box; other site 640512011251 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 640512011252 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 640512011253 sequence-specific DNA binding site [nucleotide binding]; other site 640512011254 salt bridge; other site 640512011255 membrane protein insertase; Provisional; Region: PRK01318 640512011256 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 640512011257 hypothetical protein; Validated; Region: PRK00041 640512011258 Ribonuclease P; Region: Ribonuclease_P; cl00457 640512011259 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 640512011260 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512011261 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512011262 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 640512011263 putative effector binding pocket; other site 640512011264 putative dimerization interface [polypeptide binding]; other site 640512011265 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640512011266 classical (c) SDRs; Region: SDR_c; cd05233 640512011267 NAD(P) binding site [chemical binding]; other site 640512011268 active site 640512011269 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 640512011270 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 640512011271 active site 640512011272 catalytic tetrad [active] 640512011273 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640512011274 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640512011275 putative CheW interface [polypeptide binding]; other site 640512011276 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 640512011277 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 640512011278 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_A; cd01299 640512011279 active site 640512011280 GAF domain; Region: GAF; cl17456 640512011281 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512011282 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512011283 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512011284 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512011285 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 640512011286 substrate binding pocket [chemical binding]; other site 640512011287 dimerization interface [polypeptide binding]; other site 640512011288 short chain dehydrogenase; Provisional; Region: PRK07326 640512011289 HetN oxidoreductase-like, classical (c) SDR; Region: HetN_like_SDR_c; cd08932 640512011290 putative NAD(P) binding site [chemical binding]; other site 640512011291 active site 640512011292 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640512011293 hydroxyglutarate oxidase; Provisional; Region: PRK11728 640512011294 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640512011295 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512011296 dimer interface [polypeptide binding]; other site 640512011297 conserved gate region; other site 640512011298 putative PBP binding loops; other site 640512011299 ABC-ATPase subunit interface; other site 640512011300 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 640512011301 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 640512011302 substrate binding pocket [chemical binding]; other site 640512011303 membrane-bound complex binding site; other site 640512011304 hinge residues; other site 640512011305 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640512011306 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 640512011307 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 640512011308 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512011309 The 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 640512011310 dimerization interface [polypeptide binding]; other site 640512011311 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 640512011312 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 640512011313 active site 640512011314 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 640512011315 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512011316 putative substrate translocation pore; other site 640512011317 H+ Antiporter protein; Region: 2A0121; TIGR00900 640512011318 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512011319 putative substrate translocation pore; other site 640512011320 benzoate transport; Region: 2A0115; TIGR00895 640512011321 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512011322 putative substrate translocation pore; other site 640512011323 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 640512011324 Amidohydrolase; Region: Amidohydro_2; pfam04909 640512011325 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640512011326 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 640512011327 trimer interface [polypeptide binding]; other site 640512011328 eyelet of channel; other site 640512011329 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 640512011330 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512011331 putative substrate translocation pore; other site 640512011332 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 640512011333 Strictosidine synthase; Region: Str_synth; pfam03088 640512011334 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 640512011335 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 640512011336 ligand binding site [chemical binding]; other site 640512011337 NAD binding site [chemical binding]; other site 640512011338 dimerization interface [polypeptide binding]; other site 640512011339 catalytic site [active] 640512011340 hypothetical protein; Validated; Region: PRK06201 640512011341 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 640512011342 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640512011343 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 640512011344 Bacterial transcriptional regulator; Region: IclR; pfam01614 640512011345 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 640512011346 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640512011347 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 640512011348 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 640512011349 phosphate binding site [ion binding]; other site 640512011350 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 640512011351 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 640512011352 substrate binding pocket [chemical binding]; other site 640512011353 membrane-bound complex binding site; other site 640512011354 hinge residues; other site 640512011355 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512011356 putative substrate translocation pore; other site 640512011357 Short-chain dehydrogenase involved in D-alanine esterification of lipoteichoic acid and wall teichoic acid (D-alanine transfer protein) [Cell envelope biogenesis, outer membrane]; Region: DltE; COG3967 640512011358 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640512011359 NAD(P) binding site [chemical binding]; other site 640512011360 active site 640512011361 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 640512011362 classical (c) SDRs; Region: SDR_c; cd05233 640512011363 NAD(P) binding site [chemical binding]; other site 640512011364 active site 640512011365 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640512011366 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 640512011367 conserved cys residue [active] 640512011368 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512011369 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512011370 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 640512011371 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 640512011372 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 640512011373 ligand binding site [chemical binding]; other site 640512011374 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 640512011375 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 640512011376 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640512011377 Clostripain family; Region: Peptidase_C11; pfam03415 640512011378 TAP-like protein; Region: Abhydrolase_4; pfam08386 640512011379 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 640512011380 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 640512011381 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640512011382 DNA-binding site [nucleotide binding]; DNA binding site 640512011383 Transcriptional regulators [Transcription]; Region: GntR; COG1802 640512011384 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640512011385 DNA-binding site [nucleotide binding]; DNA binding site 640512011386 FCD domain; Region: FCD; pfam07729 640512011387 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 640512011388 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 640512011389 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 640512011390 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 640512011391 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640512011392 classical (c) SDRs; Region: SDR_c; cd05233 640512011393 NAD(P) binding site [chemical binding]; other site 640512011394 active site 640512011395 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640512011396 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640512011397 NAD(P) binding site [chemical binding]; other site 640512011398 active site 640512011399 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512011400 putative substrate translocation pore; other site 640512011401 benzoate transport; Region: 2A0115; TIGR00895 640512011402 Catalytic domain of Helicobacter pylori peptidoglycan deacetylase (HpPgdA) and similar proteins; Region: CE4_HpPgdA_like; cd10938 640512011403 active site 640512011404 catalytic site [active] 640512011405 Zn binding site [ion binding]; other site 640512011406 tetramer interface [polypeptide binding]; other site 640512011407 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 640512011408 hypothetical protein; Provisional; Region: PRK06102 640512011409 Amidase; Region: Amidase; cl11426 640512011410 Transcriptional regulators [Transcription]; Region: FadR; COG2186 640512011411 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640512011412 DNA-binding site [nucleotide binding]; DNA binding site 640512011413 FCD domain; Region: FCD; pfam07729 640512011414 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 640512011415 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 640512011416 Walker A/P-loop; other site 640512011417 ATP binding site [chemical binding]; other site 640512011418 Q-loop/lid; other site 640512011419 ABC transporter signature motif; other site 640512011420 Walker B; other site 640512011421 D-loop; other site 640512011422 H-loop/switch region; other site 640512011423 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 640512011424 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 640512011425 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640512011426 TM-ABC transporter signature motif; other site 640512011427 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 640512011428 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 640512011429 putative ligand binding site [chemical binding]; other site 640512011430 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 640512011431 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 640512011432 active site 640512011433 catalytic tetrad [active] 640512011434 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 640512011435 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 640512011436 putative NAD(P) binding site [chemical binding]; other site 640512011437 catalytic Zn binding site [ion binding]; other site 640512011438 structural Zn binding site [ion binding]; other site 640512011439 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 640512011440 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 640512011441 Predicted transcriptional regulators [Transcription]; Region: COG1733 640512011442 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 640512011443 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640512011444 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512011445 putative substrate translocation pore; other site 640512011446 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 640512011447 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 640512011448 putative DNA binding site [nucleotide binding]; other site 640512011449 putative Zn2+ binding site [ion binding]; other site 640512011450 AsnC family; Region: AsnC_trans_reg; pfam01037 640512011451 H-NS histone family; Region: Histone_HNS; pfam00816 640512011452 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 640512011453 Glycoside hydrolase family 71; Region: GH71; cd11577 640512011454 putative ligand binding site [chemical binding]; other site 640512011455 putative catalytic site [active] 640512011456 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 640512011457 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640512011458 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 640512011459 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640512011460 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 640512011461 tyrosine kinase; Provisional; Region: PRK11519 640512011462 Chain length determinant protein; Region: Wzz; pfam02706 640512011463 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 640512011464 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 640512011465 P loop; other site 640512011466 Nucleotide binding site [chemical binding]; other site 640512011467 DTAP/Switch II; other site 640512011468 Switch I; other site 640512011469 Low molecular weight phosphatase family; Region: LMWPc; cd00115 640512011470 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 640512011471 active site 640512011472 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 640512011473 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 640512011474 SLBB domain; Region: SLBB; pfam10531 640512011475 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 640512011476 Bacterial sugar transferase; Region: Bac_transf; pfam02397 640512011477 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 640512011478 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640512011479 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 640512011480 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512011481 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512011482 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640512011483 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 640512011484 conserved cys residue [active] 640512011485 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512011486 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512011487 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 640512011488 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 640512011489 Predicted amidohydrolase [General function prediction only]; Region: COG0388 640512011490 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_2; cd07580 640512011491 putative active site [active] 640512011492 catalytic triad [active] 640512011493 putative dimer interface [polypeptide binding]; other site 640512011494 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 640512011495 Type I periplasmic-binding protein of the nitrile hydratase (NHase) system that selectively converts nitriles to corresponding amides; Region: PBP1_NHase; cd06358 640512011496 putative ligand binding site [chemical binding]; other site 640512011497 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640512011498 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 640512011499 TM-ABC transporter signature motif; other site 640512011500 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 640512011501 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 640512011502 TM-ABC transporter signature motif; other site 640512011503 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 640512011504 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 640512011505 Walker A/P-loop; other site 640512011506 ATP binding site [chemical binding]; other site 640512011507 Q-loop/lid; other site 640512011508 ABC transporter signature motif; other site 640512011509 Walker B; other site 640512011510 D-loop; other site 640512011511 H-loop/switch region; other site 640512011512 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 640512011513 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 640512011514 Walker A/P-loop; other site 640512011515 ATP binding site [chemical binding]; other site 640512011516 Q-loop/lid; other site 640512011517 ABC transporter signature motif; other site 640512011518 Walker B; other site 640512011519 D-loop; other site 640512011520 H-loop/switch region; other site 640512011521 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 640512011522 Amidase; Region: Amidase; cl11426 640512011523 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 640512011524 Periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family; Region: PBP1_AmiC; cd06357 640512011525 ligand binding site [chemical binding]; other site 640512011526 regulator interaction site; other site 640512011527 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 640512011528 ANTAR domain; Region: ANTAR; pfam03861 640512011529 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640512011530 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 640512011531 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 640512011532 DNA binding site [nucleotide binding] 640512011533 Bacterial type III secretion protein (HrpB1_HrpK); Region: HrpB1_HrpK; pfam09613 640512011534 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 640512011535 Cytochrome P450; Region: p450; cl12078 640512011536 Protein of unknown function (DUF3455); Region: DUF3455; pfam11937 640512011537 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 640512011538 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 640512011539 iron-sulfur cluster [ion binding]; other site 640512011540 [2Fe-2S] cluster binding site [ion binding]; other site 640512011541 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 640512011542 alpha subunit interface [polypeptide binding]; other site 640512011543 active site 640512011544 substrate binding site [chemical binding]; other site 640512011545 Fe binding site [ion binding]; other site 640512011546 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 640512011547 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512011548 active site 640512011549 phosphorylation site [posttranslational modification] 640512011550 dimerization interface [polypeptide binding]; other site 640512011551 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 640512011552 DNA binding site [nucleotide binding] 640512011553 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 640512011554 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 640512011555 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 640512011556 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 640512011557 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 640512011558 type III secretion system ATPase; Provisional; Region: PRK09099 640512011559 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 640512011560 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 640512011561 Walker A motif; other site 640512011562 ATP binding site [chemical binding]; other site 640512011563 Walker B motif; other site 640512011564 type III secretion system protein HrpB; Validated; Region: PRK09098 640512011565 Flagellar assembly protein FliH; Region: FliH; pfam02108 640512011566 type III secretion apparatus lipoprotein, YscJ/HrcJ family; Region: III_secr_YscJ; TIGR02544 640512011567 Bacterial type III secretion protein (HrpB2); Region: HrpB2; cl09721 640512011568 type III secretion protein HrpB1/HrpK; Region: HrpB1_HrpK; TIGR02561 640512011569 type III secretion system protein HrcU; Validated; Region: PRK09108 640512011570 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 640512011571 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 640512011572 FHIPEP family; Region: FHIPEP; pfam00771 640512011573 Type III secretion protein (HpaP); Region: HpaP; cl17849 640512011574 type III secretion system apparatus protein YscQ/HrcQ; Region: SpaO_YscQ; TIGR02551 640512011575 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 640512011576 type III secretion system protein YscR; Provisional; Region: PRK12797 640512011577 Type III secretory pathway, component EscS [Intracellular trafficking and secretion]; Region: EscS; COG4794 640512011578 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 640512011579 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 640512011580 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 640512011581 substrate binding pocket [chemical binding]; other site 640512011582 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 640512011583 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 640512011584 N-acetyl-D-glucosamine binding site [chemical binding]; other site 640512011585 catalytic residue [active] 640512011586 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 640512011587 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 640512011588 substrate binding pocket [chemical binding]; other site 640512011589 membrane-bound complex binding site; other site 640512011590 hinge residues; other site 640512011591 56kDa selenium binding protein (SBP56); Region: SBP56; pfam05694 640512011592 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 640512011593 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 640512011594 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 640512011595 Catalytic domain, repeat 1, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_1; cd09140 640512011596 putative active site [active] 640512011597 catalytic site [active] 640512011598 Catalytic domain, repeat 2, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_2; cd09143 640512011599 putative active site [active] 640512011600 catalytic site [active] 640512011601 Uncharacterized conserved protein [Function unknown]; Region: COG0398 640512011602 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 640512011603 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 640512011604 putative catalytic site [active] 640512011605 putative metal binding site [ion binding]; other site 640512011606 putative phosphate binding site [ion binding]; other site 640512011607 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 640512011608 trehalose synthase; Region: treS_nterm; TIGR02456 640512011609 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 640512011610 active site 640512011611 catalytic site [active] 640512011612 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 640512011613 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 640512011614 active site 640512011615 catalytic site [active] 640512011616 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512011617 ATP binding site [chemical binding]; other site 640512011618 Mg2+ binding site [ion binding]; other site 640512011619 G-X-G motif; other site 640512011620 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 640512011621 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640512011622 PAS fold; Region: PAS; pfam00989 640512011623 PAS domain; Region: PAS; smart00091 640512011624 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640512011625 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 640512011626 dimer interface [polypeptide binding]; other site 640512011627 phosphorylation site [posttranslational modification] 640512011628 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512011629 ATP binding site [chemical binding]; other site 640512011630 G-X-G motif; other site 640512011631 Response regulator receiver domain; Region: Response_reg; pfam00072 640512011632 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512011633 active site 640512011634 phosphorylation site [posttranslational modification] 640512011635 intermolecular recognition site; other site 640512011636 dimerization interface [polypeptide binding]; other site 640512011637 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 640512011638 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 640512011639 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512011640 active site 640512011641 phosphorylation site [posttranslational modification] 640512011642 intermolecular recognition site; other site 640512011643 dimerization interface [polypeptide binding]; other site 640512011644 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 640512011645 Zn2+ binding site [ion binding]; other site 640512011646 Mg2+ binding site [ion binding]; other site 640512011647 Protein of unknown function DUF72; Region: DUF72; pfam01904 640512011648 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 640512011649 Fe-S cluster binding site [ion binding]; other site 640512011650 active site 640512011651 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 640512011652 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 640512011653 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 640512011654 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 640512011655 Flavin binding site [chemical binding]; other site 640512011656 Protein of unknown function, DUF480; Region: DUF480; pfam04337 640512011657 Bacterial lipocalin [Cell envelope biogenesis, outer membrane]; Region: Blc; COG3040 640512011658 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 640512011659 BON domain; Region: BON; pfam04972 640512011660 propionate/acetate kinase; Provisional; Region: PRK12379 640512011661 Acetokinase family; Region: Acetate_kinase; cl17229 640512011662 putative phosphoketolase; Provisional; Region: PRK05261 640512011663 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 640512011664 TPP-binding site; other site 640512011665 XFP C-terminal domain; Region: XFP_C; pfam09363 640512011666 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 640512011667 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 640512011668 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 640512011669 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 640512011670 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 640512011671 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 640512011672 sugar efflux transporter; Region: 2A0120; TIGR00899 640512011673 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 640512011674 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 640512011675 catalytic residues [active] 640512011676 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 640512011677 Fructose-1,6-bisphosphate aldolase; Region: FBP_aldolase_I_a; cd00948 640512011678 active site 640512011679 intersubunit interface [polypeptide binding]; other site 640512011680 catalytic residue [active] 640512011681 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640512011682 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 640512011683 dimer interface [polypeptide binding]; other site 640512011684 phosphorylation site [posttranslational modification] 640512011685 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512011686 ATP binding site [chemical binding]; other site 640512011687 Mg2+ binding site [ion binding]; other site 640512011688 G-X-G motif; other site 640512011689 Response regulator receiver domain; Region: Response_reg; pfam00072 640512011690 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512011691 active site 640512011692 phosphorylation site [posttranslational modification] 640512011693 intermolecular recognition site; other site 640512011694 dimerization interface [polypeptide binding]; other site 640512011695 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 640512011696 iron-sulfur cluster [ion binding]; other site 640512011697 [2Fe-2S] cluster binding site [ion binding]; other site 640512011698 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 640512011699 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640512011700 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 640512011701 Domain of unknown function DUF20; Region: UPF0118; pfam01594 640512011702 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 640512011703 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 640512011704 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 640512011705 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 640512011706 active site 640512011707 catalytic site [active] 640512011708 PRC-barrel domain; Region: PRC; pfam05239 640512011709 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 640512011710 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 640512011711 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640512011712 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 640512011713 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 640512011714 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 640512011715 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 640512011716 catalytic loop [active] 640512011717 iron binding site [ion binding]; other site 640512011718 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 640512011719 short chain dehydrogenase; Provisional; Region: PRK06701 640512011720 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 640512011721 NAD binding site [chemical binding]; other site 640512011722 metal binding site [ion binding]; metal-binding site 640512011723 active site 640512011724 Response regulator receiver domain; Region: Response_reg; pfam00072 640512011725 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512011726 active site 640512011727 phosphorylation site [posttranslational modification] 640512011728 intermolecular recognition site; other site 640512011729 dimerization interface [polypeptide binding]; other site 640512011730 ATP-dependent DNA ligase; Validated; Region: PRK09247 640512011731 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 640512011732 active site 640512011733 DNA binding site [nucleotide binding] 640512011734 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 640512011735 DNA binding site [nucleotide binding] 640512011736 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 640512011737 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 640512011738 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 640512011739 Predicted ATPase [General function prediction only]; Region: COG1485 640512011740 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 640512011741 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 640512011742 TPP-binding site [chemical binding]; other site 640512011743 dimer interface [polypeptide binding]; other site 640512011744 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 640512011745 PYR/PP interface [polypeptide binding]; other site 640512011746 dimer interface [polypeptide binding]; other site 640512011747 TPP binding site [chemical binding]; other site 640512011748 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 640512011749 Uncharacterized protein containing double-stranded beta helix domain [Function unknown]; Region: COG4297 640512011750 chaperone protein DnaJ; Provisional; Region: PRK14282 640512011751 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640512011752 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 640512011753 trimer interface [polypeptide binding]; other site 640512011754 eyelet of channel; other site 640512011755 MarC family integral membrane protein; Region: MarC; cl00919 640512011756 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 640512011757 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 640512011758 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 640512011759 Na binding site [ion binding]; other site 640512011760 glycogen synthase; Provisional; Region: glgA; PRK00654 640512011761 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 640512011762 ADP-binding pocket [chemical binding]; other site 640512011763 homodimer interface [polypeptide binding]; other site 640512011764 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640512011765 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640512011766 metal binding site [ion binding]; metal-binding site 640512011767 active site 640512011768 I-site; other site 640512011769 Peptidase family M1; Region: Peptidase_M1; pfam01433 640512011770 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 640512011771 Zn binding site [ion binding]; other site 640512011772 Epoxide hydrolase N terminus; Region: EHN; pfam06441 640512011773 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 640512011774 LrgA family; Region: LrgA; pfam03788 640512011775 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 640512011776 Neutral trehalase [Carbohydrate transport and metabolism]; Region: TreA; COG1626 640512011777 Trehalase; Region: Trehalase; cl17346 640512011778 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 640512011779 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 640512011780 active site clefts [active] 640512011781 zinc binding site [ion binding]; other site 640512011782 dimer interface [polypeptide binding]; other site 640512011783 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 640512011784 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640512011785 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512011786 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512011787 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 640512011788 active site 640512011789 SAM binding site [chemical binding]; other site 640512011790 homodimer interface [polypeptide binding]; other site 640512011791 cobalt-precorrin-6x reductase; Reviewed; Region: PRK08057 640512011792 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 640512011793 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 640512011794 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 640512011795 active site 640512011796 putative homodimer interface [polypeptide binding]; other site 640512011797 SAM binding site [chemical binding]; other site 640512011798 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 640512011799 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 640512011800 S-adenosylmethionine binding site [chemical binding]; other site 640512011801 precorrin-3B synthase; Region: CobG; TIGR02435 640512011802 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 640512011803 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 640512011804 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 640512011805 Precorrin-8X methylmutase; Region: CbiC; pfam02570 640512011806 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 640512011807 homodimer interface [polypeptide binding]; other site 640512011808 active site 640512011809 SAM binding site [chemical binding]; other site 640512011810 Cobalamin biosynthesis protein CbiG [Coenzyme metabolism]; Region: CbiG; COG2073 640512011811 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 640512011812 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 640512011813 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 640512011814 active site 640512011815 SAM binding site [chemical binding]; other site 640512011816 homodimer interface [polypeptide binding]; other site 640512011817 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640512011818 AAA domain; Region: AAA_23; pfam13476 640512011819 Walker A/P-loop; other site 640512011820 ATP binding site [chemical binding]; other site 640512011821 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 640512011822 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 640512011823 active site 640512011824 metal binding site [ion binding]; metal-binding site 640512011825 DNA binding site [nucleotide binding] 640512011826 Protein of unknown function (DUF445); Region: DUF445; pfam04286 640512011827 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 640512011828 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 640512011829 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 640512011830 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 640512011831 aldolase II superfamily protein; Provisional; Region: PRK07044 640512011832 intersubunit interface [polypeptide binding]; other site 640512011833 active site 640512011834 Zn2+ binding site [ion binding]; other site 640512011835 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 640512011836 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 640512011837 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640512011838 homodimer interface [polypeptide binding]; other site 640512011839 catalytic residue [active] 640512011840 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512011841 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512011842 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 640512011843 putative dimerization interface [polypeptide binding]; other site 640512011844 Response regulator receiver domain; Region: Response_reg; pfam00072 640512011845 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512011846 active site 640512011847 phosphorylation site [posttranslational modification] 640512011848 intermolecular recognition site; other site 640512011849 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640512011850 dimerization interface [polypeptide binding]; other site 640512011851 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 640512011852 dimer interface [polypeptide binding]; other site 640512011853 phosphorylation site [posttranslational modification] 640512011854 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512011855 ATP binding site [chemical binding]; other site 640512011856 Mg2+ binding site [ion binding]; other site 640512011857 G-X-G motif; other site 640512011858 CheB methylesterase; Region: CheB_methylest; pfam01339 640512011859 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 640512011860 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 640512011861 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 640512011862 CHASE3 domain; Region: CHASE3; pfam05227 640512011863 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 640512011864 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 640512011865 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 640512011866 dimer interface [polypeptide binding]; other site 640512011867 phosphorylation site [posttranslational modification] 640512011868 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512011869 ATP binding site [chemical binding]; other site 640512011870 Mg2+ binding site [ion binding]; other site 640512011871 G-X-G motif; other site 640512011872 Response regulator receiver domain; Region: Response_reg; pfam00072 640512011873 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512011874 active site 640512011875 phosphorylation site [posttranslational modification] 640512011876 intermolecular recognition site; other site 640512011877 dimerization interface [polypeptide binding]; other site 640512011878 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 640512011879 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512011880 active site 640512011881 phosphorylation site [posttranslational modification] 640512011882 intermolecular recognition site; other site 640512011883 dimerization interface [polypeptide binding]; other site 640512011884 Response regulator receiver domain; Region: Response_reg; pfam00072 640512011885 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512011886 active site 640512011887 phosphorylation site [posttranslational modification] 640512011888 intermolecular recognition site; other site 640512011889 dimerization interface [polypeptide binding]; other site 640512011890 Trehalase; Region: Trehalase; cl17346 640512011891 MltA-interacting protein MipA; Region: MipA; cl01504 640512011892 methionine sulfoxide reductase A; Provisional; Region: PRK13014 640512011893 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 640512011894 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 640512011895 putative DNA binding site [nucleotide binding]; other site 640512011896 putative Zn2+ binding site [ion binding]; other site 640512011897 AsnC family; Region: AsnC_trans_reg; pfam01037 640512011898 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 640512011899 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 640512011900 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640512011901 catalytic residue [active] 640512011902 LysR family transcriptional regulator; Provisional; Region: PRK14997 640512011903 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512011904 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 640512011905 putative effector binding pocket; other site 640512011906 dimerization interface [polypeptide binding]; other site 640512011907 Pirin-related protein [General function prediction only]; Region: COG1741 640512011908 Pirin; Region: Pirin; pfam02678 640512011909 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 640512011910 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 640512011911 catalytic residue [active] 640512011912 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 640512011913 catalytic residues [active] 640512011914 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 640512011915 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640512011916 peroxiredoxin; Region: AhpC; TIGR03137 640512011917 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 640512011918 dimer interface [polypeptide binding]; other site 640512011919 decamer (pentamer of dimers) interface [polypeptide binding]; other site 640512011920 catalytic triad [active] 640512011921 peroxidatic and resolving cysteines [active] 640512011922 Propionate catabolism activator; Region: PrpR_N; pfam06506 640512011923 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 640512011924 PAS domain; Region: PAS; smart00091 640512011925 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 640512011926 Walker A motif; other site 640512011927 ATP binding site [chemical binding]; other site 640512011928 Walker B motif; other site 640512011929 arginine finger; other site 640512011930 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 640512011931 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 640512011932 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 640512011933 tetramer interface [polypeptide binding]; other site 640512011934 active site 640512011935 Mg2+/Mn2+ binding site [ion binding]; other site 640512011936 putative transporter; Provisional; Region: PRK10504 640512011937 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512011938 putative substrate translocation pore; other site 640512011939 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640512011940 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 640512011941 Coenzyme A binding pocket [chemical binding]; other site 640512011942 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 640512011943 SnoaL-like domain; Region: SnoaL_2; pfam12680 640512011944 putative nicotinate phosphoribosyltransferase; Provisional; Region: PRK09198 640512011945 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 640512011946 active site 640512011947 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 640512011948 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 640512011949 Walker A motif; other site 640512011950 ATP binding site [chemical binding]; other site 640512011951 Walker B motif; other site 640512011952 arginine finger; other site 640512011953 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 640512011954 Mechanosensitive ion channel; Region: MS_channel; pfam00924 640512011955 DEAD/DEAH box helicase; Region: DEAD; pfam00270 640512011956 ATP binding site [chemical binding]; other site 640512011957 DEAD_2; Region: DEAD_2; pfam06733 640512011958 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 640512011959 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 640512011960 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 640512011961 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 640512011962 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 640512011963 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 640512011964 4Fe-4S binding domain; Region: Fer4; pfam00037 640512011965 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 640512011966 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 640512011967 Cysteine-rich domain; Region: CCG; pfam02754 640512011968 Cysteine-rich domain; Region: CCG; pfam02754 640512011969 Transcriptional regulators [Transcription]; Region: FadR; COG2186 640512011970 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640512011971 DNA-binding site [nucleotide binding]; DNA binding site 640512011972 FCD domain; Region: FCD; pfam07729 640512011973 aspartate aminotransferase; Provisional; Region: PRK05764 640512011974 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 640512011975 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640512011976 homodimer interface [polypeptide binding]; other site 640512011977 catalytic residue [active] 640512011978 RNA polymerase factor sigma-54; Provisional; Region: PRK12469 640512011979 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 640512011980 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 640512011981 BON domain; Region: BON; pfam04972 640512011982 Domain of unknown function (DUF2383); Region: DUF2383; cl17556 640512011983 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 640512011984 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 640512011985 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 640512011986 intracellular protease, PfpI family; Region: PfpI; TIGR01382 640512011987 proposed catalytic triad [active] 640512011988 conserved cys residue [active] 640512011989 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 640512011990 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 640512011991 active site 640512011992 DNA binding site [nucleotide binding] 640512011993 Int/Topo IB signature motif; other site 640512011994 catalytic residues [active] 640512011995 PRC-barrel domain; Region: PRC; pfam05239 640512011996 Protein of unknown function (DUF3175); Region: DUF3175; pfam11373 640512011997 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 640512011998 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 640512011999 Cupin; Region: Cupin_6; pfam12852 640512012000 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640512012001 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512012002 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 640512012003 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 640512012004 ATP binding site [chemical binding]; other site 640512012005 putative Mg++ binding site [ion binding]; other site 640512012006 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 640512012007 nucleotide binding region [chemical binding]; other site 640512012008 ATP-binding site [chemical binding]; other site 640512012009 DEAD/H associated; Region: DEAD_assoc; pfam08494 640512012010 RNase II stability modulator; Provisional; Region: PRK10060 640512012011 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 640512012012 putative active site [active] 640512012013 heme pocket [chemical binding]; other site 640512012014 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640512012015 metal binding site [ion binding]; metal-binding site 640512012016 active site 640512012017 I-site; other site 640512012018 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 640512012019 enoyl-CoA hydratase; Validated; Region: PRK08788 640512012020 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 640512012021 substrate binding site [chemical binding]; other site 640512012022 oxyanion hole (OAH) forming residues; other site 640512012023 trimer interface [polypeptide binding]; other site 640512012024 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 640512012025 Cytochrome P450; Region: p450; cl12078 640512012026 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 640512012027 Ligand Binding Site [chemical binding]; other site 640512012028 Protein of unknown function (DUF3455); Region: DUF3455; pfam11937 640512012029 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 640512012030 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 640512012031 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 640512012032 TIGR03118 family protein; Region: PEPCTERM_chp_1 640512012033 Predicted ATPase [General function prediction only]; Region: COG3899 640512012034 AAA ATPase domain; Region: AAA_16; pfam13191 640512012035 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640512012036 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 640512012037 DNA binding residues [nucleotide binding] 640512012038 dimerization interface [polypeptide binding]; other site 640512012039 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 640512012040 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512012041 active site 640512012042 phosphorylation site [posttranslational modification] 640512012043 intermolecular recognition site; other site 640512012044 dimerization interface [polypeptide binding]; other site 640512012045 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 640512012046 DNA binding residues [nucleotide binding] 640512012047 dimerization interface [polypeptide binding]; other site 640512012048 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512012049 Response regulator receiver domain; Region: Response_reg; pfam00072 640512012050 active site 640512012051 phosphorylation site [posttranslational modification] 640512012052 intermolecular recognition site; other site 640512012053 dimerization interface [polypeptide binding]; other site 640512012054 Ferritin-like domain; Region: Ferritin; pfam00210 640512012055 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 640512012056 dimerization interface [polypeptide binding]; other site 640512012057 DPS ferroxidase diiron center [ion binding]; other site 640512012058 ion pore; other site 640512012059 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 640512012060 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 640512012061 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512012062 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512012063 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640512012064 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512012065 ATP binding site [chemical binding]; other site 640512012066 Mg2+ binding site [ion binding]; other site 640512012067 G-X-G motif; other site 640512012068 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512012069 metabolite-proton symporter; Region: 2A0106; TIGR00883 640512012070 putative substrate translocation pore; other site 640512012071 Domain of unknown function (DUF4331); Region: DUF4331; pfam14224 640512012072 High-affinity nickel-transport protein; Region: NicO; cl00964 640512012073 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 640512012074 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 640512012075 NADP binding site [chemical binding]; other site 640512012076 active site 640512012077 steroid binding site; other site 640512012078 short chain dehydrogenase; Provisional; Region: PRK12937 640512012079 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 640512012080 NADP binding site [chemical binding]; other site 640512012081 homodimer interface [polypeptide binding]; other site 640512012082 active site 640512012083 substrate binding site [chemical binding]; other site 640512012084 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 640512012085 Partial alpha/beta-hydrolase lipase region; Region: Abhydro_lipase; pfam04083 640512012086 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 640512012087 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 640512012088 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg3; cd01282 640512012089 DNA binding residues [nucleotide binding] 640512012090 putative dimer interface [polypeptide binding]; other site 640512012091 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 640512012092 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 640512012093 ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]; Region: UgpA; COG1175 640512012094 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 640512012095 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512012096 dimer interface [polypeptide binding]; other site 640512012097 conserved gate region; other site 640512012098 putative PBP binding loops; other site 640512012099 ABC-ATPase subunit interface; other site 640512012100 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 640512012101 Sorbitol dehydrogenase; Region: sorbitol_DH; cd05285 640512012102 inhibitor binding site; inhibition site 640512012103 catalytic Zn binding site [ion binding]; other site 640512012104 structural Zn binding site [ion binding]; other site 640512012105 NADP binding site [chemical binding]; other site 640512012106 tetramer interface [polypeptide binding]; other site 640512012107 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 640512012108 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640512012109 Walker A/P-loop; other site 640512012110 ATP binding site [chemical binding]; other site 640512012111 Q-loop/lid; other site 640512012112 ABC transporter signature motif; other site 640512012113 Walker B; other site 640512012114 D-loop; other site 640512012115 H-loop/switch region; other site 640512012116 TOBE domain; Region: TOBE_2; pfam08402 640512012117 Cupin domain; Region: Cupin_2; cl17218 640512012118 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 640512012119 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512012120 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512012121 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 640512012122 N- and C-terminal domain interface [polypeptide binding]; other site 640512012123 rhamnulokinase; Region: rhamnulo_kin; TIGR02627 640512012124 active site 640512012125 MgATP binding site [chemical binding]; other site 640512012126 catalytic site [active] 640512012127 metal binding site [ion binding]; metal-binding site 640512012128 xylulose binding site [chemical binding]; other site 640512012129 homodimer interface [polypeptide binding]; other site 640512012130 hypothetical protein; Provisional; Region: PRK07907 640512012131 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_5; cd05682 640512012132 metal binding site [ion binding]; metal-binding site 640512012133 putative dimer interface [polypeptide binding]; other site 640512012134 Superinfection immunity protein; Region: Imm_superinfect; pfam14373 640512012135 Uncharacterized small protein (DUF2158); Region: DUF2158; pfam09926 640512012136 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512012137 putative substrate translocation pore; other site 640512012138 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512012139 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640512012140 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640512012141 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 640512012142 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 640512012143 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 640512012144 putative molybdopterin cofactor binding site [chemical binding]; other site 640512012145 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 640512012146 putative molybdopterin cofactor binding site; other site 640512012147 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 640512012148 S-adenosylmethionine binding site [chemical binding]; other site 640512012149 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 640512012150 FtsH Extracellular; Region: FtsH_ext; pfam06480 640512012151 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 640512012152 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 640512012153 Walker A motif; other site 640512012154 ATP binding site [chemical binding]; other site 640512012155 Walker B motif; other site 640512012156 arginine finger; other site 640512012157 Peptidase family M41; Region: Peptidase_M41; pfam01434 640512012158 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 640512012159 Ligand Binding Site [chemical binding]; other site 640512012160 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 640512012161 BON domain; Region: BON; pfam04972 640512012162 BON domain; Region: BON; pfam04972 640512012163 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl17299 640512012164 heme binding pocket [chemical binding]; other site 640512012165 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 640512012166 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 640512012167 PAS fold; Region: PAS_3; pfam08447 640512012168 putative active site [active] 640512012169 heme pocket [chemical binding]; other site 640512012170 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640512012171 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 640512012172 dimer interface [polypeptide binding]; other site 640512012173 phosphorylation site [posttranslational modification] 640512012174 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512012175 ATP binding site [chemical binding]; other site 640512012176 Mg2+ binding site [ion binding]; other site 640512012177 G-X-G motif; other site 640512012178 Response regulator receiver domain; Region: Response_reg; pfam00072 640512012179 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512012180 active site 640512012181 phosphorylation site [posttranslational modification] 640512012182 intermolecular recognition site; other site 640512012183 dimerization interface [polypeptide binding]; other site 640512012184 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 640512012185 GAF domain; Region: GAF; pfam01590 640512012186 Phytochrome region; Region: PHY; pfam00360 640512012187 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 640512012188 dimer interface [polypeptide binding]; other site 640512012189 phosphorylation site [posttranslational modification] 640512012190 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512012191 ATP binding site [chemical binding]; other site 640512012192 Mg2+ binding site [ion binding]; other site 640512012193 G-X-G motif; other site 640512012194 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512012195 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640512012196 putative substrate translocation pore; other site 640512012197 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 640512012198 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512012199 active site 640512012200 phosphorylation site [posttranslational modification] 640512012201 intermolecular recognition site; other site 640512012202 dimerization interface [polypeptide binding]; other site 640512012203 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 640512012204 Walker A motif; other site 640512012205 ATP binding site [chemical binding]; other site 640512012206 Walker B motif; other site 640512012207 arginine finger; other site 640512012208 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 640512012209 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640512012210 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 640512012211 dimer interface [polypeptide binding]; other site 640512012212 phosphorylation site [posttranslational modification] 640512012213 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512012214 ATP binding site [chemical binding]; other site 640512012215 Mg2+ binding site [ion binding]; other site 640512012216 G-X-G motif; other site 640512012217 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 640512012218 GAF domain; Region: GAF; pfam01590 640512012219 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 640512012220 PAS domain; Region: PAS_9; pfam13426 640512012221 putative active site [active] 640512012222 heme pocket [chemical binding]; other site 640512012223 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 640512012224 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 640512012225 putative active site [active] 640512012226 heme pocket [chemical binding]; other site 640512012227 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 640512012228 dimer interface [polypeptide binding]; other site 640512012229 phosphorylation site [posttranslational modification] 640512012230 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512012231 ATP binding site [chemical binding]; other site 640512012232 Mg2+ binding site [ion binding]; other site 640512012233 G-X-G motif; other site 640512012234 Response regulator receiver domain; Region: Response_reg; pfam00072 640512012235 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512012236 active site 640512012237 phosphorylation site [posttranslational modification] 640512012238 intermolecular recognition site; other site 640512012239 dimerization interface [polypeptide binding]; other site 640512012240 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 640512012241 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 640512012242 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 640512012243 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640512012244 dimer interface [polypeptide binding]; other site 640512012245 putative CheW interface [polypeptide binding]; other site 640512012246 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 640512012247 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 640512012248 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 640512012249 DNA binding residues [nucleotide binding] 640512012250 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 640512012251 GAF domain; Region: GAF; pfam01590 640512012252 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 640512012253 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640512012254 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 640512012255 lipoprotein signal peptidase; Provisional; Region: PRK14787 640512012256 Signal peptidase (SPase) II; Region: Peptidase_A8; pfam01252 640512012257 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 640512012258 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 640512012259 dimer interface [polypeptide binding]; other site 640512012260 active site 640512012261 muconolactone delta-isomerase; Region: muco_delta; TIGR03221 640512012262 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 640512012263 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 640512012264 octamer interface [polypeptide binding]; other site 640512012265 active site 640512012266 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640512012267 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 640512012268 trimer interface [polypeptide binding]; other site 640512012269 eyelet of channel; other site 640512012270 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 640512012271 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640512012272 NAD(P) binding site [chemical binding]; other site 640512012273 catalytic residues [active] 640512012274 Cytochrome c; Region: Cytochrom_C; pfam00034 640512012275 Cytochrome c; Region: Cytochrom_C; pfam00034 640512012276 Methylamine dehydrogenase, L chain; Region: Me-amine-dh_L; cl03812 640512012277 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 640512012278 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 640512012279 Methylamine utilisation protein MauE; Region: MauE; pfam07291 640512012280 methylamine dehydrogenase (amicyanin) heavy chain; Region: TTQ_MADH_Hv; TIGR02658 640512012281 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640512012282 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512012283 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512012284 metabolite-proton symporter; Region: 2A0106; TIGR00883 640512012285 putative substrate translocation pore; other site 640512012286 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640512012287 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 640512012288 active site 640512012289 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512012290 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512012291 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 640512012292 substrate binding pocket [chemical binding]; other site 640512012293 dimerization interface [polypeptide binding]; other site 640512012294 metabolite-proton symporter; Region: 2A0106; TIGR00883 640512012295 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512012296 putative substrate translocation pore; other site 640512012297 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 640512012298 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 640512012299 FMN-binding pocket [chemical binding]; other site 640512012300 flavin binding motif; other site 640512012301 phosphate binding motif [ion binding]; other site 640512012302 beta-alpha-beta structure motif; other site 640512012303 NAD binding pocket [chemical binding]; other site 640512012304 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 640512012305 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 640512012306 catalytic loop [active] 640512012307 iron binding site [ion binding]; other site 640512012308 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512012309 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512012310 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 640512012311 substrate binding pocket [chemical binding]; other site 640512012312 dimerization interface [polypeptide binding]; other site 640512012313 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 640512012314 [2Fe-2S] cluster binding site [ion binding]; other site 640512012315 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 640512012316 putative alpha subunit interface [polypeptide binding]; other site 640512012317 putative active site [active] 640512012318 putative substrate binding site [chemical binding]; other site 640512012319 Fe binding site [ion binding]; other site 640512012320 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 640512012321 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 640512012322 active site 1 [active] 640512012323 dimer interface [polypeptide binding]; other site 640512012324 hexamer interface [polypeptide binding]; other site 640512012325 active site 2 [active] 640512012326 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 640512012327 hexamer interface [polypeptide binding]; other site 640512012328 active site 2 [active] 640512012329 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 640512012330 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640512012331 active site 640512012332 SnoaL-like domain; Region: SnoaL_4; pfam13577 640512012333 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 640512012334 Amidase; Region: Amidase; cl11426 640512012335 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 640512012336 classical (c) SDRs; Region: SDR_c; cd05233 640512012337 NAD(P) binding site [chemical binding]; other site 640512012338 active site 640512012339 Flavin Reductases; Region: FlaRed; cl00801 640512012340 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 640512012341 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 640512012342 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 640512012343 protein binding site [polypeptide binding]; other site 640512012344 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 640512012345 protein binding site [polypeptide binding]; other site 640512012346 PAS domain S-box; Region: sensory_box; TIGR00229 640512012347 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 640512012348 putative active site [active] 640512012349 heme pocket [chemical binding]; other site 640512012350 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 640512012351 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640512012352 dimer interface [polypeptide binding]; other site 640512012353 phosphorylation site [posttranslational modification] 640512012354 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512012355 ATP binding site [chemical binding]; other site 640512012356 Mg2+ binding site [ion binding]; other site 640512012357 G-X-G motif; other site 640512012358 Response regulator receiver domain; Region: Response_reg; pfam00072 640512012359 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512012360 active site 640512012361 phosphorylation site [posttranslational modification] 640512012362 intermolecular recognition site; other site 640512012363 dimerization interface [polypeptide binding]; other site 640512012364 Response regulator receiver domain; Region: Response_reg; pfam00072 640512012365 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512012366 active site 640512012367 phosphorylation site [posttranslational modification] 640512012368 intermolecular recognition site; other site 640512012369 dimerization interface [polypeptide binding]; other site 640512012370 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 640512012371 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 640512012372 putative molybdopterin cofactor binding site [chemical binding]; other site 640512012373 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 640512012374 putative molybdopterin cofactor binding site; other site 640512012375 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 640512012376 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 640512012377 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 640512012378 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 640512012379 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 640512012380 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512012381 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512012382 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 640512012383 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512012384 active site 640512012385 phosphorylation site [posttranslational modification] 640512012386 intermolecular recognition site; other site 640512012387 dimerization interface [polypeptide binding]; other site 640512012388 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 640512012389 DNA binding residues [nucleotide binding] 640512012390 dimerization interface [polypeptide binding]; other site 640512012391 PAS domain S-box; Region: sensory_box; TIGR00229 640512012392 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 640512012393 putative active site [active] 640512012394 heme pocket [chemical binding]; other site 640512012395 PAS fold; Region: PAS_3; pfam08447 640512012396 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 640512012397 putative active site [active] 640512012398 heme pocket [chemical binding]; other site 640512012399 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512012400 ATP binding site [chemical binding]; other site 640512012401 Mg2+ binding site [ion binding]; other site 640512012402 G-X-G motif; other site 640512012403 PRC-barrel domain; Region: PRC; pfam05239 640512012404 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640512012405 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 640512012406 HlyD family secretion protein; Region: HlyD_3; pfam13437 640512012407 Protein of unknown function (DUF1656); Region: DUF1656; cl11658 640512012408 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640512012409 Fusaric acid resistance protein family; Region: FUSC; pfam04632 640512012410 pyruvate dehydrogenase; Provisional; Region: PRK09124 640512012411 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 640512012412 PYR/PP interface [polypeptide binding]; other site 640512012413 dimer interface [polypeptide binding]; other site 640512012414 tetramer interface [polypeptide binding]; other site 640512012415 TPP binding site [chemical binding]; other site 640512012416 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 640512012417 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 640512012418 TPP-binding site [chemical binding]; other site 640512012419 transcriptional regulator; Provisional; Region: PRK10632 640512012420 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512012421 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 640512012422 putative effector binding pocket; other site 640512012423 dimerization interface [polypeptide binding]; other site 640512012424 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512012425 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512012426 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 640512012427 putative effector binding pocket; other site 640512012428 dimerization interface [polypeptide binding]; other site 640512012429 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 640512012430 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512012431 putative substrate translocation pore; other site 640512012432 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 640512012433 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 640512012434 FMN binding site [chemical binding]; other site 640512012435 active site 640512012436 substrate binding site [chemical binding]; other site 640512012437 catalytic residue [active] 640512012438 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640512012439 Cytochrome c; Region: Cytochrom_C; pfam00034 640512012440 Cytochrome c; Region: Cytochrom_C; pfam00034 640512012441 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 640512012442 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 640512012443 catalytic loop [active] 640512012444 iron binding site [ion binding]; other site 640512012445 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 640512012446 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 640512012447 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640512012448 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 640512012449 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640512012450 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640512012451 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 640512012452 ABC1 family; Region: ABC1; cl17513 640512012453 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 640512012454 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 640512012455 homodimer interface [polypeptide binding]; other site 640512012456 NAD binding pocket [chemical binding]; other site 640512012457 ATP binding pocket [chemical binding]; other site 640512012458 Mg binding site [ion binding]; other site 640512012459 active-site loop [active] 640512012460 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 640512012461 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 640512012462 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 640512012463 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cd11377 640512012464 peptidase domain interface [polypeptide binding]; other site 640512012465 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 640512012466 active site 640512012467 catalytic triad [active] 640512012468 calcium binding site [ion binding]; other site 640512012469 Domain of unknown function (DUF1993); Region: DUF1993; pfam09351 640512012470 hypothetical protein; Provisional; Region: PRK02237 640512012471 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 640512012472 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 640512012473 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 640512012474 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 640512012475 putative DNA binding site [nucleotide binding]; other site 640512012476 putative Zn2+ binding site [ion binding]; other site 640512012477 AsnC family; Region: AsnC_trans_reg; pfam01037 640512012478 Organic hydroperoxide reductase [Secondary metabolites biosynthesis, transport and catabolism]; Region: osmC; COG1764 640512012479 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 640512012480 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 640512012481 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 640512012482 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 640512012483 active site 640512012484 LssY C-terminus; Region: LssY_C; pfam14067 640512012485 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 640512012486 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 640512012487 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 640512012488 Paraquat-inducible protein A; Region: PqiA; pfam04403 640512012489 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 640512012490 Paraquat-inducible protein A; Region: PqiA; pfam04403 640512012491 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 640512012492 mce related protein; Region: MCE; pfam02470 640512012493 mce related protein; Region: MCE; pfam02470 640512012494 mce related protein; Region: MCE; pfam02470 640512012495 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 640512012496 Protein of unknown function (DUF330); Region: DUF330; pfam03886 640512012497 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 640512012498 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 640512012499 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640512012500 dimer interface [polypeptide binding]; other site 640512012501 putative CheW interface [polypeptide binding]; other site 640512012502 Helix-turn-helix domain; Region: HTH_18; pfam12833 640512012503 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 640512012504 classical (c) SDRs; Region: SDR_c; cd05233 640512012505 NAD(P) binding site [chemical binding]; other site 640512012506 active site 640512012507 permease, urea carboxylase system; Region: ureacarb_perm; TIGR03428 640512012508 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 640512012509 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512012510 putative substrate translocation pore; other site 640512012511 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512012512 putative substrate translocation pore; other site 640512012513 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 640512012514 hypothetical protein; Validated; Region: PRK06201 640512012515 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 640512012516 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640512012517 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 640512012518 DNA-binding site [nucleotide binding]; DNA binding site 640512012519 FCD domain; Region: FCD; pfam07729 640512012520 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 640512012521 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 640512012522 active site 640512012523 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512012524 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512012525 The 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 640512012526 dimerization interface [polypeptide binding]; other site 640512012527 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 640512012528 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 640512012529 motif II; other site 640512012530 hypothetical protein; Provisional; Region: PRK06486 640512012531 intersubunit interface [polypeptide binding]; other site 640512012532 active site 640512012533 Zn2+ binding site [ion binding]; other site 640512012534 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640512012535 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640512012536 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 640512012537 HlyD family secretion protein; Region: HlyD_3; pfam13437 640512012538 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 640512012539 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 640512012540 Walker A/P-loop; other site 640512012541 ATP binding site [chemical binding]; other site 640512012542 Q-loop/lid; other site 640512012543 ABC transporter signature motif; other site 640512012544 Walker B; other site 640512012545 D-loop; other site 640512012546 H-loop/switch region; other site 640512012547 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 640512012548 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 640512012549 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 640512012550 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 640512012551 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640512012552 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 640512012553 Phasin protein; Region: Phasin_2; pfam09361 640512012554 Sugar-transfer associated ATP-grasp; Region: ATPgrasp_ST; pfam14397 640512012555 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 640512012556 Bacterial sugar transferase; Region: Bac_transf; pfam02397 640512012557 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 640512012558 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 640512012559 Substrate binding site; other site 640512012560 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 640512012561 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 640512012562 O-Antigen ligase; Region: Wzy_C; pfam04932 640512012563 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 640512012564 active site 640512012565 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640512012566 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 640512012567 putative ADP-binding pocket [chemical binding]; other site 640512012568 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 640512012569 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 640512012570 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 640512012571 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 640512012572 active site 640512012573 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640512012574 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 640512012575 Chain length determinant protein; Region: Wzz; pfam02706 640512012576 tyrosine kinase; Provisional; Region: PRK11519 640512012577 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 640512012578 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 640512012579 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 640512012580 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640512012581 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 640512012582 conserved cys residue [active] 640512012583 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512012584 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512012585 TupA-like ATPgrasp; Region: ATPgrasp_TupA; pfam14305 640512012586 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 640512012587 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 640512012588 Subunit I/III interface [polypeptide binding]; other site 640512012589 Subunit III/IV interface [polypeptide binding]; other site 640512012590 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 640512012591 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 640512012592 D-pathway; other site 640512012593 Putative ubiquinol binding site [chemical binding]; other site 640512012594 Low-spin heme (heme b) binding site [chemical binding]; other site 640512012595 Putative water exit pathway; other site 640512012596 Binuclear center (heme o3/CuB) [ion binding]; other site 640512012597 K-pathway; other site 640512012598 Putative proton exit pathway; other site 640512012599 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 640512012600 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 640512012601 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 640512012602 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640512012603 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640512012604 DNA binding site [nucleotide binding] 640512012605 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 640512012606 putative ligand binding site [chemical binding]; other site 640512012607 putative dimerization interface [polypeptide binding]; other site 640512012608 D-galactonate transporter; Region: 2A0114; TIGR00893 640512012609 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512012610 putative substrate translocation pore; other site 640512012611 hypothetical protein; Validated; Region: PRK08245 640512012612 dihydroxy-acid dehydratase; Validated; Region: PRK06131 640512012613 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 640512012614 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640512012615 Bacterial transcriptional regulator; Region: IclR; pfam01614 640512012616 benzoate transport; Region: 2A0115; TIGR00895 640512012617 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512012618 putative substrate translocation pore; other site 640512012619 Amidohydrolase; Region: Amidohydro_2; pfam04909 640512012620 hypothetical protein; Provisional; Region: PRK09262 640512012621 hypothetical protein; Validated; Region: PRK06201 640512012622 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 640512012623 Domain of unknown function (DUF1932); Region: DUF1932; pfam09130 640512012624 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512012625 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512012626 The 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 640512012627 dimerization interface [polypeptide binding]; other site 640512012628 hypothetical protein; Provisional; Region: PRK07079 640512012629 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_2; cd05679 640512012630 metal binding site [ion binding]; metal-binding site 640512012631 putative dimer interface [polypeptide binding]; other site 640512012632 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512012633 metabolite-proton symporter; Region: 2A0106; TIGR00883 640512012634 putative substrate translocation pore; other site 640512012635 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 640512012636 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640512012637 catalytic residue [active] 640512012638 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 640512012639 Cupin domain; Region: Cupin_2; cl17218 640512012640 Cupin domain; Region: Cupin_2; cl17218 640512012641 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640512012642 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 640512012643 trimer interface [polypeptide binding]; other site 640512012644 eyelet of channel; other site 640512012645 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4102 640512012646 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 640512012647 RNA polymerase sigma factor; Reviewed; Region: PRK05602 640512012648 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640512012649 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 640512012650 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 640512012651 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 640512012652 hexamer interface [polypeptide binding]; other site 640512012653 ligand binding site [chemical binding]; other site 640512012654 putative active site [active] 640512012655 NAD(P) binding site [chemical binding]; other site 640512012656 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 640512012657 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512012658 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 640512012659 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 640512012660 FtsX-like permease family; Region: FtsX; pfam02687 640512012661 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 640512012662 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 640512012663 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 640512012664 Walker A/P-loop; other site 640512012665 ATP binding site [chemical binding]; other site 640512012666 Q-loop/lid; other site 640512012667 ABC transporter signature motif; other site 640512012668 Walker B; other site 640512012669 D-loop; other site 640512012670 H-loop/switch region; other site 640512012671 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 640512012672 HlyD family secretion protein; Region: HlyD_3; pfam13437 640512012673 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 640512012674 putative DNA binding site [nucleotide binding]; other site 640512012675 dimerization interface [polypeptide binding]; other site 640512012676 putative Zn2+ binding site [ion binding]; other site 640512012677 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 640512012678 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 640512012679 FMN binding site [chemical binding]; other site 640512012680 active site 640512012681 substrate binding site [chemical binding]; other site 640512012682 catalytic residue [active] 640512012683 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640512012684 Coenzyme A binding pocket [chemical binding]; other site 640512012685 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 640512012686 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 640512012687 GAF domain; Region: GAF; pfam01590 640512012688 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 640512012689 putative active site [active] 640512012690 heme pocket [chemical binding]; other site 640512012691 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640512012692 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 640512012693 dimer interface [polypeptide binding]; other site 640512012694 phosphorylation site [posttranslational modification] 640512012695 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512012696 ATP binding site [chemical binding]; other site 640512012697 Mg2+ binding site [ion binding]; other site 640512012698 G-X-G motif; other site 640512012699 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 640512012700 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512012701 active site 640512012702 phosphorylation site [posttranslational modification] 640512012703 intermolecular recognition site; other site 640512012704 dimerization interface [polypeptide binding]; other site 640512012705 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 640512012706 Low affinity iron permease; Region: Iron_permease; pfam04120 640512012707 Putative ParB-like nuclease; Region: ParBc_2; cl17538 640512012708 Uncharacterized conserved protein [Function unknown]; Region: COG3791 640512012709 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 640512012710 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 640512012711 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640512012712 putative ADP-binding pocket [chemical binding]; other site 640512012713 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 640512012714 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 640512012715 putative dimer interface [polypeptide binding]; other site 640512012716 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 640512012717 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 640512012718 putative dimer interface [polypeptide binding]; other site 640512012719 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 640512012720 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 640512012721 putative active site [active] 640512012722 heme pocket [chemical binding]; other site 640512012723 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 640512012724 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 640512012725 putative active site [active] 640512012726 heme pocket [chemical binding]; other site 640512012727 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 640512012728 dimer interface [polypeptide binding]; other site 640512012729 phosphorylation site [posttranslational modification] 640512012730 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512012731 ATP binding site [chemical binding]; other site 640512012732 Mg2+ binding site [ion binding]; other site 640512012733 G-X-G motif; other site 640512012734 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 640512012735 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512012736 active site 640512012737 phosphorylation site [posttranslational modification] 640512012738 intermolecular recognition site; other site 640512012739 dimerization interface [polypeptide binding]; other site 640512012740 Response regulator receiver domain; Region: Response_reg; pfam00072 640512012741 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512012742 active site 640512012743 phosphorylation site [posttranslational modification] 640512012744 intermolecular recognition site; other site 640512012745 dimerization interface [polypeptide binding]; other site 640512012746 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 640512012747 Cytochrome c; Region: Cytochrom_C; pfam00034 640512012748 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 640512012749 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 640512012750 D-pathway; other site 640512012751 Putative ubiquinol binding site [chemical binding]; other site 640512012752 Low-spin heme (heme b) binding site [chemical binding]; other site 640512012753 Putative water exit pathway; other site 640512012754 Binuclear center (heme o3/CuB) [ion binding]; other site 640512012755 K-pathway; other site 640512012756 Putative proton exit pathway; other site 640512012757 Cytochrome c oxidase subunit IV; Region: Cyt_c_ox_IV; pfam12270 640512012758 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 640512012759 Subunit I/III interface [polypeptide binding]; other site 640512012760 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 640512012761 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640512012762 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640512012763 Cytochrome c; Region: Cytochrom_C; pfam00034 640512012764 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640512012765 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 640512012766 Coenzyme A binding pocket [chemical binding]; other site 640512012767 Competence-damaged protein; Region: CinA; pfam02464 640512012768 NAD synthetase; Reviewed; Region: nadE; PRK02628 640512012769 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 640512012770 multimer interface [polypeptide binding]; other site 640512012771 active site 640512012772 catalytic triad [active] 640512012773 protein interface 1 [polypeptide binding]; other site 640512012774 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 640512012775 homodimer interface [polypeptide binding]; other site 640512012776 NAD binding pocket [chemical binding]; other site 640512012777 ATP binding pocket [chemical binding]; other site 640512012778 Mg binding site [ion binding]; other site 640512012779 active-site loop [active] 640512012780 Hemerythrin-like domain; Region: Hr-like; cd12108 640512012781 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 640512012782 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 640512012783 putative molybdopterin cofactor binding site [chemical binding]; other site 640512012784 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 640512012785 putative molybdopterin cofactor binding site; other site 640512012786 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 640512012787 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 640512012788 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 640512012789 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 640512012790 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 640512012791 Trp docking motif [polypeptide binding]; other site 640512012792 putative active site [active] 640512012793 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 640512012794 nudix motif; other site 640512012795 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 640512012796 dimerization interface [polypeptide binding]; other site 640512012797 metal binding site [ion binding]; metal-binding site 640512012798 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 640512012799 dimanganese center [ion binding]; other site 640512012800 Phophatidylserine decarboxylase; Region: PSDC; pfam12588 640512012801 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; pfam02666 640512012802 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 640512012803 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 640512012804 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 640512012805 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 640512012806 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 640512012807 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 640512012808 active site 640512012809 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 640512012810 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 640512012811 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640512012812 Walker A/P-loop; other site 640512012813 ATP binding site [chemical binding]; other site 640512012814 Q-loop/lid; other site 640512012815 ABC transporter signature motif; other site 640512012816 Walker B; other site 640512012817 Protein of unknown function (DUF1822); Region: DUF1822; pfam08852 640512012818 D-loop; other site 640512012819 H-loop/switch region; other site 640512012820 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512012821 Response regulator receiver domain; Region: Response_reg; pfam00072 640512012822 active site 640512012823 phosphorylation site [posttranslational modification] 640512012824 intermolecular recognition site; other site 640512012825 dimerization interface [polypeptide binding]; other site 640512012826 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 640512012827 D-inositol-3-phosphate glycosyltransferase; Region: mycothiol_MshA; TIGR03449 640512012828 putative ADP-binding pocket [chemical binding]; other site 640512012829 D,D-heptose 1,7-bisphosphate phosphatase; Region: GmhB_yaeD; TIGR00213 640512012830 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 640512012831 active site 640512012832 motif I; other site 640512012833 motif II; other site 640512012834 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 640512012835 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 640512012836 putative active site [active] 640512012837 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 640512012838 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 640512012839 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 640512012840 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 640512012841 active site 640512012842 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 640512012843 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 640512012844 putative active site [active] 640512012845 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640512012846 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 640512012847 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 640512012848 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 640512012849 NAD binding site [chemical binding]; other site 640512012850 putative substrate binding site 2 [chemical binding]; other site 640512012851 putative substrate binding site 1 [chemical binding]; other site 640512012852 active site 640512012853 DEAD-like helicases superfamily; Region: DEXDc; smart00487 640512012854 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 640512012855 ATP binding site [chemical binding]; other site 640512012856 putative Mg++ binding site [ion binding]; other site 640512012857 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 640512012858 nucleotide binding region [chemical binding]; other site 640512012859 ATP-binding site [chemical binding]; other site 640512012860 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 640512012861 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 640512012862 NAD binding site [chemical binding]; other site 640512012863 catalytic Zn binding site [ion binding]; other site 640512012864 structural Zn binding site [ion binding]; other site 640512012865 CsbD-like; Region: CsbD; cl17424 640512012866 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 640512012867 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 640512012868 N-terminal plug; other site 640512012869 ligand-binding site [chemical binding]; other site 640512012870 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 640512012871 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640512012872 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640512012873 metal binding site [ion binding]; metal-binding site 640512012874 active site 640512012875 I-site; other site 640512012876 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 640512012877 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640512012878 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 640512012879 putative DNA binding site [nucleotide binding]; other site 640512012880 putative Zn2+ binding site [ion binding]; other site 640512012881 Isochorismatase family; Region: Isochorismatase; pfam00857 640512012882 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 640512012883 catalytic triad [active] 640512012884 conserved cis-peptide bond; other site 640512012885 H+ Antiporter protein; Region: 2A0121; TIGR00900 640512012886 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512012887 putative substrate translocation pore; other site 640512012888 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 640512012889 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 640512012890 tetrameric interface [polypeptide binding]; other site 640512012891 NAD binding site [chemical binding]; other site 640512012892 catalytic residues [active] 640512012893 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512012894 metabolite-proton symporter; Region: 2A0106; TIGR00883 640512012895 putative substrate translocation pore; other site 640512012896 MarR family; Region: MarR_2; cl17246 640512012897 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640512012898 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 640512012899 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 640512012900 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 640512012901 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase; Region: HpaE; TIGR02299 640512012902 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 640512012903 NAD binding site [chemical binding]; other site 640512012904 catalytic residues [active] 640512012905 The Class III extradiol dioxygenase, homoprotocatechuate 2,3-dioxygenase, catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate; Region: HPCD; cd07370 640512012906 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 640512012907 putative active site [active] 640512012908 putative metal binding site [ion binding]; other site 640512012909 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 640512012910 putative substrate binding pocket [chemical binding]; other site 640512012911 trimer interface [polypeptide binding]; other site 640512012912 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 640512012913 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 640512012914 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640512012915 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640512012916 metal binding site [ion binding]; metal-binding site 640512012917 active site 640512012918 I-site; other site 640512012919 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 640512012920 Cellulose synthase subunit D; Region: Cellsynth_D; pfam03500 640512012921 cellulose synthase operon protein YhjQ; Region: cellulose_yhjQ; TIGR03371 640512012922 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 640512012923 P-loop; other site 640512012924 Magnesium ion binding site [ion binding]; other site 640512012925 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 640512012926 cellulose synthase catalytic subunit (UDP-forming); Region: CelA; TIGR03030 640512012927 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 640512012928 DXD motif; other site 640512012929 PilZ domain; Region: PilZ; pfam07238 640512012930 cellulose synthase regulator protein; Provisional; Region: PRK11114 640512012931 endo-1,4-D-glucanase; Provisional; Region: PRK11097 640512012932 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 640512012933 binding surface 640512012934 TPR motif; other site 640512012935 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 640512012936 TPR motif; other site 640512012937 binding surface 640512012938 Tetratricopeptide repeat; Region: TPR_16; pfam13432 640512012939 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 640512012940 TPR motif; other site 640512012941 binding surface 640512012942 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 640512012943 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 640512012944 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 640512012945 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 640512012946 PAS fold; Region: PAS_3; pfam08447 640512012947 putative active site [active] 640512012948 heme pocket [chemical binding]; other site 640512012949 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 640512012950 dimer interface [polypeptide binding]; other site 640512012951 phosphorylation site [posttranslational modification] 640512012952 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512012953 ATP binding site [chemical binding]; other site 640512012954 G-X-G motif; other site 640512012955 Response regulator receiver domain; Region: Response_reg; pfam00072 640512012956 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512012957 active site 640512012958 phosphorylation site [posttranslational modification] 640512012959 intermolecular recognition site; other site 640512012960 dimerization interface [polypeptide binding]; other site 640512012961 Response regulator receiver domain; Region: Response_reg; pfam00072 640512012962 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512012963 active site 640512012964 phosphorylation site [posttranslational modification] 640512012965 intermolecular recognition site; other site 640512012966 dimerization interface [polypeptide binding]; other site 640512012967 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 640512012968 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 640512012969 dimerization interface [polypeptide binding]; other site 640512012970 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 640512012971 dimer interface [polypeptide binding]; other site 640512012972 phosphorylation site [posttranslational modification] 640512012973 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512012974 ATP binding site [chemical binding]; other site 640512012975 Mg2+ binding site [ion binding]; other site 640512012976 G-X-G motif; other site 640512012977 osmolarity response regulator; Provisional; Region: ompR; PRK09468 640512012978 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512012979 active site 640512012980 phosphorylation site [posttranslational modification] 640512012981 intermolecular recognition site; other site 640512012982 dimerization interface [polypeptide binding]; other site 640512012983 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 640512012984 DNA binding site [nucleotide binding] 640512012985 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 640512012986 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 640512012987 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640512012988 HlyD family secretion protein; Region: HlyD_3; pfam13437 640512012989 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640512012990 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 640512012991 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 640512012992 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 640512012993 transmembrane helices; other site 640512012994 YceI-like domain; Region: YceI; smart00867 640512012995 Uncharacterized conserved protein [Function unknown]; Region: COG2353 640512012996 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 640512012997 active site 640512012998 DNA polymerase IV; Validated; Region: PRK02406 640512012999 DNA binding site [nucleotide binding] 640512013000 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 640512013001 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 640512013002 dimer interface [polypeptide binding]; other site 640512013003 phosphorylation site [posttranslational modification] 640512013004 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512013005 ATP binding site [chemical binding]; other site 640512013006 Mg2+ binding site [ion binding]; other site 640512013007 G-X-G motif; other site 640512013008 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 640512013009 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512013010 active site 640512013011 phosphorylation site [posttranslational modification] 640512013012 intermolecular recognition site; other site 640512013013 dimerization interface [polypeptide binding]; other site 640512013014 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 640512013015 DNA binding site [nucleotide binding] 640512013016 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640512013017 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 640512013018 HlyD family secretion protein; Region: HlyD_3; pfam13437 640512013019 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 640512013020 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 640512013021 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640512013022 putative metal binding site [ion binding]; other site 640512013023 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512013024 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512013025 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 640512013026 putative dimerization interface [polypeptide binding]; other site 640512013027 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 640512013028 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 640512013029 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 640512013030 Sulfate transporter family; Region: Sulfate_transp; pfam00916 640512013031 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 640512013032 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4320 640512013033 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; pfam10009 640512013034 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 640512013035 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 640512013036 conserved cys residue [active] 640512013037 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 640512013038 active site residue [active] 640512013039 Predicted metalloprotease [General function prediction only]; Region: COG2321 640512013040 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 640512013041 oxalate/formate antiporter; Region: oxa_formateAnti; TIGR04259 640512013042 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512013043 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 640512013044 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 640512013045 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 640512013046 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640512013047 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640512013048 metal binding site [ion binding]; metal-binding site 640512013049 active site 640512013050 I-site; other site 640512013051 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 640512013052 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 640512013053 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 640512013054 dimer interface [polypeptide binding]; other site 640512013055 active site 640512013056 catalytic residue [active] 640512013057 aspartate carbamoyltransferase; Provisional; Region: PRK11891 640512013058 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 640512013059 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 640512013060 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 640512013061 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 640512013062 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512013063 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512013064 The 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 640512013065 dimerization interface [polypeptide binding]; other site 640512013066 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 640512013067 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 640512013068 active site 640512013069 catalytic tetrad [active] 640512013070 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512013071 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 640512013072 putative effector binding pocket; other site 640512013073 putative dimerization interface [polypeptide binding]; other site 640512013074 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640512013075 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 640512013076 dimer interface [polypeptide binding]; other site 640512013077 phosphorylation site [posttranslational modification] 640512013078 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512013079 ATP binding site [chemical binding]; other site 640512013080 Mg2+ binding site [ion binding]; other site 640512013081 G-X-G motif; other site 640512013082 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 640512013083 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 640512013084 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 640512013085 dimer interface [polypeptide binding]; other site 640512013086 active site 640512013087 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 640512013088 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 640512013089 putative NAD(P) binding site [chemical binding]; other site 640512013090 active site 640512013091 putative substrate binding site [chemical binding]; other site 640512013092 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 640512013093 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 640512013094 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512013095 putative substrate translocation pore; other site 640512013096 putative aldolase; Validated; Region: PRK08130 640512013097 intersubunit interface [polypeptide binding]; other site 640512013098 active site 640512013099 Zn2+ binding site [ion binding]; other site 640512013100 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 640512013101 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 640512013102 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 640512013103 Transcriptional regulators [Transcription]; Region: FadR; COG2186 640512013104 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640512013105 DNA-binding site [nucleotide binding]; DNA binding site 640512013106 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 640512013107 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 640512013108 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 640512013109 Bacterial transcriptional regulator; Region: IclR; pfam01614 640512013110 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 640512013111 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 640512013112 metal binding site [ion binding]; metal-binding site 640512013113 putative dimer interface [polypeptide binding]; other site 640512013114 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 640512013115 active site 640512013116 HAMP domain; Region: HAMP; pfam00672 640512013117 dimerization interface [polypeptide binding]; other site 640512013118 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640512013119 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640512013120 metal binding site [ion binding]; metal-binding site 640512013121 active site 640512013122 I-site; other site 640512013123 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 640512013124 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 640512013125 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional; Region: PRK15010 640512013126 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 640512013127 substrate binding pocket [chemical binding]; other site 640512013128 membrane-bound complex binding site; other site 640512013129 hinge residues; other site 640512013130 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 640512013131 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 640512013132 active site 640512013133 Zn binding site [ion binding]; other site 640512013134 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 640512013135 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 640512013136 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640512013137 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 640512013138 trimer interface [polypeptide binding]; other site 640512013139 eyelet of channel; other site 640512013140 Methyltransferase domain; Region: Methyltransf_23; pfam13489 640512013141 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 640512013142 S-adenosylmethionine binding site [chemical binding]; other site 640512013143 PPOX class probable FMN-dependent enzyme, DR_2398 family; Region: PPOX_FMN_DR2398; TIGR04025 640512013144 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 640512013145 active site 640512013146 metal binding site [ion binding]; metal-binding site 640512013147 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512013148 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 640512013149 putative effector binding pocket; other site 640512013150 putative dimerization interface [polypeptide binding]; other site 640512013151 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 640512013152 tartrate dehydrogenase; Region: TTC; TIGR02089 640512013153 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 640512013154 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512013155 putative substrate translocation pore; other site 640512013156 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 640512013157 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 640512013158 choline dehydrogenase; Validated; Region: PRK02106 640512013159 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 640512013160 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 640512013161 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640512013162 NAD binding site [chemical binding]; other site 640512013163 catalytic residues [active] 640512013164 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 640512013165 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512013166 dimer interface [polypeptide binding]; other site 640512013167 conserved gate region; other site 640512013168 putative PBP binding loops; other site 640512013169 ABC-ATPase subunit interface; other site 640512013170 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512013171 dimer interface [polypeptide binding]; other site 640512013172 conserved gate region; other site 640512013173 putative PBP binding loops; other site 640512013174 ABC-ATPase subunit interface; other site 640512013175 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 640512013176 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640512013177 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 640512013178 Haloacid dehalogenase superfamily, subfamily IA, variant 2 with 3rd motif like haloacid dehalogenase; Region: HAD-SF-IA-v2; TIGR01493 640512013179 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 640512013180 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640512013181 Walker A/P-loop; other site 640512013182 ATP binding site [chemical binding]; other site 640512013183 Q-loop/lid; other site 640512013184 ABC transporter signature motif; other site 640512013185 Walker B; other site 640512013186 D-loop; other site 640512013187 H-loop/switch region; other site 640512013188 TOBE domain; Region: TOBE_2; pfam08402 640512013189 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 640512013190 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512013191 The 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 640512013192 dimerization interface [polypeptide binding]; other site 640512013193 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 640512013194 Putative zinc-finger; Region: zf-HC2; pfam13490 640512013195 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 640512013196 putative heme binding pocket [chemical binding]; other site 640512013197 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 640512013198 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640512013199 RNA polymerase sigma factor, SigM family; Region: SigM_subfam; TIGR02950 640512013200 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 640512013201 DNA binding residues [nucleotide binding] 640512013202 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 640512013203 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 640512013204 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 640512013205 Catalytic domain of Protein Kinases; Region: PKc; cd00180 640512013206 active site 640512013207 ATP binding site [chemical binding]; other site 640512013208 substrate binding site [chemical binding]; other site 640512013209 activation loop (A-loop); other site 640512013210 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 640512013211 Protein phosphatase 2C; Region: PP2C; pfam00481 640512013212 active site 640512013213 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; pfam09867 640512013214 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 640512013215 AAA domain; Region: AAA_17; pfam13207 640512013216 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 640512013217 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 640512013218 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 640512013219 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640512013220 ligand binding site [chemical binding]; other site 640512013221 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 640512013222 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 640512013223 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 640512013224 phosphopeptide binding site; other site 640512013225 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 640512013226 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 640512013227 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 640512013228 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 640512013229 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 640512013230 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 640512013231 Walker A motif; other site 640512013232 ATP binding site [chemical binding]; other site 640512013233 Walker B motif; other site 640512013234 arginine finger; other site 640512013235 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 640512013236 Walker A motif; other site 640512013237 ATP binding site [chemical binding]; other site 640512013238 Walker B motif; other site 640512013239 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 640512013240 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 640512013241 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 640512013242 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 640512013243 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 640512013244 Protein of unknown function (DUF796); Region: DUF796; pfam05638 640512013245 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517 640512013246 Protein of unknown function (DUF877); Region: DUF877; pfam05943 640512013247 Protein of unknown function (DUF770); Region: DUF770; pfam05591 640512013248 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 640512013249 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 640512013250 dimerization interface [polypeptide binding]; other site 640512013251 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 640512013252 Catalytic domain of Protein Kinases; Region: PKc; cd00180 640512013253 active site 640512013254 ATP binding site [chemical binding]; other site 640512013255 substrate binding site [chemical binding]; other site 640512013256 activation loop (A-loop); other site 640512013257 Ketopantoate reductase [Coenzyme metabolism]; Region: ApbA; COG1893 640512013258 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 640512013259 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 640512013260 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 640512013261 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512013262 active site 640512013263 phosphorylation site [posttranslational modification] 640512013264 intermolecular recognition site; other site 640512013265 dimerization interface [polypeptide binding]; other site 640512013266 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 640512013267 DNA binding residues [nucleotide binding] 640512013268 dimerization interface [polypeptide binding]; other site 640512013269 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 640512013270 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640512013271 Uncharacterized conserved protein [Function unknown]; Region: COG5476 640512013272 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 640512013273 MlrC C-terminus; Region: MlrC_C; pfam07171 640512013274 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640512013275 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640512013276 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 640512013277 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640512013278 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 640512013279 DNA binding residues [nucleotide binding] 640512013280 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512013281 ATP binding site [chemical binding]; other site 640512013282 Mg2+ binding site [ion binding]; other site 640512013283 G-X-G motif; other site 640512013284 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 640512013285 BON domain; Region: BON; cl02771 640512013286 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640512013287 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 640512013288 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512013289 ATP binding site [chemical binding]; other site 640512013290 Mg2+ binding site [ion binding]; other site 640512013291 G-X-G motif; other site 640512013292 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 640512013293 homodimer interface [polypeptide binding]; other site 640512013294 catalytic residues [active] 640512013295 NAD binding site [chemical binding]; other site 640512013296 substrate binding pocket [chemical binding]; other site 640512013297 flexible flap; other site 640512013298 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 640512013299 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640512013300 DNA-binding site [nucleotide binding]; DNA binding site 640512013301 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 640512013302 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640512013303 homodimer interface [polypeptide binding]; other site 640512013304 catalytic residue [active] 640512013305 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512013306 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640512013307 putative substrate translocation pore; other site 640512013308 short chain dehydrogenase; Provisional; Region: PRK06180 640512013309 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 640512013310 NADP binding site [chemical binding]; other site 640512013311 active site 640512013312 steroid binding site; other site 640512013313 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640512013314 Outer membrane efflux protein; Region: OEP; pfam02321 640512013315 Outer membrane efflux protein; Region: OEP; pfam02321 640512013316 HlyD family secretion protein; Region: HlyD_2; pfam12700 640512013317 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 640512013318 E3 interaction surface; other site 640512013319 lipoyl attachment site [posttranslational modification]; other site 640512013320 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 640512013321 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 640512013322 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 640512013323 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512013324 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512013325 The 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 640512013326 dimerization interface [polypeptide binding]; other site 640512013327 EthD domain; Region: EthD; cl17553 640512013328 Uncharacterized enzymes similar to novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like-2; cd12809 640512013329 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640512013330 catalytic site [active] 640512013331 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 640512013332 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 640512013333 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512013334 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512013335 The 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 640512013336 dimerization interface [polypeptide binding]; other site 640512013337 atypical (a) SDRs, subgroup 3; Region: SDR_a3; cd05229 640512013338 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 640512013339 putative NAD(P) binding site [chemical binding]; other site 640512013340 putative active site [active] 640512013341 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512013342 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512013343 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 640512013344 putative effector binding pocket; other site 640512013345 putative dimerization interface [polypeptide binding]; other site 640512013346 short chain dehydrogenase; Provisional; Region: PRK06482 640512013347 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 640512013348 NADP binding site [chemical binding]; other site 640512013349 active site 640512013350 steroid binding site; other site 640512013351 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640512013352 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512013353 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 640512013354 dimerization interface [polypeptide binding]; other site 640512013355 substrate binding pocket [chemical binding]; other site 640512013356 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 640512013357 EamA-like transporter family; Region: EamA; pfam00892 640512013358 NmrA (a transcriptional regulator) and HSCARG (an NADPH sensor) like proteins, atypical (a) SDRs; Region: NmrA_like_SDR_a; cd05251 640512013359 NmrA-like family; Region: NmrA; pfam05368 640512013360 NADP binding site [chemical binding]; other site 640512013361 active site 640512013362 regulatory binding site [polypeptide binding]; other site 640512013363 haemagglutination activity domain; Region: Haemagg_act; cl05436 640512013364 haemagglutination activity domain; Region: Haemagg_act; smart00912 640512013365 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 640512013366 EamA-like transporter family; Region: EamA; pfam00892 640512013367 EamA-like transporter family; Region: EamA; pfam00892 640512013368 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 640512013369 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 640512013370 phosphate binding site [ion binding]; other site 640512013371 benzoate transport; Region: 2A0115; TIGR00895 640512013372 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512013373 putative substrate translocation pore; other site 640512013374 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512013375 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640512013376 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 640512013377 NAD(P) binding site [chemical binding]; other site 640512013378 catalytic residues [active] 640512013379 benzoylformate decarboxylase; Reviewed; Region: PRK07092 640512013380 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 640512013381 PYR/PP interface [polypeptide binding]; other site 640512013382 dimer interface [polypeptide binding]; other site 640512013383 TPP binding site [chemical binding]; other site 640512013384 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 640512013385 Thiamine pyrophosphate (TPP) family, BFDC subfamily, TPP-binding module; composed of proteins similar to Pseudomonas putida benzoylformate decarboxylase (BFDC). P. putida BFDC plays a role in the mandelate pathway, catalyzing the conversion of...; Region: TPP_BFDC; cd02002 640512013386 TPP-binding site [chemical binding]; other site 640512013387 dimer interface [polypeptide binding]; other site 640512013388 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512013389 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512013390 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 640512013391 putative dimerization interface [polypeptide binding]; other site 640512013392 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 640512013393 homodimer interface [polypeptide binding]; other site 640512013394 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 640512013395 active site pocket [active] 640512013396 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512013397 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512013398 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 640512013399 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 640512013400 tetramer interface [polypeptide binding]; other site 640512013401 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640512013402 catalytic residue [active] 640512013403 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 640512013404 Peptidase family M23; Region: Peptidase_M23; pfam01551 640512013405 Cupin domain; Region: Cupin_2; cl17218 640512013406 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 640512013407 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640512013408 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 640512013409 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 640512013410 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 640512013411 Protein of unknown function (DUF938); Region: DUF938; pfam06080 640512013412 Methyltransferase domain; Region: Methyltransf_23; pfam13489 640512013413 NAD-dependent deacetylase; Provisional; Region: PRK05333 640512013414 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 640512013415 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 640512013416 classical (c) SDRs; Region: SDR_c; cd05233 640512013417 NAD(P) binding site [chemical binding]; other site 640512013418 active site 640512013419 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 640512013420 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 640512013421 NodB motif; other site 640512013422 active site 640512013423 catalytic site [active] 640512013424 metal binding site [ion binding]; metal-binding site 640512013425 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4320 640512013426 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; pfam10009 640512013427 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 640512013428 flagellar motor protein MotA; Validated; Region: PRK09110 640512013429 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 640512013430 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 640512013431 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640512013432 ligand binding site [chemical binding]; other site 640512013433 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 640512013434 putative catalytic site [active] 640512013435 putative phosphate binding site [ion binding]; other site 640512013436 active site 640512013437 metal binding site A [ion binding]; metal-binding site 640512013438 DNA binding site [nucleotide binding] 640512013439 putative AP binding site [nucleotide binding]; other site 640512013440 putative metal binding site B [ion binding]; other site 640512013441 3HB-oligomer hydrolase (3HBOH); Region: 3HBOH; pfam10605 640512013442 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 640512013443 catalytic loop [active] 640512013444 iron binding site [ion binding]; other site 640512013445 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 640512013446 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 640512013447 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 640512013448 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 640512013449 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 640512013450 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640512013451 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 640512013452 metal-binding site 640512013453 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 640512013454 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12650 640512013455 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 640512013456 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640512013457 catalytic residue [active] 640512013458 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 640512013459 phosphonopyruvate decarboxylase; Region: Ppyr-DeCO2ase; TIGR03297 640512013460 PYR/PP interface [polypeptide binding]; other site 640512013461 dimer interface [polypeptide binding]; other site 640512013462 TPP binding site [chemical binding]; other site 640512013463 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 640512013464 TPP-binding site; other site 640512013465 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 640512013466 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 640512013467 tetramer interface [polypeptide binding]; other site 640512013468 active site 640512013469 Mg2+/Mn2+ binding site [ion binding]; other site 640512013470 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 640512013471 active site 640512013472 metal-binding site 640512013473 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 640512013474 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 640512013475 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 640512013476 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640512013477 dimer interface [polypeptide binding]; other site 640512013478 putative CheW interface [polypeptide binding]; other site 640512013479 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 640512013480 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 640512013481 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 640512013482 Protein of unknown function, DUF484; Region: DUF484; cl17449 640512013483 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640512013484 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640512013485 metal binding site [ion binding]; metal-binding site 640512013486 active site 640512013487 I-site; other site 640512013488 Protein of unknown function (DUF2866); Region: DUF2866; pfam11065 640512013489 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 640512013490 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 640512013491 putative catalytic residue [active] 640512013492 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 640512013493 Uncharacterized conserved protein [Function unknown]; Region: COG1739 640512013494 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 640512013495 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 640512013496 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 640512013497 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 640512013498 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 640512013499 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 640512013500 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640512013501 Pseudomonas fluorescens 4-hydroxymuconic semialdehyde dehydrogenase-like; Region: ALDH_HMSADH_HapE; cd07115 640512013502 NAD(P) binding site [chemical binding]; other site 640512013503 catalytic residues [active] 640512013504 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512013505 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512013506 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 640512013507 putative dimerization interface [polypeptide binding]; other site 640512013508 oxalate/formate antiporter; Region: oxa_formateAnti; TIGR04259 640512013509 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512013510 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512013511 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 640512013512 putative dimerization interface [polypeptide binding]; other site 640512013513 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 640512013514 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 640512013515 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 640512013516 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 640512013517 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 640512013518 CoA binding domain; Region: CoA_binding_2; pfam13380 640512013519 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 640512013520 formyl-coenzyme A transferase; Provisional; Region: PRK05398 640512013521 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640512013522 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 640512013523 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 640512013524 PYR/PP interface [polypeptide binding]; other site 640512013525 dimer interface [polypeptide binding]; other site 640512013526 TPP binding site [chemical binding]; other site 640512013527 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 640512013528 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 640512013529 TPP-binding site; other site 640512013530 dimer interface [polypeptide binding]; other site 640512013531 Transcriptional regulators [Transcription]; Region: GntR; COG1802 640512013532 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640512013533 DNA-binding site [nucleotide binding]; DNA binding site 640512013534 FCD domain; Region: FCD; pfam07729 640512013535 shikimate transporter; Provisional; Region: PRK09952 640512013536 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512013537 putative substrate translocation pore; other site 640512013538 YadA-like C-terminal region; Region: YadA; pfam03895 640512013539 Protein of unknown function (DUF3830); Region: DUF3830; pfam12903 640512013540 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 640512013541 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512013542 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512013543 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 640512013544 Autoinducer binding domain; Region: Autoind_bind; pfam03472 640512013545 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 640512013546 DNA binding residues [nucleotide binding] 640512013547 dimerization interface [polypeptide binding]; other site 640512013548 ABC-2 type transporter; Region: ABC2_membrane; cl17235 640512013549 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 640512013550 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 640512013551 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 640512013552 Walker A/P-loop; other site 640512013553 ATP binding site [chemical binding]; other site 640512013554 Q-loop/lid; other site 640512013555 ABC transporter signature motif; other site 640512013556 Walker B; other site 640512013557 D-loop; other site 640512013558 H-loop/switch region; other site 640512013559 Tannase and feruloyl esterase; Region: Tannase; pfam07519 640512013560 OpgC protein; Region: OpgC_C; pfam10129 640512013561 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 640512013562 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 640512013563 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 640512013564 Walker A motif; other site 640512013565 ATP binding site [chemical binding]; other site 640512013566 Walker B motif; other site 640512013567 arginine finger; other site 640512013568 Peptidase family M41; Region: Peptidase_M41; pfam01434 640512013569 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 640512013570 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640512013571 Walker A/P-loop; other site 640512013572 ATP binding site [chemical binding]; other site 640512013573 Q-loop/lid; other site 640512013574 ABC transporter signature motif; other site 640512013575 Walker B; other site 640512013576 D-loop; other site 640512013577 H-loop/switch region; other site 640512013578 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 640512013579 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 640512013580 putative NAD(P) binding site [chemical binding]; other site 640512013581 Tetratricopeptide repeat; Region: TPR_16; pfam13432 640512013582 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 640512013583 binding surface 640512013584 TPR motif; other site 640512013585 TPR repeat; Region: TPR_11; pfam13414 640512013586 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 640512013587 binding surface 640512013588 TPR motif; other site 640512013589 ADP-heptose:LPS heptosyl transferase I; Provisional; Region: PRK10964; cl15782 640512013590 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 640512013591 metal-binding site [ion binding] 640512013592 Domain of unknown function (DUF305); Region: DUF305; cl17794 640512013593 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 640512013594 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 640512013595 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 640512013596 substrate binding site [chemical binding]; other site 640512013597 ligand binding site [chemical binding]; other site 640512013598 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 640512013599 substrate binding site [chemical binding]; other site 640512013600 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 640512013601 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 640512013602 dimer interface [polypeptide binding]; other site 640512013603 active site 640512013604 citrylCoA binding site [chemical binding]; other site 640512013605 oxalacetate/citrate binding site [chemical binding]; other site 640512013606 coenzyme A binding site [chemical binding]; other site 640512013607 catalytic triad [active] 640512013608 Propionate catabolism activator; Region: PrpR_N; pfam06506 640512013609 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 640512013610 PAS domain; Region: PAS; smart00091 640512013611 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 640512013612 Walker A motif; other site 640512013613 ATP binding site [chemical binding]; other site 640512013614 Walker B motif; other site 640512013615 arginine finger; other site 640512013616 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 640512013617 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 640512013618 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512013619 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640512013620 hydroxyglutarate oxidase; Provisional; Region: PRK11728 640512013621 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 640512013622 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 640512013623 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 640512013624 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 640512013625 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 640512013626 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 640512013627 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640512013628 Walker A/P-loop; other site 640512013629 ATP binding site [chemical binding]; other site 640512013630 Q-loop/lid; other site 640512013631 ABC transporter signature motif; other site 640512013632 Walker B; other site 640512013633 D-loop; other site 640512013634 H-loop/switch region; other site 640512013635 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640512013636 Walker A/P-loop; other site 640512013637 ATP binding site [chemical binding]; other site 640512013638 Q-loop/lid; other site 640512013639 ABC transporter signature motif; other site 640512013640 Walker B; other site 640512013641 D-loop; other site 640512013642 H-loop/switch region; other site 640512013643 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640512013644 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 640512013645 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512013646 dimer interface [polypeptide binding]; other site 640512013647 conserved gate region; other site 640512013648 ABC-ATPase subunit interface; other site 640512013649 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 640512013650 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512013651 dimer interface [polypeptide binding]; other site 640512013652 conserved gate region; other site 640512013653 putative PBP binding loops; other site 640512013654 ABC-ATPase subunit interface; other site 640512013655 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 640512013656 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 640512013657 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 640512013658 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640512013659 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 640512013660 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 640512013661 motif II; other site 640512013662 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640512013663 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 640512013664 NAD(P) binding site [chemical binding]; other site 640512013665 catalytic residues [active] 640512013666 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 640512013667 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 640512013668 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 640512013669 putative ligand binding site [chemical binding]; other site 640512013670 NAD binding site [chemical binding]; other site 640512013671 dimerization interface [polypeptide binding]; other site 640512013672 catalytic site [active] 640512013673 hypothetical protein; Provisional; Region: PRK05965 640512013674 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 640512013675 inhibitor-cofactor binding pocket; inhibition site 640512013676 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640512013677 catalytic residue [active] 640512013678 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 640512013679 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 640512013680 putative DNA binding site [nucleotide binding]; other site 640512013681 putative Zn2+ binding site [ion binding]; other site 640512013682 AsnC family; Region: AsnC_trans_reg; pfam01037 640512013683 transcriptional activator TtdR; Provisional; Region: PRK09801 640512013684 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512013685 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 640512013686 putative effector binding pocket; other site 640512013687 putative dimerization interface [polypeptide binding]; other site 640512013688 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 640512013689 tartrate dehydrogenase; Region: TTC; TIGR02089 640512013690 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_7; cd06910 640512013691 putative active site [active] 640512013692 Zn binding site [ion binding]; other site 640512013693 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 640512013694 benzoate transport; Region: 2A0115; TIGR00895 640512013695 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512013696 putative substrate translocation pore; other site 640512013697 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512013698 succinic semialdehyde dehydrogenase; Region: PLN02278 640512013699 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 640512013700 tetramerization interface [polypeptide binding]; other site 640512013701 NAD(P) binding site [chemical binding]; other site 640512013702 catalytic residues [active] 640512013703 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 640512013704 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 640512013705 motif II; other site 640512013706 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512013707 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512013708 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 640512013709 dimerization interface [polypeptide binding]; other site 640512013710 substrate binding pocket [chemical binding]; other site 640512013711 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 640512013712 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512013713 putative substrate translocation pore; other site 640512013714 Amidohydrolase; Region: Amidohydro_2; pfam04909 640512013715 hypothetical protein; Validated; Region: PRK06201 640512013716 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 640512013717 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 640512013718 Flp/Fap pilin component; Region: Flp_Fap; pfam04964 640512013719 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 640512013720 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 640512013721 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 640512013722 Walker A motif; other site 640512013723 ATP binding site [chemical binding]; other site 640512013724 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 640512013725 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 640512013726 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 640512013727 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 640512013728 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 640512013729 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 640512013730 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 640512013731 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 640512013732 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 640512013733 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 640512013734 ATP binding site [chemical binding]; other site 640512013735 Walker A motif; other site 640512013736 hexamer interface [polypeptide binding]; other site 640512013737 Walker B motif; other site 640512013738 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 640512013739 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 640512013740 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 640512013741 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 640512013742 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 640512013743 TadE-like protein; Region: TadE; pfam07811 640512013744 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 640512013745 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 640512013746 Protein of unknown function (DUF3005); Region: DUF3005; pfam11448 640512013747 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 640512013748 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 640512013749 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640512013750 Walker A/P-loop; other site 640512013751 ATP binding site [chemical binding]; other site 640512013752 Q-loop/lid; other site 640512013753 ABC transporter signature motif; other site 640512013754 Walker B; other site 640512013755 D-loop; other site 640512013756 H-loop/switch region; other site 640512013757 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640512013758 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512013759 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 640512013760 dimerization interface [polypeptide binding]; other site 640512013761 substrate binding pocket [chemical binding]; other site 640512013762 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640512013763 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640512013764 NAD(P) binding site [chemical binding]; other site 640512013765 active site 640512013766 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 640512013767 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512013768 putative substrate translocation pore; other site 640512013769 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 640512013770 TPP-binding site [chemical binding]; other site 640512013771 dimer interface [polypeptide binding]; other site 640512013772 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 640512013773 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 640512013774 PYR/PP interface [polypeptide binding]; other site 640512013775 dimer interface [polypeptide binding]; other site 640512013776 TPP binding site [chemical binding]; other site 640512013777 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 640512013778 selenophosphate synthetase; Provisional; Region: PRK00943 640512013779 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 640512013780 dimerization interface [polypeptide binding]; other site 640512013781 putative ATP binding site [chemical binding]; other site 640512013782 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 640512013783 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 640512013784 active site residue [active] 640512013785 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 640512013786 Predicted permease; Region: DUF318; cl17795 640512013787 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640512013788 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512013789 putative substrate translocation pore; other site 640512013790 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 640512013791 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640512013792 DNA-binding site [nucleotide binding]; DNA binding site 640512013793 UTRA domain; Region: UTRA; pfam07702 640512013794 benzoate transport; Region: 2A0115; TIGR00895 640512013795 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512013796 putative substrate translocation pore; other site 640512013797 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 640512013798 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 640512013799 active site 640512013800 Uncharacterized conserved protein [Function unknown]; Region: COG5476 640512013801 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 640512013802 MlrC C-terminus; Region: MlrC_C; pfam07171 640512013803 allantoate amidohydrolase; Reviewed; Region: PRK12893 640512013804 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 640512013805 active site 640512013806 metal binding site [ion binding]; metal-binding site 640512013807 dimer interface [polypeptide binding]; other site 640512013808 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 640512013809 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 640512013810 Walker A/P-loop; other site 640512013811 ATP binding site [chemical binding]; other site 640512013812 Q-loop/lid; other site 640512013813 ABC transporter signature motif; other site 640512013814 Walker B; other site 640512013815 D-loop; other site 640512013816 H-loop/switch region; other site 640512013817 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 640512013818 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 640512013819 Walker A/P-loop; other site 640512013820 ATP binding site [chemical binding]; other site 640512013821 Q-loop/lid; other site 640512013822 ABC transporter signature motif; other site 640512013823 Walker B; other site 640512013824 D-loop; other site 640512013825 H-loop/switch region; other site 640512013826 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 640512013827 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 640512013828 TM-ABC transporter signature motif; other site 640512013829 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 640512013830 TM-ABC transporter signature motif; other site 640512013831 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 640512013832 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 640512013833 putative ligand binding site [chemical binding]; other site 640512013834 Transcriptional regulators [Transcription]; Region: FadR; COG2186 640512013835 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640512013836 DNA-binding site [nucleotide binding]; DNA binding site 640512013837 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 640512013838 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 640512013839 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 640512013840 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 640512013841 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 640512013842 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640512013843 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 640512013844 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 640512013845 DNA binding residues [nucleotide binding] 640512013846 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4676 640512013847 Uncharacterized protein conserved in bacteria (DUF2135); Region: DUF2135; pfam09906 640512013848 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4676 640512013849 Uncharacterized protein conserved in bacteria (DUF2135); Region: DUF2135; pfam09906 640512013850 Predicted secreted protein [Function unknown]; Region: COG5445 640512013851 Predicted secreted protein (DUF2300); Region: DUF2300; pfam10062 640512013852 Stage II sporulation protein; Region: SpoIID; pfam08486 640512013853 Predicted secreted protein (DUF2300); Region: DUF2300; pfam10062 640512013854 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 640512013855 MG2 domain; Region: A2M_N; pfam01835 640512013856 Alpha-2-macroglobulin family; Region: A2M; pfam00207 640512013857 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 640512013858 Protein of unknown function (DUF1175); Region: DUF1175; cl14898 640512013859 Uncharacterized protein conserved in bacteria (DUF2138); Region: DUF2138; pfam09909 640512013860 Uncharacterized protein conserved in bacteria (DUF2086); Region: DUF2086; pfam09859 640512013861 TPR repeat; Region: TPR_11; pfam13414 640512013862 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 640512013863 binding surface 640512013864 TPR motif; other site 640512013865 TPR repeat; Region: TPR_11; pfam13414 640512013866 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 640512013867 TPR motif; other site 640512013868 binding surface 640512013869 TPR repeat; Region: TPR_11; pfam13414 640512013870 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 640512013871 Probable cobalt transporter subunit (CbtA); Region: CbtA; cl02266 640512013872 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 640512013873 catalytic core [active] 640512013874 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]; Region: RAD55; COG0467 640512013875 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 640512013876 Walker A motif; other site 640512013877 ATP binding site [chemical binding]; other site 640512013878 Walker B motif; other site 640512013879 KaiC; Region: KaiC; pfam06745 640512013880 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 640512013881 Walker A motif; other site 640512013882 ATP binding site [chemical binding]; other site 640512013883 Walker B motif; other site 640512013884 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 640512013885 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 640512013886 dimer interface [polypeptide binding]; other site 640512013887 phosphorylation site [posttranslational modification] 640512013888 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512013889 ATP binding site [chemical binding]; other site 640512013890 Mg2+ binding site [ion binding]; other site 640512013891 G-X-G motif; other site 640512013892 Response regulator receiver domain; Region: Response_reg; pfam00072 640512013893 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512013894 active site 640512013895 phosphorylation site [posttranslational modification] 640512013896 intermolecular recognition site; other site 640512013897 dimerization interface [polypeptide binding]; other site 640512013898 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 640512013899 Fusaric acid resistance protein family; Region: FUSC; pfam04632 640512013900 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 640512013901 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 640512013902 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 640512013903 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640512013904 HlyD family secretion protein; Region: HlyD_3; pfam13437 640512013905 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640512013906 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 640512013907 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 640512013908 catalytic loop [active] 640512013909 iron binding site [ion binding]; other site 640512013910 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 640512013911 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 640512013912 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 640512013913 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640512013914 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640512013915 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640512013916 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 640512013917 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 640512013918 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640512013919 TM-ABC transporter signature motif; other site 640512013920 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 640512013921 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 640512013922 Walker A/P-loop; other site 640512013923 ATP binding site [chemical binding]; other site 640512013924 Q-loop/lid; other site 640512013925 ABC transporter signature motif; other site 640512013926 Walker B; other site 640512013927 D-loop; other site 640512013928 H-loop/switch region; other site 640512013929 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 640512013930 D-xylose ABC transporter, substrate-binding protein; Region: xylF; TIGR02634 640512013931 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 640512013932 putative ligand binding site [chemical binding]; other site 640512013933 xylose isomerase; Provisional; Region: PRK05474 640512013934 xylose isomerase; Region: xylose_isom_A; TIGR02630 640512013935 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 640512013936 putative dimerization interface [polypeptide binding]; other site 640512013937 putative ligand binding site [chemical binding]; other site 640512013938 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640512013939 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640512013940 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512013941 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 640512013942 active site 640512013943 catalytic residues [active] 640512013944 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640512013945 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 640512013946 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 640512013947 non-specific DNA binding site [nucleotide binding]; other site 640512013948 salt bridge; other site 640512013949 sequence-specific DNA binding site [nucleotide binding]; other site 640512013950 Cupin domain; Region: Cupin_2; pfam07883 640512013951 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 640512013952 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 640512013953 dimer interface [polypeptide binding]; other site 640512013954 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 640512013955 active site 640512013956 Fe binding site [ion binding]; other site 640512013957 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 640512013958 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512013959 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 640512013960 putative dimerization interface [polypeptide binding]; other site 640512013961 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 640512013962 heterodimer interface [polypeptide binding]; other site 640512013963 multimer interface [polypeptide binding]; other site 640512013964 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 640512013965 active site 640512013966 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 640512013967 heterodimer interface [polypeptide binding]; other site 640512013968 active site 640512013969 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 640512013970 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 640512013971 DNA-binding protein H-NS [General function prediction only]; Region: Hns; COG2916 640512013972 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 640512013973 LysE type translocator; Region: LysE; cl00565 640512013974 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 640512013975 DNA-binding site [nucleotide binding]; DNA binding site 640512013976 RNA-binding motif; other site 640512013977 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 640512013978 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 640512013979 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640512013980 dimer interface [polypeptide binding]; other site 640512013981 putative CheW interface [polypeptide binding]; other site 640512013982 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640512013983 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 640512013984 eyelet of channel; other site 640512013985 trimer interface [polypeptide binding]; other site 640512013986 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 640512013987 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 640512013988 putative DNA binding site [nucleotide binding]; other site 640512013989 putative Zn2+ binding site [ion binding]; other site 640512013990 AsnC family; Region: AsnC_trans_reg; pfam01037 640512013991 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640512013992 Serine hydrolase (FSH1); Region: FSH1; pfam03959 640512013993 Tryptophan 2,3-dioxygenase; Region: Trp_dioxygenase; cl03994 640512013994 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 640512013995 kynureninase; Region: kynureninase; TIGR01814 640512013996 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640512013997 catalytic residue [active] 640512013998 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 640512013999 Predicted amidohydrolase [General function prediction only]; Region: COG0388 640512014000 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 640512014001 putative active site [active] 640512014002 catalytic triad [active] 640512014003 putative dimer interface [polypeptide binding]; other site 640512014004 Gentisate 1,2-dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3435 640512014005 Cupin domain; Region: Cupin_2; pfam07883 640512014006 Cupin domain; Region: Cupin_2; pfam07883 640512014007 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 640512014008 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 640512014009 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 640512014010 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 640512014011 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 640512014012 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640512014013 homodimer interface [polypeptide binding]; other site 640512014014 catalytic residue [active] 640512014015 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640512014016 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 640512014017 aldehyde dehydrogenase family 7 member; Region: PLN02315 640512014018 tetrameric interface [polypeptide binding]; other site 640512014019 NAD binding site [chemical binding]; other site 640512014020 catalytic residues [active] 640512014021 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 640512014022 FAD binding domain; Region: FAD_binding_4; pfam01565 640512014023 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 640512014024 Cysteine-rich domain; Region: CCG; pfam02754 640512014025 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 640512014026 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640512014027 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512014028 The 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 640512014029 dimerization interface [polypeptide binding]; other site 640512014030 Protein of unknown function (DUF3792); Region: DUF3792; pfam12670 640512014031 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640512014032 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512014033 The 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 640512014034 dimerization interface [polypeptide binding]; other site 640512014035 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 640512014036 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 640512014037 putative active site [active] 640512014038 putative FMN binding site [chemical binding]; other site 640512014039 putative catalytic residue [active] 640512014040 putative substrate binding site [chemical binding]; other site 640512014041 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640512014042 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 640512014043 Domain of unknown function (DUF3315); Region: DUF3315; pfam11776 640512014044 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 640512014045 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 640512014046 Walker A motif; other site 640512014047 ATP binding site [chemical binding]; other site 640512014048 Walker B motif; other site 640512014049 arginine finger; other site 640512014050 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 640512014051 Protein of unknown function (DUF917); Region: DUF917; pfam06032 640512014052 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 640512014053 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512014054 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640512014055 putative substrate translocation pore; other site 640512014056 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 640512014057 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640512014058 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 640512014059 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 640512014060 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 640512014061 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 640512014062 N-terminal plug; other site 640512014063 ligand-binding site [chemical binding]; other site 640512014064 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 640512014065 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512014066 The 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 640512014067 dimerization interface [polypeptide binding]; other site 640512014068 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 640512014069 active site 640512014070 Predicted transporter component [General function prediction only]; Region: COG2391 640512014071 Sulphur transport; Region: Sulf_transp; pfam04143 640512014072 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 640512014073 Predicted transporter component [General function prediction only]; Region: COG2391 640512014074 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 640512014075 Ligand Binding Site [chemical binding]; other site 640512014076 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 640512014077 Ligand Binding Site [chemical binding]; other site 640512014078 FOG: CBS domain [General function prediction only]; Region: COG0517 640512014079 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 640512014080 BON domain; Region: BON; pfam04972 640512014081 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 640512014082 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 640512014083 NAD binding site [chemical binding]; other site 640512014084 substrate binding site [chemical binding]; other site 640512014085 catalytic Zn binding site [ion binding]; other site 640512014086 tetramer interface [polypeptide binding]; other site 640512014087 structural Zn binding site [ion binding]; other site 640512014088 Protein of unknown function (DUF3564); Region: DUF3564; pfam12087 640512014089 Protein of unknown function (DUF2964); Region: DUF2964; pfam11177 640512014090 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 640512014091 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 640512014092 Walker A motif; other site 640512014093 ATP binding site [chemical binding]; other site 640512014094 Walker B motif; other site 640512014095 arginine finger; other site 640512014096 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 640512014097 coenzyme PQQ synthesis protein PqqA; Provisional; Region: pqqA; PRK00284 640512014098 coenzyme PQQ biosynthesis protein PqqD; Region: PQQ_PqqD; TIGR03859 640512014099 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 640512014100 substrate binding pocket [chemical binding]; other site 640512014101 membrane-bound complex binding site; other site 640512014102 hinge residues; other site 640512014103 Cytochrome c; Region: Cytochrom_C; pfam00034 640512014104 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 640512014105 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 640512014106 dimer interface [polypeptide binding]; other site 640512014107 Trp docking motif [polypeptide binding]; other site 640512014108 active site 640512014109 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 640512014110 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512014111 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 640512014112 putative dimerization interface [polypeptide binding]; other site 640512014113 putative substrate binding pocket [chemical binding]; other site 640512014114 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 640512014115 Iron-sulfur protein interface; other site 640512014116 proximal quinone binding site [chemical binding]; other site 640512014117 SdhD (CybS) interface [polypeptide binding]; other site 640512014118 proximal heme binding site [chemical binding]; other site 640512014119 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 640512014120 SdhC subunit interface [polypeptide binding]; other site 640512014121 proximal heme binding site [chemical binding]; other site 640512014122 cardiolipin binding site; other site 640512014123 Iron-sulfur protein interface; other site 640512014124 proximal quinone binding site [chemical binding]; other site 640512014125 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 640512014126 L-aspartate oxidase; Provisional; Region: PRK06175 640512014127 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 640512014128 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 640512014129 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 640512014130 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 640512014131 Asp-box motif; other site 640512014132 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 640512014133 Oxygenase domain of the 2OGFeDO superfamily; Region: Tet_JBP; pfam12851 640512014134 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 640512014135 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640512014136 Coenzyme A binding pocket [chemical binding]; other site 640512014137 Phospholipase C [Cell envelope biogenesis, outer membrane]; Region: PlcC; COG3511 640512014138 acid phosphatase, Burkholderia-type; Region: acid_phos_Burk; TIGR03397 640512014139 Protein of unknown function (DUF3564); Region: DUF3564; pfam12087 640512014140 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cd00091 640512014141 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 640512014142 active site 640512014143 substrate binding site [chemical binding]; other site 640512014144 Mg2+ binding site [ion binding]; other site 640512014145 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 640512014146 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 640512014147 ligand binding site [chemical binding]; other site 640512014148 flexible hinge region; other site 640512014149 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 640512014150 Predicted membrane protein [Function unknown]; Region: COG4539 640512014151 Predicted permeases [General function prediction only]; Region: RarD; COG2962 640512014152 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 640512014153 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 640512014154 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 640512014155 acylphosphatase; Provisional; Region: PRK14424 640512014156 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 640512014157 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 640512014158 putative NADP binding site [chemical binding]; other site 640512014159 putative substrate binding site [chemical binding]; other site 640512014160 active site 640512014161 hopene-associated glycosyltransferase HpnB; Region: HpnB; TIGR03469 640512014162 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 640512014163 active site 640512014164 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 640512014165 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 640512014166 hopanoid biosynthesis associated radical SAM protein HpnH; Region: HpnH; TIGR03470 640512014167 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 640512014168 FeS/SAM binding site; other site 640512014169 Domain of unknown function (DUF3463); Region: DUF3463; pfam11946 640512014170 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 640512014171 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 640512014172 VacJ like lipoprotein; Region: VacJ; cl01073 640512014173 hypothetical protein; Provisional; Region: PRK07077 640512014174 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 640512014175 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 640512014176 Active site cavity [active] 640512014177 catalytic acid [active] 640512014178 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 640512014179 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 640512014180 active site lid residues [active] 640512014181 substrate binding pocket [chemical binding]; other site 640512014182 catalytic residues [active] 640512014183 substrate-Mg2+ binding site; other site 640512014184 aspartate-rich region 1; other site 640512014185 aspartate-rich region 2; other site 640512014186 PAS fold; Region: PAS; pfam00989 640512014187 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 640512014188 putative active site [active] 640512014189 heme pocket [chemical binding]; other site 640512014190 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640512014191 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640512014192 metal binding site [ion binding]; metal-binding site 640512014193 active site 640512014194 I-site; other site 640512014195 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 640512014196 CheC-like family; Region: CheC; pfam04509 640512014197 Response regulator receiver domain; Region: Response_reg; pfam00072 640512014198 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512014199 active site 640512014200 phosphorylation site [posttranslational modification] 640512014201 intermolecular recognition site; other site 640512014202 dimerization interface [polypeptide binding]; other site 640512014203 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640512014204 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 640512014205 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512014206 ATP binding site [chemical binding]; other site 640512014207 Mg2+ binding site [ion binding]; other site 640512014208 G-X-G motif; other site 640512014209 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 640512014210 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512014211 active site 640512014212 phosphorylation site [posttranslational modification] 640512014213 intermolecular recognition site; other site 640512014214 dimerization interface [polypeptide binding]; other site 640512014215 Predicted flavoprotein [General function prediction only]; Region: COG0431 640512014216 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 640512014217 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 640512014218 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 640512014219 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 640512014220 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 640512014221 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640512014222 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 640512014223 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 640512014224 DNA binding residues [nucleotide binding] 640512014225 DNA primase; Validated; Region: dnaG; PRK05667 640512014226 CHC2 zinc finger; Region: zf-CHC2; pfam01807 640512014227 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 640512014228 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 640512014229 active site 640512014230 metal binding site [ion binding]; metal-binding site 640512014231 interdomain interaction site; other site 640512014232 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 640512014233 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; cl07879 640512014234 Yqey-like protein; Region: YqeY; pfam09424 640512014235 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 640512014236 HI0933-like protein; Region: HI0933_like; pfam03486 640512014237 UGMP family protein; Validated; Region: PRK09604 640512014238 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 640512014239 putative GTP cyclohydrolase; Provisional; Region: PRK13674 640512014240 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 640512014241 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 640512014242 TPP-binding site; other site 640512014243 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 640512014244 PYR/PP interface [polypeptide binding]; other site 640512014245 dimer interface [polypeptide binding]; other site 640512014246 TPP binding site [chemical binding]; other site 640512014247 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 640512014248 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 640512014249 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 640512014250 substrate binding pocket [chemical binding]; other site 640512014251 chain length determination region; other site 640512014252 substrate-Mg2+ binding site; other site 640512014253 catalytic residues [active] 640512014254 aspartate-rich region 1; other site 640512014255 active site lid residues [active] 640512014256 aspartate-rich region 2; other site 640512014257 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 640512014258 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 640512014259 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 640512014260 [2Fe-2S] cluster binding site [ion binding]; other site 640512014261 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 640512014262 alpha subunit interface [polypeptide binding]; other site 640512014263 active site 640512014264 substrate binding site [chemical binding]; other site 640512014265 Fe binding site [ion binding]; other site 640512014266 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 640512014267 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 640512014268 active site residue [active] 640512014269 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 640512014270 active site residue [active] 640512014271 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 640512014272 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 640512014273 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640512014274 DNA polymerase I; Provisional; Region: PRK05755 640512014275 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 640512014276 active site 640512014277 metal binding site 1 [ion binding]; metal-binding site 640512014278 putative 5' ssDNA interaction site; other site 640512014279 metal binding site 3; metal-binding site 640512014280 metal binding site 2 [ion binding]; metal-binding site 640512014281 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 640512014282 putative DNA binding site [nucleotide binding]; other site 640512014283 putative metal binding site [ion binding]; other site 640512014284 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 640512014285 active site 640512014286 catalytic site [active] 640512014287 substrate binding site [chemical binding]; other site 640512014288 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 640512014289 active site 640512014290 DNA binding site [nucleotide binding] 640512014291 catalytic site [active] 640512014292 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 640512014293 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640512014294 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512014295 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 640512014296 dimerization interface [polypeptide binding]; other site 640512014297 substrate binding pocket [chemical binding]; other site 640512014298 Chromate transporter; Region: Chromate_transp; pfam02417 640512014299 Chromate transporter; Region: Chromate_transp; pfam02417 640512014300 AMP nucleosidase; Provisional; Region: PRK08292 640512014301 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 640512014302 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 640512014303 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 640512014304 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 640512014305 putative active site [active] 640512014306 putative substrate binding site [chemical binding]; other site 640512014307 ATP binding site [chemical binding]; other site 640512014308 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 640512014309 DNA photolyase; Region: DNA_photolyase; pfam00875 640512014310 Protein of unknown function (DUF3563); Region: DUF3563; pfam12086 640512014311 Esterase PHB depolymerase; Region: Esterase_phd; pfam10503 640512014312 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 640512014313 active site 640512014314 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 640512014315 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 640512014316 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512014317 dimer interface [polypeptide binding]; other site 640512014318 conserved gate region; other site 640512014319 putative PBP binding loops; other site 640512014320 ABC-ATPase subunit interface; other site 640512014321 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640512014322 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 640512014323 Walker A/P-loop; other site 640512014324 ATP binding site [chemical binding]; other site 640512014325 Q-loop/lid; other site 640512014326 ABC transporter signature motif; other site 640512014327 Walker B; other site 640512014328 D-loop; other site 640512014329 H-loop/switch region; other site 640512014330 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 640512014331 TOBE domain; Region: TOBE; cl01440 640512014332 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 640512014333 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 640512014334 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 640512014335 dimer interface [polypeptide binding]; other site 640512014336 hexamer interface [polypeptide binding]; other site 640512014337 active site 2 [active] 640512014338 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512014339 The 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 640512014340 dimerization interface [polypeptide binding]; other site 640512014341 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 640512014342 RES domain; Region: RES; smart00953 640512014343 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 640512014344 active site 640512014345 metal binding site [ion binding]; metal-binding site 640512014346 Protein of unknown function (DUF1345); Region: DUF1345; pfam07077 640512014347 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 640512014348 active site 640512014349 catalytic site [active] 640512014350 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 640512014351 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 640512014352 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 640512014353 active site 640512014354 homodimer interface [polypeptide binding]; other site 640512014355 catalytic site [active] 640512014356 acceptor binding site [chemical binding]; other site 640512014357 trehalose synthase; Region: treS_nterm; TIGR02456 640512014358 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 640512014359 active site 640512014360 catalytic site [active] 640512014361 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 640512014362 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 640512014363 glycogen branching enzyme; Provisional; Region: PRK05402 640512014364 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 640512014365 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 640512014366 active site 640512014367 catalytic site [active] 640512014368 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 640512014369 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 640512014370 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 640512014371 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 640512014372 active site 640512014373 catalytic site [active] 640512014374 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 640512014375 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 640512014376 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 640512014377 catalytic site [active] 640512014378 active site 640512014379 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 640512014380 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 640512014381 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 640512014382 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 640512014383 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 640512014384 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 640512014385 active site 640512014386 catalytic site [active] 640512014387 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 640512014388 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 640512014389 Domain of unknown function DUF21; Region: DUF21; pfam01595 640512014390 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 640512014391 Transporter associated domain; Region: CorC_HlyC; smart01091 640512014392 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640512014393 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 640512014394 dimer interface [polypeptide binding]; other site 640512014395 phosphorylation site [posttranslational modification] 640512014396 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 640512014397 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 640512014398 Cupin domain; Region: Cupin_2; cl17218 640512014399 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512014400 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640512014401 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512014402 amidophosphoribosyltransferase; Provisional; Region: PRK09246 640512014403 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 640512014404 active site 640512014405 tetramer interface [polypeptide binding]; other site 640512014406 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 640512014407 active site 640512014408 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 640512014409 Colicin V production protein; Region: Colicin_V; pfam02674 640512014410 Sporulation related domain; Region: SPOR; pfam05036 640512014411 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 640512014412 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 640512014413 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 640512014414 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 640512014415 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 640512014416 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 640512014417 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 640512014418 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 640512014419 substrate binding site [chemical binding]; other site 640512014420 active site 640512014421 catalytic residues [active] 640512014422 heterodimer interface [polypeptide binding]; other site 640512014423 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 640512014424 DNA methylase; Region: N6_N4_Mtase; pfam01555 640512014425 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 640512014426 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 640512014427 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640512014428 catalytic residue [active] 640512014429 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 640512014430 active site 640512014431 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 640512014432 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 640512014433 dimerization interface 3.5A [polypeptide binding]; other site 640512014434 active site 640512014435 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 640512014436 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 640512014437 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 640512014438 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 640512014439 tartrate dehydrogenase; Region: TTC; TIGR02089 640512014440 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 640512014441 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 640512014442 substrate binding site [chemical binding]; other site 640512014443 Predicted small secreted protein [Function unknown]; Region: COG5510 640512014444 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 640512014445 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 640512014446 substrate binding site [chemical binding]; other site 640512014447 ligand binding site [chemical binding]; other site 640512014448 Predicted membrane protein [Function unknown]; Region: COG2261 640512014449 Protein of unknown function (DUF1479); Region: DUF1479; pfam07350 640512014450 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 640512014451 Helix-turn-helix domain; Region: HTH_18; pfam12833 640512014452 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512014453 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 640512014454 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 640512014455 dimer interface [polypeptide binding]; other site 640512014456 active site 640512014457 citrylCoA binding site [chemical binding]; other site 640512014458 NADH binding [chemical binding]; other site 640512014459 cationic pore residues; other site 640512014460 oxalacetate/citrate binding site [chemical binding]; other site 640512014461 coenzyme A binding site [chemical binding]; other site 640512014462 catalytic triad [active] 640512014463 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 640512014464 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 640512014465 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 640512014466 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 640512014467 L-aspartate oxidase; Provisional; Region: PRK06175 640512014468 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 640512014469 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 640512014470 SdhC subunit interface [polypeptide binding]; other site 640512014471 proximal heme binding site [chemical binding]; other site 640512014472 cardiolipin binding site; other site 640512014473 Iron-sulfur protein interface; other site 640512014474 proximal quinone binding site [chemical binding]; other site 640512014475 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 640512014476 Iron-sulfur protein interface; other site 640512014477 proximal quinone binding site [chemical binding]; other site 640512014478 SdhD (CybS) interface [polypeptide binding]; other site 640512014479 proximal heme binding site [chemical binding]; other site 640512014480 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 640512014481 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640512014482 DNA-binding site [nucleotide binding]; DNA binding site 640512014483 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 640512014484 malate dehydrogenase; Provisional; Region: PRK05442 640512014485 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 640512014486 NAD(P) binding site [chemical binding]; other site 640512014487 dimer interface [polypeptide binding]; other site 640512014488 malate binding site [chemical binding]; other site 640512014489 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 640512014490 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 640512014491 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 640512014492 dimer interface [polypeptide binding]; other site 640512014493 active site 640512014494 citrylCoA binding site [chemical binding]; other site 640512014495 oxalacetate/citrate binding site [chemical binding]; other site 640512014496 coenzyme A binding site [chemical binding]; other site 640512014497 catalytic triad [active] 640512014498 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 640512014499 2-methylcitrate dehydratase; Region: prpD; TIGR02330 640512014500 aconitate hydratase; Provisional; Region: acnA; PRK12881 640512014501 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 640512014502 substrate binding site [chemical binding]; other site 640512014503 ligand binding site [chemical binding]; other site 640512014504 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 640512014505 substrate binding site [chemical binding]; other site 640512014506 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640512014507 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512014508 active site 640512014509 phosphorylation site [posttranslational modification] 640512014510 intermolecular recognition site; other site 640512014511 dimerization interface [polypeptide binding]; other site 640512014512 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 640512014513 DNA binding residues [nucleotide binding] 640512014514 dimerization interface [polypeptide binding]; other site 640512014515 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640512014516 ligand binding site [chemical binding]; other site 640512014517 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 640512014518 trimer interface [polypeptide binding]; other site 640512014519 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 640512014520 trimer interface [polypeptide binding]; other site 640512014521 YadA-like C-terminal region; Region: YadA; pfam03895 640512014522 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 640512014523 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 640512014524 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 640512014525 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 640512014526 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 640512014527 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 640512014528 phosphopeptide binding site; other site 640512014529 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 640512014530 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 640512014531 ATP binding site [chemical binding]; other site 640512014532 Walker A motif; other site 640512014533 hexamer interface [polypeptide binding]; other site 640512014534 Walker B motif; other site 640512014535 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 640512014536 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 640512014537 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 640512014538 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 640512014539 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 640512014540 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 640512014541 TadE-like protein; Region: TadE; pfam07811 640512014542 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 640512014543 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 640512014544 N-acetyl-D-glucosamine binding site [chemical binding]; other site 640512014545 catalytic residue [active] 640512014546 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640512014547 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512014548 active site 640512014549 phosphorylation site [posttranslational modification] 640512014550 intermolecular recognition site; other site 640512014551 dimerization interface [polypeptide binding]; other site 640512014552 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 640512014553 DNA binding residues [nucleotide binding] 640512014554 dimerization interface [polypeptide binding]; other site 640512014555 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640512014556 ligand binding site [chemical binding]; other site 640512014557 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 640512014558 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512014559 dimer interface [polypeptide binding]; other site 640512014560 conserved gate region; other site 640512014561 putative PBP binding loops; other site 640512014562 ABC-ATPase subunit interface; other site 640512014563 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512014564 dimer interface [polypeptide binding]; other site 640512014565 conserved gate region; other site 640512014566 putative PBP binding loops; other site 640512014567 ABC-ATPase subunit interface; other site 640512014568 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 640512014569 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 640512014570 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 640512014571 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640512014572 Walker A/P-loop; other site 640512014573 ATP binding site [chemical binding]; other site 640512014574 Q-loop/lid; other site 640512014575 ABC transporter signature motif; other site 640512014576 Walker B; other site 640512014577 D-loop; other site 640512014578 H-loop/switch region; other site 640512014579 TOBE domain; Region: TOBE_2; pfam08402 640512014580 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 640512014581 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640512014582 DNA-binding site [nucleotide binding]; DNA binding site 640512014583 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 640512014584 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640512014585 homodimer interface [polypeptide binding]; other site 640512014586 catalytic residue [active] 640512014587 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 640512014588 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 640512014589 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 640512014590 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 640512014591 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 640512014592 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 640512014593 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 640512014594 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 640512014595 metal-binding site [ion binding] 640512014596 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 640512014597 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 640512014598 Cache domain; Region: Cache_1; pfam02743 640512014599 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 640512014600 dimerization interface [polypeptide binding]; other site 640512014601 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 640512014602 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640512014603 dimer interface [polypeptide binding]; other site 640512014604 putative CheW interface [polypeptide binding]; other site 640512014605 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 640512014606 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 640512014607 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 640512014608 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 640512014609 MgtC family; Region: MgtC; pfam02308 640512014610 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 640512014611 putative active cleft [active] 640512014612 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 640512014613 DNA-binding site [nucleotide binding]; DNA binding site 640512014614 RNA-binding motif; other site 640512014615 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 640512014616 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 640512014617 dimer interface [polypeptide binding]; other site 640512014618 ligand binding site [chemical binding]; other site 640512014619 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 640512014620 dimerization interface [polypeptide binding]; other site 640512014621 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640512014622 dimer interface [polypeptide binding]; other site 640512014623 putative CheW interface [polypeptide binding]; other site 640512014624 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 640512014625 CoenzymeA binding site [chemical binding]; other site 640512014626 subunit interaction site [polypeptide binding]; other site 640512014627 PHB binding site; other site 640512014628 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 640512014629 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 640512014630 short chain dehydrogenase; Provisional; Region: PRK06138 640512014631 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 640512014632 NAD binding site [chemical binding]; other site 640512014633 homotetramer interface [polypeptide binding]; other site 640512014634 homodimer interface [polypeptide binding]; other site 640512014635 active site 640512014636 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 640512014637 Amidohydrolase; Region: Amidohydro_2; pfam04909 640512014638 active site 640512014639 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 640512014640 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 640512014641 active site 640512014642 catalytic tetrad [active] 640512014643 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 640512014644 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 640512014645 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640512014646 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 640512014647 Bacterial transcriptional regulator; Region: IclR; pfam01614 640512014648 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 640512014649 CoA binding domain; Region: CoA_binding_2; pfam13380 640512014650 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 640512014651 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 640512014652 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 640512014653 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640512014654 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512014655 The 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 640512014656 dimerization interface [polypeptide binding]; other site 640512014657 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 640512014658 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 640512014659 G1 box; other site 640512014660 putative GEF interaction site [polypeptide binding]; other site 640512014661 GTP/Mg2+ binding site [chemical binding]; other site 640512014662 Switch I region; other site 640512014663 G2 box; other site 640512014664 G3 box; other site 640512014665 Switch II region; other site 640512014666 G4 box; other site 640512014667 G5 box; other site 640512014668 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 640512014669 benzoate transport; Region: 2A0115; TIGR00895 640512014670 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512014671 putative substrate translocation pore; other site 640512014672 succinic semialdehyde dehydrogenase; Region: PLN02278 640512014673 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 640512014674 tetramerization interface [polypeptide binding]; other site 640512014675 NAD(P) binding site [chemical binding]; other site 640512014676 catalytic residues [active] 640512014677 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 640512014678 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 640512014679 active site 640512014680 catalytic tetrad [active] 640512014681 Formaldehyde-activating enzyme (Fae); Region: Fae; pfam08714 640512014682 H-NS histone family; Region: Histone_HNS; pfam00816 640512014683 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 640512014684 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 640512014685 Beta-lactamase; Region: Beta-lactamase; pfam00144 640512014686 PAS fold; Region: PAS_4; pfam08448 640512014687 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 640512014688 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 640512014689 Walker A motif; other site 640512014690 ATP binding site [chemical binding]; other site 640512014691 Walker B motif; other site 640512014692 arginine finger; other site 640512014693 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 640512014694 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 640512014695 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 640512014696 homotrimer interaction site [polypeptide binding]; other site 640512014697 putative active site [active] 640512014698 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 640512014699 dimer interface [polypeptide binding]; other site 640512014700 phosphorylation site [posttranslational modification] 640512014701 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512014702 ATP binding site [chemical binding]; other site 640512014703 Mg2+ binding site [ion binding]; other site 640512014704 G-X-G motif; other site 640512014705 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512014706 active site 640512014707 phosphorylation site [posttranslational modification] 640512014708 intermolecular recognition site; other site 640512014709 dimerization interface [polypeptide binding]; other site 640512014710 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 640512014711 PAS domain; Region: PAS_9; pfam13426 640512014712 putative active site [active] 640512014713 heme pocket [chemical binding]; other site 640512014714 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640512014715 dimer interface [polypeptide binding]; other site 640512014716 putative CheW interface [polypeptide binding]; other site 640512014717 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DinB; COG2318 640512014718 DinB superfamily; Region: DinB_2; pfam12867 640512014719 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 640512014720 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 640512014721 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 640512014722 active site residue [active] 640512014723 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 640512014724 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 640512014725 ligand binding site [chemical binding]; other site 640512014726 flexible hinge region; other site 640512014727 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 640512014728 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 640512014729 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640512014730 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 640512014731 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 640512014732 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 640512014733 EamA-like transporter family; Region: EamA; pfam00892 640512014734 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 640512014735 EamA-like transporter family; Region: EamA; pfam00892 640512014736 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640512014737 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512014738 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 640512014739 FAD binding domain; Region: FAD_binding_4; pfam01565 640512014740 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 640512014741 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 640512014742 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512014743 D-galactonate transporter; Region: 2A0114; TIGR00893 640512014744 putative substrate translocation pore; other site 640512014745 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 640512014746 homodimer interface [polypeptide binding]; other site 640512014747 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640512014748 catalytic residue [active] 640512014749 Transcriptional regulators [Transcription]; Region: GntR; COG1802 640512014750 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640512014751 DNA-binding site [nucleotide binding]; DNA binding site 640512014752 FCD domain; Region: FCD; pfam07729 640512014753 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 640512014754 PAAR motif; Region: PAAR_motif; pfam05488 640512014755 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 640512014756 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512014757 putative substrate translocation pore; other site 640512014758 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512014759 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 640512014760 active site 640512014761 catalytic residues [active] 640512014762 metal binding site [ion binding]; metal-binding site 640512014763 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 640512014764 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640512014765 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512014766 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512014767 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 640512014768 putative dimerization interface [polypeptide binding]; other site 640512014769 HD domain protein, cyanamide hydratase family; Region: cyanamide_fam; TIGR03401 640512014770 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640512014771 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 640512014772 conserved cys residue [active] 640512014773 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512014774 short chain dehydrogenase; Provisional; Region: PRK07023 640512014775 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640512014776 NAD(P) binding site [chemical binding]; other site 640512014777 active site 640512014778 Response regulator receiver domain; Region: Response_reg; pfam00072 640512014779 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512014780 active site 640512014781 phosphorylation site [posttranslational modification] 640512014782 intermolecular recognition site; other site 640512014783 dimerization interface [polypeptide binding]; other site 640512014784 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 640512014785 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 640512014786 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 640512014787 dimerization interface [polypeptide binding]; other site 640512014788 PAS fold; Region: PAS; pfam00989 640512014789 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640512014790 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 640512014791 putative binding surface; other site 640512014792 active site 640512014793 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512014794 ATP binding site [chemical binding]; other site 640512014795 Mg2+ binding site [ion binding]; other site 640512014796 G-X-G motif; other site 640512014797 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 640512014798 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 640512014799 putative active site [active] 640512014800 catalytic site [active] 640512014801 Putative catalytic domain, repeat 2, of uncharacterized hypothetical proteins similar to Nuc, an endonuclease from Salmonella typhimurium; Region: PLDc_Nuc_like_unchar1_2; cd09173 640512014802 putative active site [active] 640512014803 catalytic site [active] 640512014804 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640512014805 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 640512014806 Protein export membrane protein; Region: SecD_SecF; cl14618 640512014807 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 640512014808 HlyD family secretion protein; Region: HlyD_3; pfam13437 640512014809 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 640512014810 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512014811 active site 640512014812 phosphorylation site [posttranslational modification] 640512014813 intermolecular recognition site; other site 640512014814 dimerization interface [polypeptide binding]; other site 640512014815 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 640512014816 DNA binding site [nucleotide binding] 640512014817 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 640512014818 dimerization interface [polypeptide binding]; other site 640512014819 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 640512014820 dimer interface [polypeptide binding]; other site 640512014821 phosphorylation site [posttranslational modification] 640512014822 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512014823 ATP binding site [chemical binding]; other site 640512014824 Mg2+ binding site [ion binding]; other site 640512014825 G-X-G motif; other site 640512014826 CHASE3 domain; Region: CHASE3; pfam05227 640512014827 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640512014828 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640512014829 metal binding site [ion binding]; metal-binding site 640512014830 active site 640512014831 I-site; other site 640512014832 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 640512014833 Sulfatase; Region: Sulfatase; pfam00884 640512014834 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 640512014835 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 640512014836 FeS/SAM binding site; other site 640512014837 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 640512014838 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 640512014839 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640512014840 NAD(P) binding site [chemical binding]; other site 640512014841 active site 640512014842 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 640512014843 Sulfatase; Region: Sulfatase; pfam00884 640512014844 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 640512014845 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640512014846 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 640512014847 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640512014848 active site 640512014849 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 640512014850 (3R)-hydroxyacyl-CoA dehydrogenase-like, classical(c)-like SDRs; Region: hydroxyacyl-CoA-like_DH_SDR_c-like; cd05353 640512014851 NAD binding site [chemical binding]; other site 640512014852 homodimer interface [polypeptide binding]; other site 640512014853 active site 640512014854 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 640512014855 putative active site [active] 640512014856 putative catalytic site [active] 640512014857 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 640512014858 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 640512014859 active site 640512014860 lipid-transfer protein; Provisional; Region: PRK08256 640512014861 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 640512014862 active site 640512014863 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 640512014864 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640512014865 active site 640512014866 lipid-transfer protein; Provisional; Region: PRK08256 640512014867 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 640512014868 active site 640512014869 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 640512014870 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 640512014871 substrate binding site [chemical binding]; other site 640512014872 oxyanion hole (OAH) forming residues; other site 640512014873 trimer interface [polypeptide binding]; other site 640512014874 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 640512014875 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 640512014876 DNA binding residues [nucleotide binding] 640512014877 dimerization interface [polypeptide binding]; other site 640512014878 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 640512014879 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 640512014880 acyl-activating enzyme (AAE) consensus motif; other site 640512014881 AMP binding site [chemical binding]; other site 640512014882 active site 640512014883 CoA binding site [chemical binding]; other site 640512014884 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 640512014885 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 640512014886 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 640512014887 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 640512014888 phosphoenolpyruvate synthase; Validated; Region: PRK06464 640512014889 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 640512014890 Phosphohistidine swiveling domain [Signal transduction mechanisms]; Region: COG3848 640512014891 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 640512014892 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 640512014893 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 640512014894 putative substrate binding site [chemical binding]; other site 640512014895 putative ATP binding site [chemical binding]; other site 640512014896 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 640512014897 active site 640512014898 magnesium-transporting ATPase MgtA; Provisional; Region: PRK10517 640512014899 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 640512014900 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 640512014901 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 640512014902 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 640512014903 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 640512014904 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 640512014905 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 640512014906 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 640512014907 ring oligomerisation interface [polypeptide binding]; other site 640512014908 ATP/Mg binding site [chemical binding]; other site 640512014909 stacking interactions; other site 640512014910 hinge regions; other site 640512014911 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 640512014912 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 640512014913 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 640512014914 active site 640512014915 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 640512014916 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 640512014917 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_A; cd01570 640512014918 active site 640512014919 Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141 640512014920 hypothetical protein; Provisional; Region: PRK08609 640512014921 active site 640512014922 primer binding site [nucleotide binding]; other site 640512014923 NTP binding site [chemical binding]; other site 640512014924 metal binding triad [ion binding]; metal-binding site 640512014925 Polymerase and Histidinol Phosphatase domain of bacterial polymerase X; Region: PHP_PolX; cd07436 640512014926 active site 640512014927 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 640512014928 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 640512014929 acyl-activating enzyme (AAE) consensus motif; other site 640512014930 putative AMP binding site [chemical binding]; other site 640512014931 putative active site [active] 640512014932 putative CoA binding site [chemical binding]; other site 640512014933 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 640512014934 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 640512014935 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07768 640512014936 acyl-activating enzyme (AAE) consensus motif; other site 640512014937 active site 640512014938 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 640512014939 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 640512014940 putative acyl-acceptor binding pocket; other site 640512014941 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 640512014942 SnoaL-like domain; Region: SnoaL_2; pfam12680 640512014943 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640512014944 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640512014945 Uncharacterized conserved protein [Function unknown]; Region: COG2353 640512014946 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 640512014947 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 640512014948 NAD(P) binding site [chemical binding]; other site 640512014949 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 640512014950 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 640512014951 substrate-cofactor binding pocket; other site 640512014952 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640512014953 catalytic residue [active] 640512014954 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 640512014955 non-specific DNA binding site [nucleotide binding]; other site 640512014956 salt bridge; other site 640512014957 sequence-specific DNA binding site [nucleotide binding]; other site 640512014958 Cupin domain; Region: Cupin_2; pfam07883 640512014959 Protein of unknown function (DUF2471); Region: DUF2471; pfam10616 640512014960 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 640512014961 active site 640512014962 catalytic residues [active] 640512014963 Int/Topo IB signature motif; other site 640512014964 DNA binding site [nucleotide binding] 640512014965 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 640512014966 Initiator Replication protein; Region: Rep_3; pfam01051 640512014967 ParB-like nuclease domain; Region: ParB; smart00470 640512014968 ParA-like protein; Provisional; Region: PHA02518 640512014969 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 640512014970 P-loop; other site 640512014971 Magnesium ion binding site [ion binding]; other site 640512014972 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 640512014973 ArsC family; Region: ArsC; pfam03960 640512014974 catalytic residues [active] 640512014975 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3813 640512014976 Protein of unknown function (DUF1272); Region: DUF1272; pfam06906 640512014977 Putative zinc-finger; Region: zf-HC2; pfam13490 640512014978 RNA polymerase sigma factor; Provisional; Region: PRK12545 640512014979 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 640512014980 DNA binding residues [nucleotide binding] 640512014981 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 640512014982 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512014983 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 640512014984 putative dimerization interface [polypeptide binding]; other site 640512014985 Tim44 is an essential component of the machinery that mediates the translocation of nuclear-encoded proteins across the mitochondrial inner membrane; Region: Tim44; smart00978 640512014986 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 640512014987 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640512014988 Coenzyme A binding pocket [chemical binding]; other site 640512014989 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640512014990 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640512014991 N-methyltryptophan oxidase; Provisional; Region: solA; PRK11259 640512014992 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 640512014993 Protein of unknown function (DUF3562); Region: DUF3562; pfam12085 640512014994 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 640512014995 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 640512014996 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 640512014997 DXD motif; other site 640512014998 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 640512014999 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 640512015000 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 640512015001 [2Fe-2S] cluster binding site [ion binding]; other site 640512015002 Rubredoxin; Region: Rubredoxin; pfam00301 640512015003 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 640512015004 iron binding site [ion binding]; other site 640512015005 short chain dehydrogenase; Provisional; Region: PRK06180 640512015006 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 640512015007 NADP binding site [chemical binding]; other site 640512015008 active site 640512015009 steroid binding site; other site 640512015010 Protein of unknown function; Region: DUF3658; pfam12395 640512015011 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 640512015012 Predicted deacylase [General function prediction only]; Region: COG3608 640512015013 active site 640512015014 Zn binding site [ion binding]; other site 640512015015 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 640512015016 Phosphoesterase family; Region: Phosphoesterase; pfam04185 640512015017 Domain of unknown function (DUF756); Region: DUF756; pfam05506 640512015018 Domain of unknown function (DUF756); Region: DUF756; pfam05506 640512015019 glycogen debranching enzyme, archaeal type, putative; Region: gde_arch; TIGR01561 640512015020 Glycogen debranching enzyme N terminal; Region: GDE_N; pfam12439 640512015021 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 640512015022 Mannosyl oligosaccharide glucosidase; Region: Glyco_hydro_63; pfam03200 640512015023 glucose-6-phosphate 1-dehydrogenase; Provisional; Region: PRK12853 640512015024 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 640512015025 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 640512015026 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 640512015027 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 640512015028 nucleotide binding site [chemical binding]; other site 640512015029 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 640512015030 substrate binding site [chemical binding]; other site 640512015031 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 640512015032 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 640512015033 active site 640512015034 catalytic tetrad [active] 640512015035 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 640512015036 putative FMN binding site [chemical binding]; other site 640512015037 High potential iron-sulfur protein; Region: HIPIP; pfam01355 640512015038 Dopa 4,5-dioxygenase family; Region: DOPA_dioxygen; pfam08883 640512015039 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 640512015040 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 640512015041 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 640512015042 YCII-related domain; Region: YCII; cl00999 640512015043 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 640512015044 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 640512015045 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640512015046 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 640512015047 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640512015048 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 640512015049 Domain of unknown function (DUF4337); Region: DUF4337; pfam14235 640512015050 Predicted permeases [General function prediction only]; Region: COG0679 640512015051 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 640512015052 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512015053 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 640512015054 dimerization interface [polypeptide binding]; other site 640512015055 substrate binding pocket [chemical binding]; other site 640512015056 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 640512015057 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 640512015058 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 640512015059 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 640512015060 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 640512015061 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640512015062 DNA-binding site [nucleotide binding]; DNA binding site 640512015063 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 640512015064 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640512015065 homodimer interface [polypeptide binding]; other site 640512015066 catalytic residue [active] 640512015067 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 640512015068 Histone acetyltransferase HPA2 and related acetyltransferases [Transcription / General function prediction only]; Region: WecD; COG0454 640512015069 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640512015070 Coenzyme A binding pocket [chemical binding]; other site 640512015071 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640512015072 AAA domain; Region: AAA_23; pfam13476 640512015073 Walker A/P-loop; other site 640512015074 ATP binding site [chemical binding]; other site 640512015075 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 640512015076 active site 640512015077 metal binding site [ion binding]; metal-binding site 640512015078 WYL domain; Region: WYL; pfam13280 640512015079 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512015080 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640512015081 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512015082 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 640512015083 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512015084 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640512015085 putative substrate translocation pore; other site 640512015086 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 640512015087 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 640512015088 putative C-terminal domain interface [polypeptide binding]; other site 640512015089 putative GSH binding site (G-site) [chemical binding]; other site 640512015090 putative dimer interface [polypeptide binding]; other site 640512015091 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 640512015092 putative N-terminal domain interface [polypeptide binding]; other site 640512015093 putative dimer interface [polypeptide binding]; other site 640512015094 putative substrate binding pocket (H-site) [chemical binding]; other site 640512015095 Dienelactone hydrolase family; Region: DLH; pfam01738 640512015096 SnoaL-like domain; Region: SnoaL_2; pfam12680 640512015097 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 640512015098 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 640512015099 acyl-activating enzyme (AAE) consensus motif; other site 640512015100 AMP binding site [chemical binding]; other site 640512015101 active site 640512015102 CoA binding site [chemical binding]; other site 640512015103 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 640512015104 homotrimer interaction site [polypeptide binding]; other site 640512015105 putative active site [active] 640512015106 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 640512015107 active site 640512015108 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 640512015109 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 640512015110 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640512015111 active site 640512015112 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 640512015113 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 640512015114 substrate binding site [chemical binding]; other site 640512015115 oxyanion hole (OAH) forming residues; other site 640512015116 trimer interface [polypeptide binding]; other site 640512015117 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640512015118 MarR family; Region: MarR; pfam01047 640512015119 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640512015120 classical (c) SDRs; Region: SDR_c; cd05233 640512015121 NAD(P) binding site [chemical binding]; other site 640512015122 active site 640512015123 salicylyl-CoA 5-hydroxylase; Reviewed; Region: PRK08255 640512015124 hypothetical protein; Provisional; Region: PRK07236 640512015125 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 640512015126 active site 640512015127 FMN binding site [chemical binding]; other site 640512015128 substrate binding site [chemical binding]; other site 640512015129 homotetramer interface [polypeptide binding]; other site 640512015130 catalytic residue [active] 640512015131 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 640512015132 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640512015133 catalytic residue [active] 640512015134 Isochorismatase family; Region: Isochorismatase; pfam00857 640512015135 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 640512015136 catalytic triad [active] 640512015137 conserved cis-peptide bond; other site 640512015138 transcriptional regulator NarL; Provisional; Region: PRK10651 640512015139 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512015140 active site 640512015141 phosphorylation site [posttranslational modification] 640512015142 intermolecular recognition site; other site 640512015143 dimerization interface [polypeptide binding]; other site 640512015144 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 640512015145 DNA binding residues [nucleotide binding] 640512015146 dimerization interface [polypeptide binding]; other site 640512015147 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 640512015148 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 640512015149 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 640512015150 dimerization interface [polypeptide binding]; other site 640512015151 GAF domain; Region: GAF; pfam01590 640512015152 Histidine kinase; Region: HisKA_3; pfam07730 640512015153 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512015154 ATP binding site [chemical binding]; other site 640512015155 Mg2+ binding site [ion binding]; other site 640512015156 G-X-G motif; other site 640512015157 Invasion gene expression up-regulator, SirB; Region: SirB; cl01184 640512015158 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 640512015159 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 640512015160 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 640512015161 Nitrate reductase delta subunit [Energy production and conversion]; Region: NarJ; COG2180 640512015162 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 640512015163 4Fe-4S binding domain; Region: Fer4; cl02805 640512015164 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 640512015165 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 640512015166 [4Fe-4S] binding site [ion binding]; other site 640512015167 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 640512015168 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 640512015169 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 640512015170 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 640512015171 molybdopterin cofactor binding site; other site 640512015172 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 640512015173 metabolite-proton symporter; Region: 2A0106; TIGR00883 640512015174 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512015175 putative substrate translocation pore; other site 640512015176 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 640512015177 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640512015178 NAD(P) binding site [chemical binding]; other site 640512015179 active site 640512015180 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640512015181 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 640512015182 conserved cys residue [active] 640512015183 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512015184 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 640512015185 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 640512015186 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 640512015187 Protein of unknown function (DUF1697); Region: DUF1697; pfam08002 640512015188 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 640512015189 Predicted small integral membrane protein (DUF2160); Region: DUF2160; pfam09928 640512015190 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 640512015191 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512015192 dimer interface [polypeptide binding]; other site 640512015193 conserved gate region; other site 640512015194 putative PBP binding loops; other site 640512015195 ABC-ATPase subunit interface; other site 640512015196 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512015197 dimer interface [polypeptide binding]; other site 640512015198 conserved gate region; other site 640512015199 putative PBP binding loops; other site 640512015200 ABC-ATPase subunit interface; other site 640512015201 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 640512015202 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 640512015203 Walker A/P-loop; other site 640512015204 ATP binding site [chemical binding]; other site 640512015205 Q-loop/lid; other site 640512015206 ABC transporter signature motif; other site 640512015207 Walker B; other site 640512015208 D-loop; other site 640512015209 H-loop/switch region; other site 640512015210 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 640512015211 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 640512015212 Walker A/P-loop; other site 640512015213 ATP binding site [chemical binding]; other site 640512015214 Q-loop/lid; other site 640512015215 ABC transporter signature motif; other site 640512015216 Walker B; other site 640512015217 D-loop; other site 640512015218 H-loop/switch region; other site 640512015219 TOBE domain; Region: TOBE_2; pfam08402 640512015220 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640512015221 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640512015222 metal binding site [ion binding]; metal-binding site 640512015223 active site 640512015224 I-site; other site 640512015225 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 640512015226 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 640512015227 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 640512015228 active site 640512015229 metal binding site [ion binding]; metal-binding site 640512015230 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 640512015231 enoyl-CoA hydratase; Provisional; Region: PRK06144 640512015232 substrate binding site [chemical binding]; other site 640512015233 oxyanion hole (OAH) forming residues; other site 640512015234 trimer interface [polypeptide binding]; other site 640512015235 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 640512015236 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640512015237 SAM (Sterile alpha motif ); Region: SAM_superfamily; cl15755 640512015238 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512015239 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512015240 The 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 640512015241 dimerization interface [polypeptide binding]; other site 640512015242 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512015243 D-galactonate transporter; Region: 2A0114; TIGR00893 640512015244 putative substrate translocation pore; other site 640512015245 Helix-turn-helix domain; Region: HTH_18; pfam12833 640512015246 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512015247 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 640512015248 active site 640512015249 tetramer interface; other site 640512015250 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 640512015251 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 640512015252 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512015253 dimer interface [polypeptide binding]; other site 640512015254 conserved gate region; other site 640512015255 putative PBP binding loops; other site 640512015256 ABC-ATPase subunit interface; other site 640512015257 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 640512015258 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512015259 dimer interface [polypeptide binding]; other site 640512015260 conserved gate region; other site 640512015261 putative PBP binding loops; other site 640512015262 ABC-ATPase subunit interface; other site 640512015263 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 640512015264 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 640512015265 short chain dehydrogenase; Provisional; Region: PRK07074 640512015266 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640512015267 NAD(P) binding site [chemical binding]; other site 640512015268 active site 640512015269 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 640512015270 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 640512015271 Walker A/P-loop; other site 640512015272 ATP binding site [chemical binding]; other site 640512015273 Q-loop/lid; other site 640512015274 ABC transporter signature motif; other site 640512015275 Walker B; other site 640512015276 D-loop; other site 640512015277 H-loop/switch region; other site 640512015278 TOBE domain; Region: TOBE_2; pfam08402 640512015279 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 640512015280 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 640512015281 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 640512015282 putative active site [active] 640512015283 Bacterial transcriptional regulator; Region: IclR; pfam01614 640512015284 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640512015285 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 640512015286 Bacterial transcriptional regulator; Region: IclR; pfam01614 640512015287 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 640512015288 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 640512015289 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 640512015290 Protein of unknown function (DUF2783); Region: DUF2783; pfam10932 640512015291 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512015292 D-galactonate transporter; Region: 2A0114; TIGR00893 640512015293 putative substrate translocation pore; other site 640512015294 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 640512015295 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 640512015296 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 640512015297 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 640512015298 dimerization interface [polypeptide binding]; other site 640512015299 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 640512015300 putative DNA binding site [nucleotide binding]; other site 640512015301 putative Zn2+ binding site [ion binding]; other site 640512015302 AsnC family; Region: AsnC_trans_reg; pfam01037 640512015303 glucose-1-dehydrogenase; Provisional; Region: PRK08936 640512015304 glucose 1 dehydrogenase (GlcDH), classical (c) SDRs; Region: GlcDH_SDR_c; cd05358 640512015305 NAD binding site [chemical binding]; other site 640512015306 homodimer interface [polypeptide binding]; other site 640512015307 active site 640512015308 Protein of unknown function (DUF3309); Region: DUF3309; pfam11752 640512015309 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512015310 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 640512015311 putative substrate translocation pore; other site 640512015312 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640512015313 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640512015314 peptidase T; Region: peptidase-T; TIGR01882 640512015315 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 640512015316 Catalytic domain of Protein Kinases; Region: PKc; cd00180 640512015317 active site 640512015318 ATP binding site [chemical binding]; other site 640512015319 substrate binding site [chemical binding]; other site 640512015320 activation loop (A-loop); other site 640512015321 Domain of unknown function (DUF4384); Region: DUF4384; pfam14326 640512015322 Caspase domain; Region: Peptidase_C14; pfam00656 640512015323 Uncharacterized conserved protein [Function unknown]; Region: COG1262 640512015324 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 640512015325 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 640512015326 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 640512015327 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640512015328 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 640512015329 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 640512015330 phosphopeptide binding site; other site 640512015331 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 640512015332 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 640512015333 phosphopeptide binding site; other site 640512015334 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 640512015335 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640512015336 HlyD family secretion protein; Region: HlyD_3; pfam13437 640512015337 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 640512015338 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 640512015339 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 640512015340 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 640512015341 ligand binding site [chemical binding]; other site 640512015342 flexible hinge region; other site 640512015343 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 640512015344 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 640512015345 ligand binding site [chemical binding]; other site 640512015346 flexible hinge region; other site 640512015347 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 640512015348 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 640512015349 putative active site [active] 640512015350 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 640512015351 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640512015352 Walker A/P-loop; other site 640512015353 ATP binding site [chemical binding]; other site 640512015354 Q-loop/lid; other site 640512015355 ABC transporter signature motif; other site 640512015356 Walker B; other site 640512015357 D-loop; other site 640512015358 H-loop/switch region; other site 640512015359 phage shock protein operon transcriptional activator; Provisional; Region: pspF; PRK11608 640512015360 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 640512015361 Walker A motif; other site 640512015362 ATP binding site [chemical binding]; other site 640512015363 Walker B motif; other site 640512015364 arginine finger; other site 640512015365 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 640512015366 Protein phosphatase 2C; Region: PP2C; pfam00481 640512015367 active site 640512015368 Lecithin retinol acyltransferase; Region: LRAT; pfam04970 640512015369 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640512015370 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512015371 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 640512015372 putative dimerization interface [polypeptide binding]; other site 640512015373 putative substrate binding pocket [chemical binding]; other site 640512015374 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 640512015375 Response regulator receiver domain; Region: Response_reg; pfam00072 640512015376 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512015377 active site 640512015378 phosphorylation site [posttranslational modification] 640512015379 intermolecular recognition site; other site 640512015380 dimerization interface [polypeptide binding]; other site 640512015381 circadian clock protein KaiC; Reviewed; Region: PRK09302 640512015382 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 640512015383 ATP binding site [chemical binding]; other site 640512015384 Walker A motif; other site 640512015385 Walker B motif; other site 640512015386 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 640512015387 Walker A motif; other site 640512015388 ATP binding site [chemical binding]; other site 640512015389 Walker B motif; other site 640512015390 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640512015391 MarR family; Region: MarR_2; pfam12802 640512015392 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 640512015393 active site lid residues [active] 640512015394 substrate binding pocket [chemical binding]; other site 640512015395 catalytic residues [active] 640512015396 substrate-Mg2+ binding site; other site 640512015397 aspartate-rich region 1; other site 640512015398 aspartate-rich region 2; other site 640512015399 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640512015400 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 640512015401 Phospholipid methyltransferase; Region: PEMT; cl17370 640512015402 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 640512015403 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 640512015404 putative active site [active] 640512015405 metal binding site [ion binding]; metal-binding site 640512015406 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 640512015407 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 640512015408 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 640512015409 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640512015410 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 640512015411 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512015412 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512015413 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 640512015414 putative dimerization interface [polypeptide binding]; other site 640512015415 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 640512015416 Citrate transporter; Region: CitMHS; pfam03600 640512015417 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 640512015418 Transcriptional regulators [Transcription]; Region: FadR; COG2186 640512015419 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640512015420 DNA-binding site [nucleotide binding]; DNA binding site 640512015421 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 640512015422 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512015423 D-galactonate transporter; Region: 2A0114; TIGR00893 640512015424 putative substrate translocation pore; other site 640512015425 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 640512015426 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 640512015427 active site 640512015428 tetramer interface [polypeptide binding]; other site 640512015429 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512015430 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640512015431 putative substrate translocation pore; other site 640512015432 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512015433 Cache domain; Region: Cache_2; pfam08269 640512015434 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640512015435 dimer interface [polypeptide binding]; other site 640512015436 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 640512015437 putative CheW interface [polypeptide binding]; other site 640512015438 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 640512015439 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 640512015440 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 640512015441 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 640512015442 DNA binding site [nucleotide binding] 640512015443 active site 640512015444 Leucine rich repeat; Region: LRR_8; pfam13855 640512015445 Leucine rich repeat; Region: LRR_8; pfam13855 640512015446 Protein tyrosine kinase; Region: Pkinase_Tyr; pfam07714 640512015447 Catalytic domain of Protein Kinases; Region: PKc; cd00180 640512015448 active site 640512015449 ATP binding site [chemical binding]; other site 640512015450 substrate binding site [chemical binding]; other site 640512015451 activation loop (A-loop); other site 640512015452 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 640512015453 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640512015454 ligand binding site [chemical binding]; other site 640512015455 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 640512015456 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 640512015457 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640512015458 dimer interface [polypeptide binding]; other site 640512015459 putative CheW interface [polypeptide binding]; other site 640512015460 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 640512015461 Uncharacterized bacterial subgroup of the Salmonella typhimurium Zn2+ transporter ZntB-like subfamily; Region: ZntB_u1; cd12834 640512015462 Cl binding site [ion binding]; other site 640512015463 oligomer interface [polypeptide binding]; other site 640512015464 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640512015465 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640512015466 metal binding site [ion binding]; metal-binding site 640512015467 active site 640512015468 I-site; other site 640512015469 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 640512015470 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 640512015471 ring oligomerisation interface [polypeptide binding]; other site 640512015472 ATP/Mg binding site [chemical binding]; other site 640512015473 stacking interactions; other site 640512015474 hinge regions; other site 640512015475 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 640512015476 oligomerisation interface [polypeptide binding]; other site 640512015477 mobile loop; other site 640512015478 roof hairpin; other site 640512015479 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 640512015480 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 640512015481 putative dimer interface [polypeptide binding]; other site 640512015482 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 640512015483 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 640512015484 substrate binding pocket [chemical binding]; other site 640512015485 membrane-bound complex binding site; other site 640512015486 hinge residues; other site 640512015487 potassium-tellurite ethidium and proflavin transporter; Provisional; Region: PRK10764 640512015488 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 640512015489 gating phenylalanine in ion channel; other site 640512015490 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 640512015491 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 640512015492 putative active site [active] 640512015493 heme pocket [chemical binding]; other site 640512015494 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 640512015495 putative active site [active] 640512015496 heme pocket [chemical binding]; other site 640512015497 PAS domain S-box; Region: sensory_box; TIGR00229 640512015498 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 640512015499 heme pocket [chemical binding]; other site 640512015500 putative active site [active] 640512015501 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 640512015502 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640512015503 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 640512015504 dimer interface [polypeptide binding]; other site 640512015505 phosphorylation site [posttranslational modification] 640512015506 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512015507 ATP binding site [chemical binding]; other site 640512015508 Mg2+ binding site [ion binding]; other site 640512015509 G-X-G motif; other site 640512015510 Response regulator receiver domain; Region: Response_reg; pfam00072 640512015511 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512015512 active site 640512015513 phosphorylation site [posttranslational modification] 640512015514 intermolecular recognition site; other site 640512015515 dimerization interface [polypeptide binding]; other site 640512015516 haemagglutination activity domain; Region: Haemagg_act; smart00912 640512015517 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 640512015518 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 640512015519 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 640512015520 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 640512015521 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 640512015522 active site 640512015523 GYD domain; Region: GYD; pfam08734 640512015524 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640512015525 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512015526 ATP binding site [chemical binding]; other site 640512015527 Mg2+ binding site [ion binding]; other site 640512015528 G-X-G motif; other site 640512015529 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 640512015530 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512015531 active site 640512015532 phosphorylation site [posttranslational modification] 640512015533 intermolecular recognition site; other site 640512015534 dimerization interface [polypeptide binding]; other site 640512015535 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 640512015536 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512015537 active site 640512015538 phosphorylation site [posttranslational modification] 640512015539 intermolecular recognition site; other site 640512015540 dimerization interface [polypeptide binding]; other site 640512015541 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 640512015542 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 640512015543 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 640512015544 active site 640512015545 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640512015546 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 640512015547 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 640512015548 dimerization interface [polypeptide binding]; other site 640512015549 ligand binding site [chemical binding]; other site 640512015550 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 640512015551 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640512015552 Walker A/P-loop; other site 640512015553 ATP binding site [chemical binding]; other site 640512015554 Q-loop/lid; other site 640512015555 ABC transporter signature motif; other site 640512015556 Walker B; other site 640512015557 D-loop; other site 640512015558 H-loop/switch region; other site 640512015559 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 640512015560 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640512015561 Walker A/P-loop; other site 640512015562 ATP binding site [chemical binding]; other site 640512015563 Q-loop/lid; other site 640512015564 ABC transporter signature motif; other site 640512015565 Walker B; other site 640512015566 D-loop; other site 640512015567 H-loop/switch region; other site 640512015568 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640512015569 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 640512015570 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 640512015571 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512015572 dimer interface [polypeptide binding]; other site 640512015573 conserved gate region; other site 640512015574 putative PBP binding loops; other site 640512015575 ABC-ATPase subunit interface; other site 640512015576 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 640512015577 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512015578 dimer interface [polypeptide binding]; other site 640512015579 conserved gate region; other site 640512015580 putative PBP binding loops; other site 640512015581 ABC-ATPase subunit interface; other site 640512015582 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 640512015583 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 640512015584 D-alanyl-D-alanine dipeptidase; Provisional; Region: PRK10178 640512015585 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 640512015586 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 640512015587 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640512015588 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 640512015589 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512015590 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512015591 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 640512015592 putative effector binding pocket; other site 640512015593 dimerization interface [polypeptide binding]; other site 640512015594 PRC-barrel domain; Region: PRC; pfam05239 640512015595 citrate-proton symporter; Provisional; Region: PRK15075 640512015596 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512015597 putative substrate translocation pore; other site 640512015598 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 640512015599 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 640512015600 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 640512015601 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 640512015602 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512015603 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512015604 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 640512015605 putative dimerization interface [polypeptide binding]; other site 640512015606 hypothetical protein; Provisional; Region: PRK05939 640512015607 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 640512015608 homodimer interface [polypeptide binding]; other site 640512015609 substrate-cofactor binding pocket; other site 640512015610 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640512015611 catalytic residue [active] 640512015612 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 640512015613 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512015614 conserved gate region; other site 640512015615 dimer interface [polypeptide binding]; other site 640512015616 putative PBP binding loops; other site 640512015617 ABC-ATPase subunit interface; other site 640512015618 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 640512015619 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512015620 dimer interface [polypeptide binding]; other site 640512015621 conserved gate region; other site 640512015622 putative PBP binding loops; other site 640512015623 ABC-ATPase subunit interface; other site 640512015624 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 640512015625 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 640512015626 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 640512015627 Walker A/P-loop; other site 640512015628 ATP binding site [chemical binding]; other site 640512015629 Q-loop/lid; other site 640512015630 ABC transporter signature motif; other site 640512015631 Walker B; other site 640512015632 D-loop; other site 640512015633 H-loop/switch region; other site 640512015634 TOBE domain; Region: TOBE_2; pfam08402 640512015635 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 640512015636 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 640512015637 [2Fe-2S] cluster binding site [ion binding]; other site 640512015638 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 640512015639 putative alpha subunit interface [polypeptide binding]; other site 640512015640 putative active site [active] 640512015641 putative substrate binding site [chemical binding]; other site 640512015642 Fe binding site [ion binding]; other site 640512015643 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512015644 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512015645 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 640512015646 putative substrate binding pocket [chemical binding]; other site 640512015647 dimerization interface [polypeptide binding]; other site 640512015648 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 640512015649 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 640512015650 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 640512015651 homotrimer interaction site [polypeptide binding]; other site 640512015652 putative active site [active] 640512015653 Uncharacterized conserved protein [Function unknown]; Region: COG3342 640512015654 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 640512015655 acetylornithine deacetylase; Provisional; Region: PRK07522 640512015656 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 640512015657 metal binding site [ion binding]; metal-binding site 640512015658 putative dimer interface [polypeptide binding]; other site 640512015659 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 640512015660 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 640512015661 GAF domain; Region: GAF; pfam01590 640512015662 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640512015663 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640512015664 metal binding site [ion binding]; metal-binding site 640512015665 active site 640512015666 I-site; other site 640512015667 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640512015668 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640512015669 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512015670 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 640512015671 dimerization interface [polypeptide binding]; other site 640512015672 substrate binding pocket [chemical binding]; other site 640512015673 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 640512015674 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 640512015675 non-specific DNA binding site [nucleotide binding]; other site 640512015676 salt bridge; other site 640512015677 sequence-specific DNA binding site [nucleotide binding]; other site 640512015678 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640512015679 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 640512015680 trimer interface [polypeptide binding]; other site 640512015681 eyelet of channel; other site 640512015682 benzoate transport; Region: 2A0115; TIGR00895 640512015683 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512015684 putative substrate translocation pore; other site 640512015685 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 640512015686 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 640512015687 FAD binding pocket [chemical binding]; other site 640512015688 FAD binding motif [chemical binding]; other site 640512015689 phosphate binding motif [ion binding]; other site 640512015690 beta-alpha-beta structure motif; other site 640512015691 NAD binding pocket [chemical binding]; other site 640512015692 Iron coordination center [ion binding]; other site 640512015693 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 640512015694 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. 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...; Region: DHOD_1B_like; cd04740 640512015695 heterodimer interface [polypeptide binding]; other site 640512015696 active site 640512015697 FMN binding site [chemical binding]; other site 640512015698 homodimer interface [polypeptide binding]; other site 640512015699 substrate binding site [chemical binding]; other site 640512015700 allantoate amidohydrolase; Reviewed; Region: PRK12892 640512015701 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 640512015702 active site 640512015703 metal binding site [ion binding]; metal-binding site 640512015704 dimer interface [polypeptide binding]; other site 640512015705 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 640512015706 active site 640512015707 substrate binding pocket [chemical binding]; other site 640512015708 dimer interface [polypeptide binding]; other site 640512015709 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 640512015710 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 640512015711 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 640512015712 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 640512015713 alpha subunit interface [polypeptide binding]; other site 640512015714 active site 640512015715 substrate binding site [chemical binding]; other site 640512015716 Fe binding site [ion binding]; other site 640512015717 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 640512015718 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 640512015719 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 640512015720 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 640512015721 FMN-binding pocket [chemical binding]; other site 640512015722 flavin binding motif; other site 640512015723 phosphate binding motif [ion binding]; other site 640512015724 beta-alpha-beta structure motif; other site 640512015725 NAD binding pocket [chemical binding]; other site 640512015726 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 640512015727 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 640512015728 catalytic loop [active] 640512015729 iron binding site [ion binding]; other site 640512015730 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512015731 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512015732 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 640512015733 putative effector binding pocket; other site 640512015734 putative dimerization interface [polypeptide binding]; other site 640512015735 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 640512015736 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640512015737 NAD binding site [chemical binding]; other site 640512015738 catalytic residues [active] 640512015739 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 640512015740 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 640512015741 dimerization interface [polypeptide binding]; other site 640512015742 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 640512015743 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640512015744 dimer interface [polypeptide binding]; other site 640512015745 putative CheW interface [polypeptide binding]; other site 640512015746 hypothetical protein; Provisional; Region: PRK06834 640512015747 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 640512015748 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 640512015749 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 640512015750 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640512015751 Bacterial transcriptional regulator; Region: IclR; pfam01614 640512015752 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640512015753 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 640512015754 trimer interface [polypeptide binding]; other site 640512015755 eyelet of channel; other site 640512015756 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 640512015757 [2Fe-2S] cluster binding site [ion binding]; other site 640512015758 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 640512015759 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 640512015760 [2Fe-2S] cluster binding site [ion binding]; other site 640512015761 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 640512015762 hydrophobic ligand binding site; other site 640512015763 short chain dehydrogenase; Provisional; Region: PRK12939 640512015764 classical (c) SDRs; Region: SDR_c; cd05233 640512015765 NAD(P) binding site [chemical binding]; other site 640512015766 active site 640512015767 Cupin domain; Region: Cupin_2; pfam07883 640512015768 Serine hydrolase; Region: Ser_hydrolase; cl17834 640512015769 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640512015770 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 640512015771 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640512015772 Bacterial transcriptional regulator; Region: IclR; pfam01614 640512015773 short chain dehydrogenase; Provisional; Region: PRK07062 640512015774 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 640512015775 putative NAD(P) binding site [chemical binding]; other site 640512015776 putative active site [active] 640512015777 hypothetical protein; Provisional; Region: PRK07064 640512015778 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 640512015779 PYR/PP interface [polypeptide binding]; other site 640512015780 dimer interface [polypeptide binding]; other site 640512015781 TPP binding site [chemical binding]; other site 640512015782 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 640512015783 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 640512015784 TPP-binding site [chemical binding]; other site 640512015785 L-aspartate dehydrogenase; Provisional; Region: PRK13303 640512015786 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 640512015787 Domain of unknown function DUF108; Region: DUF108; pfam01958 640512015788 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640512015789 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 640512015790 NAD(P) binding site [chemical binding]; other site 640512015791 catalytic residues [active] 640512015792 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 640512015793 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 640512015794 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640512015795 putative active site [active] 640512015796 putative metal binding site [ion binding]; other site 640512015797 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 640512015798 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 640512015799 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640512015800 benzoate transport; Region: 2A0115; TIGR00895 640512015801 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512015802 putative substrate translocation pore; other site 640512015803 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512015804 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 640512015805 dimer interface [polypeptide binding]; other site 640512015806 ligand binding site [chemical binding]; other site 640512015807 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 640512015808 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 640512015809 dimerization interface [polypeptide binding]; other site 640512015810 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640512015811 dimer interface [polypeptide binding]; other site 640512015812 putative CheW interface [polypeptide binding]; other site 640512015813 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 640512015814 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 640512015815 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 640512015816 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640512015817 Cytochrome c; Region: Cytochrom_C; pfam00034 640512015818 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640512015819 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 640512015820 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 640512015821 Organic solvent tolerance protein; Region: OstA_C; pfam04453 640512015822 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 640512015823 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 640512015824 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 640512015825 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 640512015826 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 640512015827 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 640512015828 Surface antigen; Region: Bac_surface_Ag; pfam01103 640512015829 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640512015830 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 640512015831 eyelet of channel; other site 640512015832 trimer interface [polypeptide binding]; other site 640512015833 Tannase and feruloyl esterase; Region: Tannase; pfam07519 640512015834 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640512015835 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 640512015836 NAD(P) binding site [chemical binding]; other site 640512015837 active site 640512015838 short chain dehydrogenase; Provisional; Region: PRK12829 640512015839 classical (c) SDRs; Region: SDR_c; cd05233 640512015840 NAD(P) binding site [chemical binding]; other site 640512015841 active site 640512015842 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512015843 D-galactonate transporter; Region: 2A0114; TIGR00893 640512015844 putative substrate translocation pore; other site 640512015845 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 640512015846 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 640512015847 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640512015848 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512015849 Predicted transcriptional regulators [Transcription]; Region: COG1733 640512015850 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 640512015851 dimerization interface [polypeptide binding]; other site 640512015852 putative DNA binding site [nucleotide binding]; other site 640512015853 putative Zn2+ binding site [ion binding]; other site 640512015854 short chain dehydrogenase; Provisional; Region: PRK06500 640512015855 classical (c) SDRs; Region: SDR_c; cd05233 640512015856 NAD(P) binding site [chemical binding]; other site 640512015857 active site 640512015858 5-histidylcysteine sulfoxide synthase; Region: ovoA_Nterm; TIGR04344 640512015859 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 640512015860 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 640512015861 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 640512015862 ligand binding site [chemical binding]; other site 640512015863 flexible hinge region; other site 640512015864 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 640512015865 putative switch regulator; other site 640512015866 non-specific DNA interactions [nucleotide binding]; other site 640512015867 DNA binding site [nucleotide binding] 640512015868 sequence specific DNA binding site [nucleotide binding]; other site 640512015869 putative cAMP binding site [chemical binding]; other site 640512015870 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 640512015871 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 640512015872 dimerization interface [polypeptide binding]; other site 640512015873 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640512015874 dimer interface [polypeptide binding]; other site 640512015875 putative CheW interface [polypeptide binding]; other site 640512015876 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 640512015877 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 640512015878 TPP-binding site [chemical binding]; other site 640512015879 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 640512015880 dimer interface [polypeptide binding]; other site 640512015881 PYR/PP interface [polypeptide binding]; other site 640512015882 TPP binding site [chemical binding]; other site 640512015883 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512015884 active site 640512015885 phosphorylation site [posttranslational modification] 640512015886 intermolecular recognition site; other site 640512015887 dimerization interface [polypeptide binding]; other site 640512015888 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 640512015889 Ligand Binding Site [chemical binding]; other site 640512015890 Autoinducer synthetase; Region: Autoind_synth; cl17404 640512015891 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 640512015892 non-specific DNA binding site [nucleotide binding]; other site 640512015893 salt bridge; other site 640512015894 sequence-specific DNA binding site [nucleotide binding]; other site 640512015895 Autoinducer binding domain; Region: Autoind_bind; pfam03472 640512015896 LuxR family transcriptional regulatory, chaperone HchA-associated; Region: reg_near_HchA; TIGR03541 640512015897 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 640512015898 DNA binding residues [nucleotide binding] 640512015899 dimerization interface [polypeptide binding]; other site 640512015900 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 640512015901 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 640512015902 hypothetical protein; Provisional; Region: PRK11622 640512015903 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 640512015904 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640512015905 Walker A/P-loop; other site 640512015906 ATP binding site [chemical binding]; other site 640512015907 Q-loop/lid; other site 640512015908 ABC transporter signature motif; other site 640512015909 Walker B; other site 640512015910 D-loop; other site 640512015911 H-loop/switch region; other site 640512015912 TOBE domain; Region: TOBE_2; pfam08402 640512015913 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 640512015914 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512015915 dimer interface [polypeptide binding]; other site 640512015916 conserved gate region; other site 640512015917 putative PBP binding loops; other site 640512015918 ABC-ATPase subunit interface; other site 640512015919 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 640512015920 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512015921 dimer interface [polypeptide binding]; other site 640512015922 conserved gate region; other site 640512015923 putative PBP binding loops; other site 640512015924 ABC-ATPase subunit interface; other site 640512015925 short chain dehydrogenase; Provisional; Region: PRK12827 640512015926 Lin1944 and related proteins, classical (c) SDRs; Region: Lin1944_like_SDR_c; cd11731 640512015927 putative NAD(P) binding site [chemical binding]; other site 640512015928 homodimer interface [polypeptide binding]; other site 640512015929 Protein of unknown function (DUF3005); Region: DUF3005; pfam11448 640512015930 Transcriptional activator HlyU; Region: HlyU; cl02273 640512015931 serine O-acetyltransferase; Region: cysE; TIGR01172 640512015932 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 640512015933 trimer interface [polypeptide binding]; other site 640512015934 active site 640512015935 substrate binding site [chemical binding]; other site 640512015936 CoA binding site [chemical binding]; other site 640512015937 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 640512015938 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 640512015939 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 640512015940 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 640512015941 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 640512015942 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 640512015943 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 640512015944 active site 640512015945 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512015946 putative transporter; Provisional; Region: PRK10504 640512015947 putative substrate translocation pore; other site 640512015948 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512015949 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 640512015950 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 640512015951 Walker A/P-loop; other site 640512015952 ATP binding site [chemical binding]; other site 640512015953 Q-loop/lid; other site 640512015954 ABC transporter signature motif; other site 640512015955 Walker B; other site 640512015956 D-loop; other site 640512015957 H-loop/switch region; other site 640512015958 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512015959 dimer interface [polypeptide binding]; other site 640512015960 conserved gate region; other site 640512015961 putative PBP binding loops; other site 640512015962 ABC-ATPase subunit interface; other site 640512015963 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640512015964 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512015965 dimer interface [polypeptide binding]; other site 640512015966 conserved gate region; other site 640512015967 putative PBP binding loops; other site 640512015968 ABC-ATPase subunit interface; other site 640512015969 ectoine/hydroxyectoine ABC transporter solute-binding protein; Region: ectoine_ehuB; TIGR02995 640512015970 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 640512015971 substrate binding pocket [chemical binding]; other site 640512015972 membrane-bound complex binding site; other site 640512015973 hinge residues; other site 640512015974 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640512015975 DNA-binding site [nucleotide binding]; DNA binding site 640512015976 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 640512015977 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 640512015978 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640512015979 homodimer interface [polypeptide binding]; other site 640512015980 catalytic residue [active] 640512015981 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 640512015982 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 640512015983 tetramer interface [polypeptide binding]; other site 640512015984 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640512015985 catalytic residue [active] 640512015986 ectoine utilization protein EutC; Validated; Region: PRK08291 640512015987 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 640512015988 ectoine utilization protein EutD; Region: ectoine_eutD; TIGR02993 640512015989 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 640512015990 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 640512015991 active site 640512015992 ectoine utilization protein EutE; Region: ectoine_eutE; TIGR02994 640512015993 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_2; cd06252 640512015994 putative active site [active] 640512015995 Zn binding site [ion binding]; other site 640512015996 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 640512015997 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 640512015998 putative DNA binding site [nucleotide binding]; other site 640512015999 putative Zn2+ binding site [ion binding]; other site 640512016000 AsnC family; Region: AsnC_trans_reg; pfam01037 640512016001 succinic semialdehyde dehydrogenase; Region: PLN02278 640512016002 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 640512016003 tetramerization interface [polypeptide binding]; other site 640512016004 NAD(P) binding site [chemical binding]; other site 640512016005 catalytic residues [active] 640512016006 hypothetical protein; Provisional; Region: PRK07482 640512016007 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 640512016008 inhibitor-cofactor binding pocket; inhibition site 640512016009 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640512016010 catalytic residue [active] 640512016011 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 640512016012 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 640512016013 Domain of unknown function (DUF4285); Region: DUF4285; pfam14113 640512016014 PAAR motif; Region: PAAR_motif; pfam05488 640512016015 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 640512016016 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 640512016017 protein binding site [polypeptide binding]; other site 640512016018 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 640512016019 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640512016020 active site 640512016021 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 640512016022 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 640512016023 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 640512016024 CHAD domain; Region: CHAD; pfam05235 640512016025 Cache domain; Region: Cache_1; pfam02743 640512016026 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640512016027 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640512016028 metal binding site [ion binding]; metal-binding site 640512016029 active site 640512016030 I-site; other site 640512016031 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 640512016032 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 640512016033 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 640512016034 active site residue [active] 640512016035 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 640512016036 EamA-like transporter family; Region: EamA; pfam00892 640512016037 EamA-like transporter family; Region: EamA; pfam00892 640512016038 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 640512016039 GTP cyclohydrolase I; Provisional; Region: PLN03044 640512016040 active site 640512016041 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512016042 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512016043 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 640512016044 substrate binding pocket [chemical binding]; other site 640512016045 dimerization interface [polypeptide binding]; other site 640512016046 3-oxoacid CoA-transferase, A subunit; Region: pcaI_scoA_fam; TIGR02429 640512016047 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 640512016048 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK09053 640512016049 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 640512016050 tetramer interface [polypeptide binding]; other site 640512016051 active site 640512016052 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 640512016053 TAP-like protein; Region: Abhydrolase_4; pfam08386 640512016054 4-carboxymuconolactone decarboxylase; Region: decarb_PcaC; TIGR02425 640512016055 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640512016056 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640512016057 hypothetical protein; Provisional; Region: PRK04334 640512016058 Amino acid synthesis; Region: AA_synth; pfam06684 640512016059 Amino acid synthesis; Region: AA_synth; pfam06684 640512016060 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640512016061 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 640512016062 TM-ABC transporter signature motif; other site 640512016063 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 640512016064 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 640512016065 TM-ABC transporter signature motif; other site 640512016066 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 640512016067 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 640512016068 Walker A/P-loop; other site 640512016069 ATP binding site [chemical binding]; other site 640512016070 Q-loop/lid; other site 640512016071 ABC transporter signature motif; other site 640512016072 Walker B; other site 640512016073 D-loop; other site 640512016074 H-loop/switch region; other site 640512016075 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 640512016076 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 640512016077 Walker A/P-loop; other site 640512016078 ATP binding site [chemical binding]; other site 640512016079 Q-loop/lid; other site 640512016080 ABC transporter signature motif; other site 640512016081 Walker B; other site 640512016082 D-loop; other site 640512016083 H-loop/switch region; other site 640512016084 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 640512016085 Amidohydrolase; Region: Amidohydro_4; pfam13147 640512016086 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 640512016087 active site 640512016088 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 640512016089 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 640512016090 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 640512016091 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640512016092 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 640512016093 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 640512016094 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640512016095 Cytochrome c; Region: Cytochrom_C; pfam00034 640512016096 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640512016097 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 640512016098 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 640512016099 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_Arsenic_SBP_like; cd06330 640512016100 putative ligand binding site [chemical binding]; other site 640512016101 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 640512016102 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 640512016103 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512016104 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512016105 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 640512016106 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 640512016107 substrate binding site [chemical binding]; other site 640512016108 oxyanion hole (OAH) forming residues; other site 640512016109 trimer interface [polypeptide binding]; other site 640512016110 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 640512016111 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 640512016112 active site 640512016113 dimer interface [polypeptide binding]; other site 640512016114 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 640512016115 Ligand Binding Site [chemical binding]; other site 640512016116 Molecular Tunnel; other site 640512016117 EamA-like transporter family; Region: EamA; pfam00892 640512016118 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 640512016119 P-aminobenzoate N-oxygenase AurF; Region: AurF; pfam11583 640512016120 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 640512016121 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 640512016122 FAD binding pocket [chemical binding]; other site 640512016123 conserved FAD binding motif [chemical binding]; other site 640512016124 phosphate binding motif [ion binding]; other site 640512016125 beta-alpha-beta structure motif; other site 640512016126 NAD binding pocket [chemical binding]; other site 640512016127 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 640512016128 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 640512016129 catalytic loop [active] 640512016130 iron binding site [ion binding]; other site 640512016131 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 640512016132 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 640512016133 inhibitor-cofactor binding pocket; inhibition site 640512016134 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640512016135 catalytic residue [active] 640512016136 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 640512016137 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640512016138 DNA-binding site [nucleotide binding]; DNA binding site 640512016139 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 640512016140 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640512016141 homodimer interface [polypeptide binding]; other site 640512016142 catalytic residue [active] 640512016143 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 640512016144 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 640512016145 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 640512016146 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 640512016147 Domain of unknown function (DUF305); Region: DUF305; cl17794 640512016148 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640512016149 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512016150 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 640512016151 putative effector binding pocket; other site 640512016152 dimerization interface [polypeptide binding]; other site 640512016153 short chain dehydrogenase; Provisional; Region: PRK06500 640512016154 classical (c) SDRs; Region: SDR_c; cd05233 640512016155 NAD(P) binding site [chemical binding]; other site 640512016156 active site 640512016157 Domain of unknown function (DUF4396); Region: DUF4396; pfam14342 640512016158 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 640512016159 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 640512016160 Cytochrome c; Region: Cytochrom_C; pfam00034 640512016161 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 640512016162 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 640512016163 D-pathway; other site 640512016164 Putative ubiquinol binding site [chemical binding]; other site 640512016165 Low-spin heme (heme b) binding site [chemical binding]; other site 640512016166 Putative water exit pathway; other site 640512016167 Binuclear center (heme o3/CuB) [ion binding]; other site 640512016168 K-pathway; other site 640512016169 Putative proton exit pathway; other site 640512016170 Heme-copper oxidase subunit III subfamily. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane; Region: Heme_Cu_Oxidase_III_2; cd02865 640512016171 Subunit I/III interface [polypeptide binding]; other site 640512016172 Cytochrome c; Region: Cytochrom_C; pfam00034 640512016173 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640512016174 Cytochrome c; Region: Cytochrom_C; pfam00034 640512016175 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640512016176 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 640512016177 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 640512016178 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD_like; cd08296 640512016179 putative NAD(P) binding site [chemical binding]; other site 640512016180 putative substrate binding site [chemical binding]; other site 640512016181 catalytic Zn binding site [ion binding]; other site 640512016182 structural Zn binding site [ion binding]; other site 640512016183 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 640512016184 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 640512016185 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 640512016186 putative catalytic site [active] 640512016187 putative metal binding site [ion binding]; other site 640512016188 putative phosphate binding site [ion binding]; other site 640512016189 putative metal binding site [ion binding]; other site 640512016190 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_2; cd08895 640512016191 putative hydrophobic ligand binding site [chemical binding]; other site 640512016192 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 640512016193 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 640512016194 S-adenosylmethionine binding site [chemical binding]; other site 640512016195 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 640512016196 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 640512016197 Uncharacterized conserved protein [Function unknown]; Region: COG3791 640512016198 osmolarity response regulator; Provisional; Region: ompR; PRK09468 640512016199 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512016200 active site 640512016201 phosphorylation site [posttranslational modification] 640512016202 intermolecular recognition site; other site 640512016203 dimerization interface [polypeptide binding]; other site 640512016204 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 640512016205 DNA binding site [nucleotide binding] 640512016206 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640512016207 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 640512016208 dimerization interface [polypeptide binding]; other site 640512016209 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 640512016210 dimer interface [polypeptide binding]; other site 640512016211 phosphorylation site [posttranslational modification] 640512016212 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512016213 ATP binding site [chemical binding]; other site 640512016214 Mg2+ binding site [ion binding]; other site 640512016215 G-X-G motif; other site 640512016216 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 640512016217 Moco binding site; other site 640512016218 metal coordination site [ion binding]; other site 640512016219 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 640512016220 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 640512016221 NMT1-like family; Region: NMT1_2; pfam13379 640512016222 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 640512016223 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 640512016224 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 640512016225 Walker A/P-loop; other site 640512016226 ATP binding site [chemical binding]; other site 640512016227 Q-loop/lid; other site 640512016228 ABC transporter signature motif; other site 640512016229 Walker B; other site 640512016230 D-loop; other site 640512016231 H-loop/switch region; other site 640512016232 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 640512016233 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512016234 putative PBP binding loops; other site 640512016235 dimer interface [polypeptide binding]; other site 640512016236 ABC-ATPase subunit interface; other site 640512016237 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 640512016238 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640512016239 classical (c) SDRs; Region: SDR_c; cd05233 640512016240 NAD(P) binding site [chemical binding]; other site 640512016241 active site 640512016242 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 640512016243 active site 1 [active] 640512016244 dimer interface [polypeptide binding]; other site 640512016245 hexamer interface [polypeptide binding]; other site 640512016246 active site 2 [active] 640512016247 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640512016248 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512016249 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 640512016250 dimerization interface [polypeptide binding]; other site 640512016251 substrate binding pocket [chemical binding]; other site 640512016252 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 640512016253 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 640512016254 catalytic residues [active] 640512016255 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 640512016256 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 640512016257 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 640512016258 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 640512016259 catalytic residues [active] 640512016260 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 640512016261 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512016262 active site 640512016263 phosphorylation site [posttranslational modification] 640512016264 intermolecular recognition site; other site 640512016265 dimerization interface [polypeptide binding]; other site 640512016266 Domain of unknown function (DUF4410); Region: DUF4410; pfam14366 640512016267 Phasin protein; Region: Phasin_2; cl11491 640512016268 Protein of unknown function (DUF2844); Region: DUF2844; pfam11005 640512016269 Protein of unknown function (DUF3443); Region: DUF3443; pfam11925 640512016270 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4307 640512016271 Uncharacterized protein conserved in bacteria (DUF2248); Region: DUF2248; pfam10005 640512016272 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 640512016273 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 640512016274 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 640512016275 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 640512016276 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 640512016277 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 640512016278 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 640512016279 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 640512016280 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 640512016281 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 640512016282 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 640512016283 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640512016284 MarR family; Region: MarR_2; pfam12802 640512016285 Transcriptional regulators [Transcription]; Region: MarR; COG1846 640512016286 MarR family; Region: MarR; pfam01047 640512016287 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 640512016288 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640512016289 HlyD family secretion protein; Region: HlyD_3; pfam13437 640512016290 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512016291 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640512016292 putative substrate translocation pore; other site 640512016293 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640512016294 Protein of unknown function, DUF488; Region: DUF488; pfam04343 640512016295 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 640512016296 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 640512016297 Cl- selectivity filter; other site 640512016298 Cl- binding residues [ion binding]; other site 640512016299 pore gating glutamate residue; other site 640512016300 dimer interface [polypeptide binding]; other site 640512016301 FOG: CBS domain [General function prediction only]; Region: COG0517 640512016302 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 640512016303 MarR family; Region: MarR_2; pfam12802 640512016304 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 640512016305 HPP family; Region: HPP; pfam04982 640512016306 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 640512016307 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 640512016308 Ligand Binding Site [chemical binding]; other site 640512016309 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 640512016310 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 640512016311 S-adenosylmethionine binding site [chemical binding]; other site 640512016312 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640512016313 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 640512016314 dimer interface [polypeptide binding]; other site 640512016315 phosphorylation site [posttranslational modification] 640512016316 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512016317 ATP binding site [chemical binding]; other site 640512016318 Mg2+ binding site [ion binding]; other site 640512016319 G-X-G motif; other site 640512016320 Response regulator receiver domain; Region: Response_reg; pfam00072 640512016321 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512016322 active site 640512016323 phosphorylation site [posttranslational modification] 640512016324 intermolecular recognition site; other site 640512016325 dimerization interface [polypeptide binding]; other site 640512016326 Response regulator receiver domain; Region: Response_reg; pfam00072 640512016327 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512016328 active site 640512016329 phosphorylation site [posttranslational modification] 640512016330 intermolecular recognition site; other site 640512016331 dimerization interface [polypeptide binding]; other site 640512016332 PAS domain S-box; Region: sensory_box; TIGR00229 640512016333 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 640512016334 putative active site [active] 640512016335 heme pocket [chemical binding]; other site 640512016336 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 640512016337 Histidine kinase; Region: HisKA_3; pfam07730 640512016338 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512016339 ATP binding site [chemical binding]; other site 640512016340 Mg2+ binding site [ion binding]; other site 640512016341 G-X-G motif; other site 640512016342 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640512016343 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512016344 active site 640512016345 phosphorylation site [posttranslational modification] 640512016346 intermolecular recognition site; other site 640512016347 dimerization interface [polypeptide binding]; other site 640512016348 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 640512016349 DNA binding residues [nucleotide binding] 640512016350 dimerization interface [polypeptide binding]; other site 640512016351 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 640512016352 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 640512016353 Nucleoside recognition; Region: Gate; pfam07670 640512016354 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 640512016355 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 640512016356 active site 640512016357 catalytic motif [active] 640512016358 Zn binding site [ion binding]; other site 640512016359 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 640512016360 active site 640512016361 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 640512016362 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 640512016363 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 640512016364 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 640512016365 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 640512016366 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640512016367 hydroxyglutarate oxidase; Provisional; Region: PRK11728 640512016368 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 640512016369 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 640512016370 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 640512016371 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 640512016372 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 640512016373 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512016374 dimer interface [polypeptide binding]; other site 640512016375 conserved gate region; other site 640512016376 putative PBP binding loops; other site 640512016377 ABC-ATPase subunit interface; other site 640512016378 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 640512016379 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512016380 dimer interface [polypeptide binding]; other site 640512016381 conserved gate region; other site 640512016382 putative PBP binding loops; other site 640512016383 ABC-ATPase subunit interface; other site 640512016384 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 640512016385 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640512016386 Walker A/P-loop; other site 640512016387 ATP binding site [chemical binding]; other site 640512016388 Q-loop/lid; other site 640512016389 ABC transporter signature motif; other site 640512016390 Walker B; other site 640512016391 D-loop; other site 640512016392 H-loop/switch region; other site 640512016393 TOBE domain; Region: TOBE_2; pfam08402 640512016394 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640512016395 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 640512016396 Bacterial transcriptional regulator; Region: IclR; pfam01614 640512016397 outer membrane porin, OprD family; Region: OprD; pfam03573 640512016398 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 640512016399 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640512016400 Walker A/P-loop; other site 640512016401 ATP binding site [chemical binding]; other site 640512016402 Q-loop/lid; other site 640512016403 ABC transporter signature motif; other site 640512016404 Walker B; other site 640512016405 D-loop; other site 640512016406 H-loop/switch region; other site 640512016407 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640512016408 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 640512016409 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640512016410 Walker A/P-loop; other site 640512016411 ATP binding site [chemical binding]; other site 640512016412 Q-loop/lid; other site 640512016413 ABC transporter signature motif; other site 640512016414 Walker B; other site 640512016415 D-loop; other site 640512016416 H-loop/switch region; other site 640512016417 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640512016418 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 640512016419 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512016420 dimer interface [polypeptide binding]; other site 640512016421 conserved gate region; other site 640512016422 putative PBP binding loops; other site 640512016423 ABC-ATPase subunit interface; other site 640512016424 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 640512016425 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512016426 dimer interface [polypeptide binding]; other site 640512016427 conserved gate region; other site 640512016428 putative PBP binding loops; other site 640512016429 ABC-ATPase subunit interface; other site 640512016430 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 640512016431 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 640512016432 peptide binding site [polypeptide binding]; other site 640512016433 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 640512016434 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 640512016435 non-specific DNA binding site [nucleotide binding]; other site 640512016436 salt bridge; other site 640512016437 sequence-specific DNA binding site [nucleotide binding]; other site 640512016438 Cupin domain; Region: Cupin_2; pfam07883 640512016439 dipeptide/tripeptide permease B; Provisional; Region: PRK10207 640512016440 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512016441 putative substrate translocation pore; other site 640512016442 POT family; Region: PTR2; cl17359 640512016443 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 640512016444 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640512016445 DNA-binding site [nucleotide binding]; DNA binding site 640512016446 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 640512016447 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640512016448 homodimer interface [polypeptide binding]; other site 640512016449 catalytic residue [active] 640512016450 IHF dimer interface [polypeptide binding]; other site 640512016451 Bacterial DNA-binding protein; Region: Bac_DNA_binding; pfam00216 640512016452 IHF - DNA interface [nucleotide binding]; other site 640512016453 Uncharacterized conserved protein [Function unknown]; Region: COG2308 640512016454 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 640512016455 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 640512016456 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 640512016457 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 640512016458 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 640512016459 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 640512016460 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 640512016461 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640512016462 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 640512016463 trimer interface [polypeptide binding]; other site 640512016464 eyelet of channel; other site 640512016465 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 640512016466 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 640512016467 putative deacylase active site [active] 640512016468 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 640512016469 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 640512016470 FAD binding domain; Region: FAD_binding_4; pfam01565 640512016471 Berberine and berberine like; Region: BBE; pfam08031 640512016472 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 640512016473 putative active site [active] 640512016474 putative metal binding site [ion binding]; other site 640512016475 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 640512016476 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 640512016477 ATP binding site [chemical binding]; other site 640512016478 putative Mg++ binding site [ion binding]; other site 640512016479 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 640512016480 nucleotide binding region [chemical binding]; other site 640512016481 ATP-binding site [chemical binding]; other site 640512016482 DEAD/H associated; Region: DEAD_assoc; pfam08494 640512016483 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 640512016484 Predicted amidohydrolase [General function prediction only]; Region: COG0388 640512016485 active site 640512016486 catalytic triad [active] 640512016487 dimer interface [polypeptide binding]; other site 640512016488 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 640512016489 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 640512016490 H-NS histone family; Region: Histone_HNS; pfam00816 640512016491 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 640512016492 H-NS histone family; Region: Histone_HNS; pfam00816 640512016493 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 640512016494 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640512016495 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512016496 active site 640512016497 phosphorylation site [posttranslational modification] 640512016498 intermolecular recognition site; other site 640512016499 dimerization interface [polypeptide binding]; other site 640512016500 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 640512016501 DNA binding residues [nucleotide binding] 640512016502 dimerization interface [polypeptide binding]; other site 640512016503 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 640512016504 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 640512016505 Histidine kinase; Region: HisKA_3; pfam07730 640512016506 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512016507 ATP binding site [chemical binding]; other site 640512016508 Mg2+ binding site [ion binding]; other site 640512016509 G-X-G motif; other site 640512016510 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 640512016511 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 640512016512 Na binding site [ion binding]; other site 640512016513 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 640512016514 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512016515 The 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 640512016516 dimerization interface [polypeptide binding]; other site 640512016517 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640512016518 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640512016519 metal binding site [ion binding]; metal-binding site 640512016520 active site 640512016521 I-site; other site 640512016522 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 640512016523 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 640512016524 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640512016525 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 640512016526 Amidase; Region: Amidase; pfam01425 640512016527 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512016528 metabolite-proton symporter; Region: 2A0106; TIGR00883 640512016529 putative substrate translocation pore; other site 640512016530 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 640512016531 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 640512016532 non-specific DNA binding site [nucleotide binding]; other site 640512016533 salt bridge; other site 640512016534 sequence-specific DNA binding site [nucleotide binding]; other site 640512016535 Cupin domain; Region: Cupin_2; pfam07883 640512016536 Protein of unknown function (DUF3348); Region: DUF3348; pfam11828 640512016537 Protein of unknown function (DUF456); Region: DUF456; pfam04306 640512016538 Domain of unknown function (DUF802); Region: DUF802; pfam05650 640512016539 hypothetical protein; Provisional; Region: PRK09040 640512016540 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640512016541 ligand binding site [chemical binding]; other site 640512016542 Protein of unknown function (DUF2894); Region: DUF2894; pfam11445 640512016543 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 640512016544 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 640512016545 motif II; other site 640512016546 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 640512016547 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512016548 active site 640512016549 phosphorylation site [posttranslational modification] 640512016550 intermolecular recognition site; other site 640512016551 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640512016552 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512016553 ATP binding site [chemical binding]; other site 640512016554 Mg2+ binding site [ion binding]; other site 640512016555 G-X-G motif; other site 640512016556 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 640512016557 active site 640512016558 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 640512016559 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 640512016560 active site 640512016561 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07066 640512016562 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 640512016563 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 640512016564 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 640512016565 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 640512016566 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 640512016567 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640512016568 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 640512016569 conserved cys residue [active] 640512016570 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512016571 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640512016572 succinic semialdehyde dehydrogenase; Region: PLN02278 640512016573 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 640512016574 tetramerization interface [polypeptide binding]; other site 640512016575 NAD(P) binding site [chemical binding]; other site 640512016576 catalytic residues [active] 640512016577 4-aminobutyrate aminotransferase; Provisional; Region: PRK07495 640512016578 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 640512016579 inhibitor-cofactor binding pocket; inhibition site 640512016580 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640512016581 catalytic residue [active] 640512016582 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 640512016583 EamA-like transporter family; Region: EamA; pfam00892 640512016584 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_7; cd03862 640512016585 putative active site [active] 640512016586 Zn binding site [ion binding]; other site 640512016587 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 640512016588 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 640512016589 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 640512016590 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 640512016591 Cation efflux family; Region: Cation_efflux; pfam01545 640512016592 Purine nucleoside permease (NUP); Region: NUP; pfam06516 640512016593 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640512016594 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512016595 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512016596 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 640512016597 putative effector binding pocket; other site 640512016598 putative dimerization interface [polypeptide binding]; other site 640512016599 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 640512016600 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 640512016601 substrate binding pocket [chemical binding]; other site 640512016602 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 640512016603 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640512016604 HlyD family secretion protein; Region: HlyD_3; pfam13437 640512016605 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 640512016606 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640512016607 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 640512016608 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 640512016609 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 640512016610 active site 640512016611 non-prolyl cis peptide bond; other site 640512016612 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 640512016613 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 640512016614 Walker A/P-loop; other site 640512016615 ATP binding site [chemical binding]; other site 640512016616 Q-loop/lid; other site 640512016617 ABC transporter signature motif; other site 640512016618 Walker B; other site 640512016619 D-loop; other site 640512016620 H-loop/switch region; other site 640512016621 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 640512016622 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512016623 dimer interface [polypeptide binding]; other site 640512016624 conserved gate region; other site 640512016625 ABC-ATPase subunit interface; other site 640512016626 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 640512016627 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 640512016628 Flavin binding site [chemical binding]; other site 640512016629 manganese transport protein MntH; Reviewed; Region: PRK00701 640512016630 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 640512016631 transcriptional activator FlhC; Provisional; Region: PRK12860 640512016632 transcriptional activator FlhD; Provisional; Region: PRK02909 640512016633 Predicted transporter component [General function prediction only]; Region: COG2391 640512016634 Sulphur transport; Region: Sulf_transp; pfam04143 640512016635 Sulphur transport; Region: Sulf_transp; pfam04143 640512016636 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 640512016637 non-specific DNA binding site [nucleotide binding]; other site 640512016638 salt bridge; other site 640512016639 sequence-specific DNA binding site [nucleotide binding]; other site 640512016640 Dehydratase family; Region: ILVD_EDD; cl00340 640512016641 SnoaL-like domain; Region: SnoaL_2; pfam12680 640512016642 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 640512016643 Predicted membrane protein [Function unknown]; Region: COG2259 640512016644 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512016645 putative substrate translocation pore; other site 640512016646 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512016647 metabolite-proton symporter; Region: 2A0106; TIGR00883 640512016648 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512016649 putative substrate translocation pore; other site 640512016650 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 640512016651 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512016652 active site 640512016653 phosphorylation site [posttranslational modification] 640512016654 intermolecular recognition site; other site 640512016655 dimerization interface [polypeptide binding]; other site 640512016656 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 640512016657 DNA binding site [nucleotide binding] 640512016658 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 640512016659 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 640512016660 inhibitor site; inhibition site 640512016661 active site 640512016662 dimer interface [polypeptide binding]; other site 640512016663 catalytic residue [active] 640512016664 hydroxyproline-2-epimerase; Provisional; Region: PRK13970 640512016665 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 640512016666 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640512016667 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 640512016668 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 640512016669 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 640512016670 PAS fold; Region: PAS_4; pfam08448 640512016671 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 640512016672 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512016673 cyclic peptide transporter; Region: cyc_pep_trnsptr; TIGR01194 640512016674 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 640512016675 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 640512016676 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 640512016677 dimer interface [polypeptide binding]; other site 640512016678 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 640512016679 active site 640512016680 Fe binding site [ion binding]; other site 640512016681 Dehydroquinase class II; Region: DHquinase_II; pfam01220 640512016682 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 640512016683 active site 640512016684 trimer interface [polypeptide binding]; other site 640512016685 dimer interface [polypeptide binding]; other site 640512016686 shikimate 5-dehydrogenase; Reviewed; Region: PRK12549 640512016687 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 640512016688 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 640512016689 shikimate binding site; other site 640512016690 NAD(P) binding site [chemical binding]; other site 640512016691 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512016692 D-galactonate transporter; Region: 2A0114; TIGR00893 640512016693 putative substrate translocation pore; other site 640512016694 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512016695 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640512016696 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640512016697 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 640512016698 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640512016699 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 640512016700 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 640512016701 inhibitor site; inhibition site 640512016702 active site 640512016703 dimer interface [polypeptide binding]; other site 640512016704 catalytic residue [active] 640512016705 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512016706 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512016707 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 640512016708 putative dimerization interface [polypeptide binding]; other site 640512016709 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 640512016710 Transglycosylase; Region: Transgly; cl17702 640512016711 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 640512016712 MarR family; Region: MarR_2; pfam12802 640512016713 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 640512016714 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 640512016715 nucleotide binding site [chemical binding]; other site 640512016716 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 640512016717 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 640512016718 Walker A/P-loop; other site 640512016719 ATP binding site [chemical binding]; other site 640512016720 Q-loop/lid; other site 640512016721 ABC transporter signature motif; other site 640512016722 Walker B; other site 640512016723 D-loop; other site 640512016724 H-loop/switch region; other site 640512016725 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640512016726 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 640512016727 TM-ABC transporter signature motif; other site 640512016728 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 640512016729 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640512016730 ligand binding site [chemical binding]; other site 640512016731 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640512016732 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640512016733 DNA binding site [nucleotide binding] 640512016734 domain linker motif; other site 640512016735 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 640512016736 dimerization interface [polypeptide binding]; other site 640512016737 ligand binding site [chemical binding]; other site 640512016738 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 640512016739 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 640512016740 Walker A/P-loop; other site 640512016741 ATP binding site [chemical binding]; other site 640512016742 Q-loop/lid; other site 640512016743 ABC transporter signature motif; other site 640512016744 Walker B; other site 640512016745 D-loop; other site 640512016746 H-loop/switch region; other site 640512016747 TOBE domain; Region: TOBE_2; pfam08402 640512016748 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 640512016749 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 640512016750 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 640512016751 Beta-galactosidase C-terminal domain; Region: Glyco_hydro_42C; pfam08533 640512016752 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 640512016753 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 640512016754 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 640512016755 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512016756 dimer interface [polypeptide binding]; other site 640512016757 putative PBP binding loops; other site 640512016758 ABC-ATPase subunit interface; other site 640512016759 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 640512016760 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512016761 dimer interface [polypeptide binding]; other site 640512016762 conserved gate region; other site 640512016763 putative PBP binding loops; other site 640512016764 ABC-ATPase subunit interface; other site 640512016765 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 640512016766 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 640512016767 ligand binding site [chemical binding]; other site 640512016768 flexible hinge region; other site 640512016769 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 640512016770 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 640512016771 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 640512016772 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640512016773 ligand binding site [chemical binding]; other site 640512016774 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 640512016775 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 640512016776 ligand binding site [chemical binding]; other site 640512016777 flexible hinge region; other site 640512016778 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 640512016779 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 640512016780 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 640512016781 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 640512016782 ligand binding site [chemical binding]; other site 640512016783 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 640512016784 dimerization interface [polypeptide binding]; other site 640512016785 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640512016786 dimer interface [polypeptide binding]; other site 640512016787 putative CheW interface [polypeptide binding]; other site 640512016788 glutathionine S-transferase; Provisional; Region: PRK10542 640512016789 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 640512016790 C-terminal domain interface [polypeptide binding]; other site 640512016791 GSH binding site (G-site) [chemical binding]; other site 640512016792 dimer interface [polypeptide binding]; other site 640512016793 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 640512016794 dimer interface [polypeptide binding]; other site 640512016795 N-terminal domain interface [polypeptide binding]; other site 640512016796 substrate binding pocket (H-site) [chemical binding]; other site 640512016797 thiamine pyrophosphate protein; Provisional; Region: PRK08273 640512016798 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 640512016799 PYR/PP interface [polypeptide binding]; other site 640512016800 dimer interface [polypeptide binding]; other site 640512016801 tetramer interface [polypeptide binding]; other site 640512016802 TPP binding site [chemical binding]; other site 640512016803 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 640512016804 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 640512016805 TPP-binding site [chemical binding]; other site 640512016806 short chain dehydrogenase; Provisional; Region: PRK07109 640512016807 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 640512016808 putative NAD(P) binding site [chemical binding]; other site 640512016809 active site 640512016810 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 640512016811 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 640512016812 catalytic residues [active] 640512016813 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 640512016814 Uncharacterized protein conserved in bacteria (DUF2322); Region: DUF2322; pfam10084 640512016815 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 640512016816 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 640512016817 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 640512016818 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 640512016819 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 640512016820 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 640512016821 N-terminal plug; other site 640512016822 ligand-binding site [chemical binding]; other site 640512016823 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 640512016824 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 640512016825 TPR motif; other site 640512016826 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 640512016827 binding surface 640512016828 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 640512016829 binding surface 640512016830 TPR motif; other site 640512016831 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 640512016832 binding surface 640512016833 TPR motif; other site 640512016834 TPR repeat; Region: TPR_11; pfam13414 640512016835 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 640512016836 Uncharacterized conserved protein [Function unknown]; Region: COG5649 640512016837 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_6; cd08899 640512016838 putative hydrophobic ligand binding site [chemical binding]; other site 640512016839 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 640512016840 putative DNA binding site [nucleotide binding]; other site 640512016841 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 640512016842 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512016843 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 640512016844 dimerization interface [polypeptide binding]; other site 640512016845 substrate binding pocket [chemical binding]; other site 640512016846 Predicted amidohydrolase [General function prediction only]; Region: COG0388 640512016847 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 640512016848 active site 640512016849 catalytic triad [active] 640512016850 dimer interface [polypeptide binding]; other site 640512016851 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2828 640512016852 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512016853 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512016854 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 640512016855 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512016856 The 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 640512016857 dimerization interface [polypeptide binding]; other site 640512016858 Transcriptional regulators [Transcription]; Region: FadR; COG2186 640512016859 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640512016860 DNA-binding site [nucleotide binding]; DNA binding site 640512016861 FCD domain; Region: FCD; pfam07729 640512016862 The N-terminal domain of the Class III extradiol dioxygenase, Gallate Dioxygenase, which catalyzes the oxidization and subsequent ring-opening of gallate; Region: Gallate_Doxase_N; cd07950 640512016863 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 640512016864 putative active site [active] 640512016865 Fe(II) binding site [ion binding]; other site 640512016866 putative dimer interface [polypeptide binding]; other site 640512016867 The C-terminal domain of Gallate Dioxygenase, which catalyzes the oxidization and subsequent ring-opening of gallate; Region: Gallate_dioxygenase_C; cd07923 640512016868 putative dimer interface [polypeptide binding]; other site 640512016869 putative N- and C-terminal domain interface [polypeptide binding]; other site 640512016870 benzoate transport; Region: 2A0115; TIGR00895 640512016871 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512016872 putative substrate translocation pore; other site 640512016873 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512016874 Phosphoesterase family; Region: Phosphoesterase; pfam04185 640512016875 DNA polymerase II; Reviewed; Region: PRK05762 640512016876 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 640512016877 active site 640512016878 catalytic site [active] 640512016879 substrate binding site [chemical binding]; other site 640512016880 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 640512016881 active site 640512016882 metal-binding site 640512016883 PRC-barrel domain; Region: PRC; pfam05239 640512016884 Protein of unknown function (DUF2891); Region: DUF2891; pfam11199 640512016885 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 640512016886 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512016887 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512016888 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 640512016889 putative dimerization interface [polypeptide binding]; other site 640512016890 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 640512016891 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 640512016892 active site 640512016893 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 640512016894 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 640512016895 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 640512016896 trimer interface [polypeptide binding]; other site 640512016897 eyelet of channel; other site 640512016898 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640512016899 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 640512016900 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 640512016901 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640512016902 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 640512016903 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 640512016904 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 640512016905 Sulfate transporter family; Region: Sulfate_transp; pfam00916 640512016906 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 640512016907 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 640512016908 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 640512016909 putative NAD(P) binding site [chemical binding]; other site 640512016910 putative substrate binding site [chemical binding]; other site 640512016911 catalytic Zn binding site [ion binding]; other site 640512016912 structural Zn binding site [ion binding]; other site 640512016913 Cupin domain; Region: Cupin_2; cl17218 640512016914 transcriptional regulator; Provisional; Region: PRK10632 640512016915 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512016916 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 640512016917 putative effector binding pocket; other site 640512016918 putative dimerization interface [polypeptide binding]; other site 640512016919 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 640512016920 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 640512016921 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512016922 putative substrate translocation pore; other site 640512016923 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640512016924 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640512016925 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512016926 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 640512016927 dimerization interface [polypeptide binding]; other site 640512016928 substrate binding pocket [chemical binding]; other site 640512016929 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 640512016930 Predicted signal transduction protein containing a membrane domain, an EAL and a GGDEF domain [Signal transduction mechanisms]; Region: COG5001 640512016931 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640512016932 metal binding site [ion binding]; metal-binding site 640512016933 active site 640512016934 I-site; other site 640512016935 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 640512016936 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 640512016937 IHF dimer interface [polypeptide binding]; other site 640512016938 IHF - DNA interface [nucleotide binding]; other site 640512016939 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 640512016940 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 640512016941 Protein of unknown function (DUF2000); Region: DUF2000; pfam09391 640512016942 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 640512016943 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512016944 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640512016945 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512016946 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 640512016947 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 640512016948 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640512016949 TM-ABC transporter signature motif; other site 640512016950 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 640512016951 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640512016952 TM-ABC transporter signature motif; other site 640512016953 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 640512016954 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 640512016955 Walker A/P-loop; other site 640512016956 ATP binding site [chemical binding]; other site 640512016957 Q-loop/lid; other site 640512016958 ABC transporter signature motif; other site 640512016959 Walker B; other site 640512016960 D-loop; other site 640512016961 H-loop/switch region; other site 640512016962 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 640512016963 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 640512016964 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640512016965 putative ligand binding site [chemical binding]; other site 640512016966 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640512016967 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640512016968 DNA binding site [nucleotide binding] 640512016969 Ligand-binding domain of DNA-binding regulatory proteins specific to sucrose that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_sucrose_transcription_regulator; cd06288 640512016970 putative dimerization interface [polypeptide binding]; other site 640512016971 putative ligand binding site [chemical binding]; other site 640512016972 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 640512016973 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 640512016974 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 640512016975 Beta-lactamase; Region: Beta-lactamase; pfam00144 640512016976 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640512016977 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640512016978 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 640512016979 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640512016980 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 640512016981 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 640512016982 dimerization interface [polypeptide binding]; other site 640512016983 putative DNA binding site [nucleotide binding]; other site 640512016984 putative Zn2+ binding site [ion binding]; other site 640512016985 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 640512016986 putative hydrophobic ligand binding site [chemical binding]; other site 640512016987 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 640512016988 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 640512016989 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 640512016990 N-terminal domain interface [polypeptide binding]; other site 640512016991 dimer interface [polypeptide binding]; other site 640512016992 substrate binding pocket (H-site) [chemical binding]; other site 640512016993 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640512016994 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512016995 putative substrate translocation pore; other site 640512016996 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512016997 Protein of unknown function (DUF1264); Region: DUF1264; pfam06884 640512016998 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 640512016999 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 640512017000 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512017001 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512017002 The 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 640512017003 dimerization interface [polypeptide binding]; other site 640512017004 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512017005 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512017006 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 640512017007 putative effector binding pocket; other site 640512017008 putative dimerization interface [polypeptide binding]; other site 640512017009 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 640512017010 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 640512017011 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 640512017012 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 640512017013 active site 640512017014 catalytic tetrad [active] 640512017015 RHS Repeat; Region: RHS_repeat; cl11982 640512017016 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 640512017017 RHS Repeat; Region: RHS_repeat; cl11982 640512017018 RHS Repeat; Region: RHS_repeat; cl11982 640512017019 RHS Repeat; Region: RHS_repeat; cl11982 640512017020 RHS Repeat; Region: RHS_repeat; pfam05593 640512017021 RHS Repeat; Region: RHS_repeat; pfam05593 640512017022 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 640512017023 Domain of unknown function (DUF4279); Region: DUF4279; pfam14106 640512017024 Protein of unknown function DUF72; Region: DUF72; pfam01904 640512017025 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640512017026 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640512017027 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 640512017028 isovaleryl-CoA dehydrogenase; Region: PLN02519 640512017029 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 640512017030 substrate binding site [chemical binding]; other site 640512017031 FAD binding site [chemical binding]; other site 640512017032 catalytic base [active] 640512017033 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 640512017034 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 640512017035 enoyl-CoA hydratase; Provisional; Region: PRK05995 640512017036 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 640512017037 substrate binding site [chemical binding]; other site 640512017038 oxyanion hole (OAH) forming residues; other site 640512017039 trimer interface [polypeptide binding]; other site 640512017040 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 640512017041 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 640512017042 ATP-grasp domain; Region: ATP-grasp_4; cl17255 640512017043 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 640512017044 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 640512017045 carboxyltransferase (CT) interaction site; other site 640512017046 biotinylation site [posttranslational modification]; other site 640512017047 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 640512017048 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 640512017049 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640512017050 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 640512017051 trimer interface [polypeptide binding]; other site 640512017052 eyelet of channel; other site 640512017053 phosphoglycolate phosphatase; Provisional; Region: PRK13222 640512017054 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 640512017055 motif II; other site 640512017056 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 640512017057 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 640512017058 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 640512017059 structural tetrad; other site 640512017060 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 640512017061 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 640512017062 N-terminal plug; other site 640512017063 ligand-binding site [chemical binding]; other site 640512017064 Histidine kinase; Region: HisKA_3; pfam07730 640512017065 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512017066 ATP binding site [chemical binding]; other site 640512017067 Mg2+ binding site [ion binding]; other site 640512017068 G-X-G motif; other site 640512017069 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640512017070 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512017071 active site 640512017072 phosphorylation site [posttranslational modification] 640512017073 intermolecular recognition site; other site 640512017074 dimerization interface [polypeptide binding]; other site 640512017075 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 640512017076 DNA binding residues [nucleotide binding] 640512017077 dimerization interface [polypeptide binding]; other site 640512017078 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 640512017079 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 640512017080 FeS/SAM binding site; other site 640512017081 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 640512017082 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 640512017083 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 640512017084 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 640512017085 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 640512017086 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 640512017087 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 640512017088 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 640512017089 putative subunit interface; other site 640512017090 formylmethanofuran--tetrahydromethanopterin formyltransferase; Provisional; Region: PRK02114 640512017091 Formylmethanofuran-tetrahydromethanopterin formyltransferase; Region: FTR; pfam01913 640512017092 FTR, proximal lobe; Region: FTR_C; pfam02741 640512017093 formylmethanofuran dehydrogenase subunit A; Region: one_C_dehyd_A; TIGR03121 640512017094 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 640512017095 active site 640512017096 The MopB_FmdB-FwdB CD contains the molybdenum/tungsten formylmethanofuran dehydrogenases, subunit B (FmdB/FwdB), and other related proteins. Formylmethanofuran dehydrogenase catalyzes the first step in methane formation from CO2 in methanogenic archaea...; Region: MopB_FmdB-FwdB; cd02761 640512017097 formylmethanofuran dehydrogenase subunit B; Region: one_C_dehyd_B; TIGR03129 640512017098 putative [4Fe-4S] binding site [ion binding]; other site 640512017099 putative molybdopterin cofactor binding site [chemical binding]; other site 640512017100 hisA/hisF family protein; Region: hisAF_rel; TIGR00734 640512017101 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 640512017102 active site 640512017103 ATP-grasp domain; Region: ATP-grasp_4; cl17255 640512017104 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 640512017105 nucleotide binding site [chemical binding]; other site 640512017106 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 640512017107 nucleotide binding site [chemical binding]; other site 640512017108 substrate binding site [chemical binding]; other site 640512017109 hypothetical protein; Provisional; Region: PRK02227 640512017110 Protein of unknown function (DUF447); Region: DUF447; pfam04289 640512017111 coenzyme PQQ synthesis protein PqqA; Provisional; Region: pqqA; PRK00284 640512017112 ribulose bisophosphate carboxylase; Reviewed; Region: rbcL; PRK04208 640512017113 Ribulose bisphosphate carboxylase large chain, Form I; Region: RuBisCO_large_I; cd08212 640512017114 homodimer interface [polypeptide binding]; other site 640512017115 active site 640512017116 heterodimer interface [polypeptide binding]; other site 640512017117 catalytic residue [active] 640512017118 metal binding site [ion binding]; metal-binding site 640512017119 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 640512017120 multimerization interface [polypeptide binding]; other site 640512017121 probable Rubsico expression protein CbbX; Region: cbbX_cfxQ; TIGR02880 640512017122 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 640512017123 Walker A motif; other site 640512017124 ATP binding site [chemical binding]; other site 640512017125 Walker B motif; other site 640512017126 arginine finger; other site 640512017127 fructose-1,6-bisphosphatase family protein; Region: PLN02628 640512017128 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 640512017129 AMP binding site [chemical binding]; other site 640512017130 metal binding site [ion binding]; metal-binding site 640512017131 active site 640512017132 phosphoribulokinase; Provisional; Region: PRK15453 640512017133 transketolase; Reviewed; Region: PRK12753 640512017134 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 640512017135 TPP-binding site [chemical binding]; other site 640512017136 dimer interface [polypeptide binding]; other site 640512017137 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 640512017138 PYR/PP interface [polypeptide binding]; other site 640512017139 dimer interface [polypeptide binding]; other site 640512017140 TPP binding site [chemical binding]; other site 640512017141 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 640512017142 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 640512017143 intersubunit interface [polypeptide binding]; other site 640512017144 active site 640512017145 zinc binding site [ion binding]; other site 640512017146 Na+ binding site [ion binding]; other site 640512017147 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 640512017148 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 640512017149 substrate binding site [chemical binding]; other site 640512017150 hexamer interface [polypeptide binding]; other site 640512017151 metal binding site [ion binding]; metal-binding site 640512017152 dihydropteroate synthase-related protein; Region: TIGR00284 640512017153 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 640512017154 substrate binding pocket [chemical binding]; other site 640512017155 dimer interface [polypeptide binding]; other site 640512017156 inhibitor binding site; inhibition site 640512017157 Archaeal flavoproteins [Energy production and conversion]; Region: COG1036 640512017158 Flavoprotein; Region: Flavoprotein; pfam02441 640512017159 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 640512017160 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 640512017161 Walker A motif; other site 640512017162 ATP binding site [chemical binding]; other site 640512017163 Walker B motif; other site 640512017164 arginine finger; other site 640512017165 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 640512017166 Dihydroneopterin aldolase; Region: FolB; smart00905 640512017167 active site 640512017168 Formaldehyde-activating enzyme (Fae); Region: Fae; pfam08714 640512017169 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; pfam01874 640512017170 alpha-L-glutamate ligases, RimK family; Region: rimK_fam; TIGR00768 640512017171 ATP-grasp domain; Region: ATP-grasp_4; cl17255 640512017172 N(5),N(10)-methenyltetrahydromethanopterin cyclohydrolase; Provisional; Region: PRK02264 640512017173 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 640512017174 trimer interface I [polypeptide binding]; other site 640512017175 putative substrate binding pocket [chemical binding]; other site 640512017176 trimer interface II [polypeptide binding]; other site 640512017177 Predicted ATP-dependent carboligase related to biotin carboxylase [General function prediction only]; Region: COG2232 640512017178 ATP-grasp domain; Region: ATP-grasp_4; cl17255 640512017179 Methylene-tetrahydromethanopterin dehydrogenase, N-terminal; Region: Mpt_N; pfam09176 640512017180 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 640512017181 NAD(P) binding pocket [chemical binding]; other site 640512017182 Predicted archaeal sugar kinases [General function prediction only]; Region: COG1907 640512017183 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 640512017184 aromatic arch; other site 640512017185 DCoH dimer interaction site [polypeptide binding]; other site 640512017186 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 640512017187 DCoH tetramer interaction site [polypeptide binding]; other site 640512017188 substrate binding site [chemical binding]; other site 640512017189 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 640512017190 Large subunit of methanol dehydrogenase (moxF); Region: PQQ_MDH; cd10278 640512017191 Trp docking motif [polypeptide binding]; other site 640512017192 dimer interface [polypeptide binding]; other site 640512017193 active site 640512017194 small subunit binding site [polypeptide binding]; other site 640512017195 c-type cytochrome, methanol metabolism-related; Region: 4cys_cytochr; TIGR03874 640512017196 quinoprotein dehydrogenase-associated probable ABC transporter substrate-binding protein; Region: ABC_peri_MoxJ_2; TIGR03871 640512017197 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 640512017198 hinge residues; other site 640512017199 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512017200 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512017201 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 640512017202 putative dimerization interface [polypeptide binding]; other site 640512017203 MoxR-like ATPases [General function prediction only]; Region: COG0714 640512017204 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 640512017205 Protein of unknown function DUF58; Region: DUF58; pfam01882 640512017206 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 640512017207 metal ion-dependent adhesion site (MIDAS); other site 640512017208 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 640512017209 binding surface 640512017210 TPR motif; other site 640512017211 von Willebrand factor type A domain; Region: VWA_2; pfam13519 640512017212 metal ion-dependent adhesion site (MIDAS); other site 640512017213 ATP adenylyltransferase (5',5'''-P-1,P-4-tetraphosphate phosphorylase II) [Nucleotide transport and metabolism]; Region: APA2; COG4360 640512017214 ATP adenylyltransferase; Region: ATP_transf; pfam09830 640512017215 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512017216 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512017217 The 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 640512017218 dimerization interface [polypeptide binding]; other site 640512017219 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 640512017220 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 640512017221 catalytic site [active] 640512017222 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 640512017223 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 640512017224 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 640512017225 active site 640512017226 TupA-like ATPgrasp; Region: ATPgrasp_TupA; pfam14305 640512017227 MEDS: MEthanogen/methylotroph, DcmR Sensory domain; Region: MEDS; pfam14417 640512017228 PAS domain; Region: PAS_9; pfam13426 640512017229 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640512017230 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 640512017231 dimer interface [polypeptide binding]; other site 640512017232 phosphorylation site [posttranslational modification] 640512017233 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512017234 ATP binding site [chemical binding]; other site 640512017235 Mg2+ binding site [ion binding]; other site 640512017236 G-X-G motif; other site 640512017237 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512017238 active site 640512017239 phosphorylation site [posttranslational modification] 640512017240 intermolecular recognition site; other site 640512017241 dimerization interface [polypeptide binding]; other site 640512017242 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 640512017243 Fucose-binding lectin II (PA-IIL); Region: PA-IIL; pfam07472 640512017244 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 640512017245 Isochorismatase family; Region: Isochorismatase; pfam00857 640512017246 catalytic triad [active] 640512017247 dimer interface [polypeptide binding]; other site 640512017248 conserved cis-peptide bond; other site 640512017249 feruloyl-CoA synthase; Reviewed; Region: PRK08180 640512017250 Feruloyl-CoA synthetase (FCS); Region: FCS; cd05921 640512017251 acyl-activating enzyme (AAE) consensus motif; other site 640512017252 putative AMP binding site [chemical binding]; other site 640512017253 putative active site [active] 640512017254 putative CoA binding site [chemical binding]; other site 640512017255 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640512017256 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 640512017257 NAD(P) binding site [chemical binding]; other site 640512017258 catalytic residues [active] 640512017259 p-hydroxycinnamoyl CoA hydratase/lyase; Validated; Region: PRK09120 640512017260 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 640512017261 substrate binding site [chemical binding]; other site 640512017262 oxyanion hole (OAH) forming residues; other site 640512017263 trimer interface [polypeptide binding]; other site 640512017264 putative 3-hydroxyphenylpropionic transporter MhpT; Provisional; Region: PRK11551 640512017265 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512017266 putative substrate translocation pore; other site 640512017267 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640512017268 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 640512017269 trimer interface [polypeptide binding]; other site 640512017270 eyelet of channel; other site 640512017271 Tannase and feruloyl esterase; Region: Tannase; pfam07519 640512017272 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640512017273 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640512017274 metal binding site [ion binding]; metal-binding site 640512017275 active site 640512017276 I-site; other site 640512017277 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640512017278 NADH(P)-binding; Region: NAD_binding_10; pfam13460 640512017279 NAD(P) binding site [chemical binding]; other site 640512017280 active site 640512017281 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512017282 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512017283 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 640512017284 putative effector binding pocket; other site 640512017285 dimerization interface [polypeptide binding]; other site 640512017286 RNA polymerase sigma-70 factor, TIGR02957 family; Region: SigX4 640512017287 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640512017288 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 640512017289 DNA binding residues [nucleotide binding] 640512017290 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 640512017291 homotrimer interaction site [polypeptide binding]; other site 640512017292 putative active site [active] 640512017293 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640512017294 hydroxyglutarate oxidase; Provisional; Region: PRK11728 640512017295 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 640512017296 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 640512017297 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640512017298 hydroxyglutarate oxidase; Provisional; Region: PRK11728 640512017299 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 640512017300 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512017301 dimer interface [polypeptide binding]; other site 640512017302 conserved gate region; other site 640512017303 putative PBP binding loops; other site 640512017304 ABC-ATPase subunit interface; other site 640512017305 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512017306 dimer interface [polypeptide binding]; other site 640512017307 conserved gate region; other site 640512017308 putative PBP binding loops; other site 640512017309 ABC-ATPase subunit interface; other site 640512017310 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 640512017311 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640512017312 Walker A/P-loop; other site 640512017313 ATP binding site [chemical binding]; other site 640512017314 Q-loop/lid; other site 640512017315 ABC transporter signature motif; other site 640512017316 Walker B; other site 640512017317 D-loop; other site 640512017318 H-loop/switch region; other site 640512017319 TOBE domain; Region: TOBE_2; pfam08402 640512017320 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 640512017321 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 640512017322 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 640512017323 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512017324 The 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 640512017325 dimerization interface [polypeptide binding]; other site 640512017326 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512017327 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512017328 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 640512017329 putative substrate binding pocket [chemical binding]; other site 640512017330 putative dimerization interface [polypeptide binding]; other site 640512017331 C factor cell-cell signaling protein; Provisional; Region: PRK09009 640512017332 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 640512017333 NADP binding site [chemical binding]; other site 640512017334 homodimer interface [polypeptide binding]; other site 640512017335 active site 640512017336 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640512017337 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 640512017338 active site 640512017339 metal binding site [ion binding]; metal-binding site 640512017340 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640512017341 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640512017342 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 640512017343 putative di-iron ligands [ion binding]; other site 640512017344 CDP-diacylglycerol pyrophosphatase; Region: CDH; pfam02611 640512017345 indole acetimide hydrolase; Validated; Region: PRK07488 640512017346 Amidase; Region: Amidase; cl11426 640512017347 Predicted flavoprotein [General function prediction only]; Region: COG0431 640512017348 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 640512017349 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 640512017350 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 640512017351 HSP70 interaction site [polypeptide binding]; other site 640512017352 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 640512017353 Low molecular weight phosphatase family; Region: LMWPc; cl00105 640512017354 active site 640512017355 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 640512017356 putative arabinose transporter; Provisional; Region: PRK03545 640512017357 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512017358 putative substrate translocation pore; other site 640512017359 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 640512017360 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 640512017361 ligand binding site [chemical binding]; other site 640512017362 flexible hinge region; other site 640512017363 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 640512017364 Killing trait; Region: RebB; pfam11747 640512017365 Killing trait; Region: RebB; pfam11747 640512017366 Killing trait; Region: RebB; pfam11747 640512017367 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 640512017368 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 640512017369 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512017370 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512017371 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_6; cd08475 640512017372 putative effector binding pocket; other site 640512017373 putative dimerization interface [polypeptide binding]; other site 640512017374 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 640512017375 progesterone 5-beta-reductase-like proteins (5beta-POR), atypical (a) SDRs; Region: 5beta-POR_like_SDR_a; cd08948 640512017376 NAD(P) binding site [chemical binding]; other site 640512017377 active site 640512017378 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512017379 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512017380 The 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 640512017381 dimerization interface [polypeptide binding]; other site 640512017382 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 640512017383 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512017384 putative substrate translocation pore; other site 640512017385 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512017386 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640512017387 haloacid dehalogenase-like hydrolase family protein; Region: PLN02919 640512017388 filamentous hemagglutinin family N-terminal domain; Region: adhes_NPXG; TIGR01901 640512017389 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640512017390 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 640512017391 dimer interface [polypeptide binding]; other site 640512017392 ligand binding site [chemical binding]; other site 640512017393 TIGR02594 family protein; Region: TIGR02594 640512017394 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 640512017395 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 640512017396 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 640512017397 N-terminal domain interface [polypeptide binding]; other site 640512017398 dimer interface [polypeptide binding]; other site 640512017399 substrate binding pocket (H-site) [chemical binding]; other site 640512017400 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 640512017401 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640512017402 Coenzyme A binding pocket [chemical binding]; other site 640512017403 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640512017404 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640512017405 NAD(P) binding site [chemical binding]; other site 640512017406 active site 640512017407 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 640512017408 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512017409 putative substrate translocation pore; other site 640512017410 L-rhamnonate dehydratase; Provisional; Region: PRK15440 640512017411 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 640512017412 putative active site pocket [active] 640512017413 putative metal binding site [ion binding]; other site 640512017414 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640512017415 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640512017416 NAD(P) binding site [chemical binding]; other site 640512017417 active site 640512017418 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 640512017419 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512017420 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 640512017421 putative dimerization interface [polypeptide binding]; other site 640512017422 Domain of unknown function (DUF718); Region: DUF718; pfam05336 640512017423 Amidohydrolase; Region: Amidohydro_2; pfam04909 640512017424 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 640512017425 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 640512017426 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 640512017427 Walker A/P-loop; other site 640512017428 ATP binding site [chemical binding]; other site 640512017429 Q-loop/lid; other site 640512017430 ABC transporter signature motif; other site 640512017431 Walker B; other site 640512017432 D-loop; other site 640512017433 H-loop/switch region; other site 640512017434 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 640512017435 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640512017436 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 640512017437 TM-ABC transporter signature motif; other site 640512017438 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640512017439 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 640512017440 TM-ABC transporter signature motif; other site 640512017441 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 640512017442 rhamnose ABC transporter, rhamnose-binding protein; Region: RhaS; TIGR02637 640512017443 ligand binding site [chemical binding]; other site 640512017444 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640512017445 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 640512017446 trimer interface [polypeptide binding]; other site 640512017447 eyelet of channel; other site 640512017448 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 640512017449 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 640512017450 Walker A/P-loop; other site 640512017451 ATP binding site [chemical binding]; other site 640512017452 Q-loop/lid; other site 640512017453 ABC transporter signature motif; other site 640512017454 Walker B; other site 640512017455 D-loop; other site 640512017456 H-loop/switch region; other site 640512017457 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 640512017458 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512017459 dimer interface [polypeptide binding]; other site 640512017460 conserved gate region; other site 640512017461 ABC-ATPase subunit interface; other site 640512017462 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512017463 dimer interface [polypeptide binding]; other site 640512017464 conserved gate region; other site 640512017465 putative PBP binding loops; other site 640512017466 ABC-ATPase subunit interface; other site 640512017467 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 640512017468 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 640512017469 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 640512017470 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512017471 active site 640512017472 phosphorylation site [posttranslational modification] 640512017473 intermolecular recognition site; other site 640512017474 dimerization interface [polypeptide binding]; other site 640512017475 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 640512017476 DNA binding site [nucleotide binding] 640512017477 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 640512017478 HAMP domain; Region: HAMP; pfam00672 640512017479 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 640512017480 dimer interface [polypeptide binding]; other site 640512017481 phosphorylation site [posttranslational modification] 640512017482 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512017483 ATP binding site [chemical binding]; other site 640512017484 Mg2+ binding site [ion binding]; other site 640512017485 G-X-G motif; other site 640512017486 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 640512017487 NMT1-like family; Region: NMT1_2; pfam13379 640512017488 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 640512017489 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512017490 active site 640512017491 phosphorylation site [posttranslational modification] 640512017492 intermolecular recognition site; other site 640512017493 dimerization interface [polypeptide binding]; other site 640512017494 ANTAR domain; Region: ANTAR; pfam03861 640512017495 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 640512017496 rRNA binding site [nucleotide binding]; other site 640512017497 predicted 30S ribosome binding site; other site 640512017498 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 640512017499 YheO-like PAS domain; Region: PAS_6; pfam08348 640512017500 HTH domain; Region: HTH_22; pfam13309 640512017501 Protein of unknown function (DUF1653); Region: DUF1653; cl01949 640512017502 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 640512017503 catalytic loop [active] 640512017504 iron binding site [ion binding]; other site 640512017505 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 640512017506 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 640512017507 Walker A motif; other site 640512017508 ATP binding site [chemical binding]; other site 640512017509 Walker B motif; other site 640512017510 arginine finger; other site 640512017511 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 640512017512 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 640512017513 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 640512017514 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640512017515 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 640512017516 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 640512017517 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 640512017518 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 640512017519 dimer interface [polypeptide binding]; other site 640512017520 active site residues [active] 640512017521 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 640512017522 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 640512017523 Helix-turn-helix domain; Region: HTH_18; pfam12833 640512017524 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512017525 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 640512017526 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640512017527 active site 640512017528 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 640512017529 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_1; cd05974 640512017530 active site 640512017531 acyl-activating enzyme (AAE) consensus motif; other site 640512017532 putative CoA binding site [chemical binding]; other site 640512017533 AMP binding site [chemical binding]; other site 640512017534 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 640512017535 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 640512017536 tetrameric interface [polypeptide binding]; other site 640512017537 NAD binding site [chemical binding]; other site 640512017538 catalytic residues [active] 640512017539 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 640512017540 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 640512017541 enoyl-CoA hydratase; Provisional; Region: PRK09076 640512017542 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 640512017543 substrate binding site [chemical binding]; other site 640512017544 oxyanion hole (OAH) forming residues; other site 640512017545 trimer interface [polypeptide binding]; other site 640512017546 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 640512017547 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 640512017548 substrate binding site [chemical binding]; other site 640512017549 oxyanion hole (OAH) forming residues; other site 640512017550 trimer interface [polypeptide binding]; other site 640512017551 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 640512017552 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 640512017553 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512017554 putative substrate translocation pore; other site 640512017555 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 640512017556 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 640512017557 FAD binding pocket [chemical binding]; other site 640512017558 FAD binding motif [chemical binding]; other site 640512017559 phosphate binding motif [ion binding]; other site 640512017560 NAD binding pocket [chemical binding]; other site 640512017561 Predicted transcriptional regulators [Transcription]; Region: COG1695 640512017562 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 640512017563 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512017564 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512017565 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 640512017566 putative effector binding pocket; other site 640512017567 dimerization interface [polypeptide binding]; other site 640512017568 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 640512017569 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640512017570 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640512017571 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512017572 putative substrate translocation pore; other site 640512017573 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512017574 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 640512017575 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640512017576 HlyD family secretion protein; Region: HlyD_3; pfam13437 640512017577 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640512017578 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640512017579 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640512017580 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 640512017581 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 640512017582 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 640512017583 NADP binding site [chemical binding]; other site 640512017584 Predicted transcriptional regulators [Transcription]; Region: COG1733 640512017585 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 640512017586 haemagglutination activity domain; Region: Haemagg_act; smart00912 640512017587 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 640512017588 hypothetical protein; Provisional; Region: PRK09945 640512017589 Uncharacterized protein with a C-terminal OMP (outer membrane protein) domain [Function unknown]; Region: COG4625 640512017590 Autotransporter beta-domain; Region: Autotransporter; smart00869 640512017591 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 640512017592 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 640512017593 active site 640512017594 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 640512017595 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 640512017596 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640512017597 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 640512017598 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512017599 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512017600 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512017601 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640512017602 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512017603 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 640512017604 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 640512017605 glutaminase active site [active] 640512017606 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 640512017607 dimer interface [polypeptide binding]; other site 640512017608 active site 640512017609 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 640512017610 dimer interface [polypeptide binding]; other site 640512017611 active site 640512017612 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640512017613 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 640512017614 NAD(P) binding site [chemical binding]; other site 640512017615 active site 640512017616 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 640512017617 glutaminase; Provisional; Region: PRK00971 640512017618 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 640512017619 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512017620 putative substrate translocation pore; other site 640512017621 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512017622 putative hydrolase; Provisional; Region: PRK11460 640512017623 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 640512017624 rod shape-determining protein MreB; Provisional; Region: PRK13930 640512017625 MreB and similar proteins; Region: MreB_like; cd10225 640512017626 nucleotide binding site [chemical binding]; other site 640512017627 Mg binding site [ion binding]; other site 640512017628 putative protofilament interaction site [polypeptide binding]; other site 640512017629 RodZ interaction site [polypeptide binding]; other site 640512017630 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 640512017631 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 640512017632 PAS domain; Region: PAS; smart00091 640512017633 PAS fold; Region: PAS_7; pfam12860 640512017634 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640512017635 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640512017636 metal binding site [ion binding]; metal-binding site 640512017637 active site 640512017638 I-site; other site 640512017639 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 640512017640 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 640512017641 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 640512017642 putative active site [active] 640512017643 Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase; Region: AAT; pfam03417 640512017644 hypothetical protein; Provisional; Region: PRK07483 640512017645 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 640512017646 inhibitor-cofactor binding pocket; inhibition site 640512017647 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640512017648 catalytic residue [active] 640512017649 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 640512017650 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 640512017651 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 640512017652 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 640512017653 tetramer interface [polypeptide binding]; other site 640512017654 active site 640512017655 Mg2+/Mn2+ binding site [ion binding]; other site 640512017656 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 640512017657 homotrimer interaction site [polypeptide binding]; other site 640512017658 putative active site [active] 640512017659 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 640512017660 aldehyde reductase, extended (e) SDRs; Region: AR_SDR_e; cd05227 640512017661 NADP binding site [chemical binding]; other site 640512017662 putative substrate binding site [chemical binding]; other site 640512017663 active site 640512017664 Cupin; Region: Cupin_6; pfam12852 640512017665 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512017666 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640512017667 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512017668 MarR family; Region: MarR_2; cl17246 640512017669 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640512017670 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 640512017671 benzoate transport; Region: 2A0115; TIGR00895 640512017672 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512017673 putative substrate translocation pore; other site 640512017674 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 640512017675 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 640512017676 catalytic loop [active] 640512017677 iron binding site [ion binding]; other site 640512017678 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 640512017679 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640512017680 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 640512017681 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 640512017682 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640512017683 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640512017684 Predicted membrane protein [Function unknown]; Region: COG2259 640512017685 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 640512017686 Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes; Region: MAR; cd08177 640512017687 active site 640512017688 dimer interface [polypeptide binding]; other site 640512017689 metal binding site [ion binding]; metal-binding site 640512017690 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 640512017691 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 640512017692 chlorocatechol 1,2-dioxygenase; Region: chlorocat_1_2; TIGR02465 640512017693 dimer interface [polypeptide binding]; other site 640512017694 active site 640512017695 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512017696 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512017697 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 640512017698 putative effector binding pocket; other site 640512017699 dimerization interface [polypeptide binding]; other site 640512017700 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 640512017701 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 640512017702 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 640512017703 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 640512017704 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 640512017705 2-aminoethylphosphonate ABC transport system, ATP-binding component PhnT; Region: PhnT; TIGR03258 640512017706 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640512017707 Walker A/P-loop; other site 640512017708 ATP binding site [chemical binding]; other site 640512017709 Q-loop/lid; other site 640512017710 ABC transporter signature motif; other site 640512017711 Walker B; other site 640512017712 D-loop; other site 640512017713 H-loop/switch region; other site 640512017714 TOBE domain; Region: TOBE_2; pfam08402 640512017715 2-aminoethylphosphonate transport system permease PhnU; Provisional; Region: PRK15050 640512017716 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512017717 dimer interface [polypeptide binding]; other site 640512017718 conserved gate region; other site 640512017719 putative PBP binding loops; other site 640512017720 ABC-ATPase subunit interface; other site 640512017721 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 640512017722 phosphonate degradation operons associated HDIG domain protein; Region: Phn-HD; TIGR03276 640512017723 Transposase, Mutator family; Region: Transposase_mut; pfam00872 640512017724 MULE transposase domain; Region: MULE; pfam10551 640512017725 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 640512017726 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 640512017727 putative active site [active] 640512017728 putative metal binding site [ion binding]; other site 640512017729 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 640512017730 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 640512017731 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640512017732 putative ligand binding site [chemical binding]; other site 640512017733 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 640512017734 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 640512017735 Walker A/P-loop; other site 640512017736 ATP binding site [chemical binding]; other site 640512017737 Q-loop/lid; other site 640512017738 ABC transporter signature motif; other site 640512017739 Walker B; other site 640512017740 D-loop; other site 640512017741 H-loop/switch region; other site 640512017742 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 640512017743 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640512017744 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 640512017745 TM-ABC transporter signature motif; other site 640512017746 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 640512017747 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640512017748 TM-ABC transporter signature motif; other site 640512017749 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 640512017750 malonate decarboxylase, epsilon subunit; Region: malonate_mdcH; TIGR03131 640512017751 phosphoribosyl-dephospho-CoA transferase; Provisional; Region: PRK01293 640512017752 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; pfam10620 640512017753 malonate decarboxylase, gamma subunit; Region: malonate_gamma; TIGR03134 640512017754 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189 640512017755 malonate decarboxylase subunit delta; Provisional; Region: PRK01220 640512017756 triphosphoribosyl-dephospho-CoA synthase; Validated; Region: PRK01237 640512017757 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 640512017758 Coenzyme A transferase; Region: CoA_trans; cl17247 640512017759 Transcriptional regulators [Transcription]; Region: GntR; COG1802 640512017760 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640512017761 DNA-binding site [nucleotide binding]; DNA binding site 640512017762 FCD domain; Region: FCD; pfam07729 640512017763 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 640512017764 EamA-like transporter family; Region: EamA; pfam00892 640512017765 EamA-like transporter family; Region: EamA; pfam00892 640512017766 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512017767 The 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 640512017768 dimerization interface [polypeptide binding]; other site 640512017769 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 640512017770 N-acetyltransferase; Region: Acetyltransf_2; pfam00797 640512017771 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 640512017772 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 640512017773 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 640512017774 substrate binding pocket [chemical binding]; other site 640512017775 membrane-bound complex binding site; other site 640512017776 hinge residues; other site 640512017777 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640512017778 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512017779 dimer interface [polypeptide binding]; other site 640512017780 conserved gate region; other site 640512017781 putative PBP binding loops; other site 640512017782 ABC-ATPase subunit interface; other site 640512017783 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512017784 dimer interface [polypeptide binding]; other site 640512017785 conserved gate region; other site 640512017786 putative PBP binding loops; other site 640512017787 ABC-ATPase subunit interface; other site 640512017788 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 640512017789 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 640512017790 Walker A/P-loop; other site 640512017791 ATP binding site [chemical binding]; other site 640512017792 Q-loop/lid; other site 640512017793 ABC transporter signature motif; other site 640512017794 Walker B; other site 640512017795 D-loop; other site 640512017796 H-loop/switch region; other site 640512017797 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 640512017798 active sites [active] 640512017799 tetramer interface [polypeptide binding]; other site 640512017800 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 640512017801 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640512017802 DNA-binding site [nucleotide binding]; DNA binding site 640512017803 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 640512017804 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 640512017805 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640512017806 DNA-binding site [nucleotide binding]; DNA binding site 640512017807 UTRA domain; Region: UTRA; pfam07702 640512017808 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 640512017809 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 640512017810 Walker A/P-loop; other site 640512017811 ATP binding site [chemical binding]; other site 640512017812 Q-loop/lid; other site 640512017813 ABC transporter signature motif; other site 640512017814 Walker B; other site 640512017815 D-loop; other site 640512017816 H-loop/switch region; other site 640512017817 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640512017818 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512017819 dimer interface [polypeptide binding]; other site 640512017820 conserved gate region; other site 640512017821 putative PBP binding loops; other site 640512017822 ABC-ATPase subunit interface; other site 640512017823 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640512017824 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512017825 dimer interface [polypeptide binding]; other site 640512017826 conserved gate region; other site 640512017827 putative PBP binding loops; other site 640512017828 ABC-ATPase subunit interface; other site 640512017829 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 640512017830 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 640512017831 substrate binding pocket [chemical binding]; other site 640512017832 membrane-bound complex binding site; other site 640512017833 hinge residues; other site 640512017834 oxidase reductase; Provisional; Region: PTZ00273 640512017835 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 640512017836 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 640512017837 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 640512017838 FAD binding domain; Region: FAD_binding_4; pfam01565 640512017839 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 640512017840 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 640512017841 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 640512017842 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 640512017843 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 640512017844 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640512017845 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 640512017846 dimer interface [polypeptide binding]; other site 640512017847 phosphorylation site [posttranslational modification] 640512017848 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512017849 ATP binding site [chemical binding]; other site 640512017850 Mg2+ binding site [ion binding]; other site 640512017851 G-X-G motif; other site 640512017852 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 640512017853 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512017854 active site 640512017855 phosphorylation site [posttranslational modification] 640512017856 intermolecular recognition site; other site 640512017857 dimerization interface [polypeptide binding]; other site 640512017858 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640512017859 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512017860 active site 640512017861 phosphorylation site [posttranslational modification] 640512017862 intermolecular recognition site; other site 640512017863 dimerization interface [polypeptide binding]; other site 640512017864 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 640512017865 DNA binding residues [nucleotide binding] 640512017866 dimerization interface [polypeptide binding]; other site 640512017867 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 640512017868 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 640512017869 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 640512017870 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 640512017871 extended (e) SDRs; Region: SDR_e; cd08946 640512017872 NAD(P) binding site [chemical binding]; other site 640512017873 active site 640512017874 substrate binding site [chemical binding]; other site 640512017875 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 640512017876 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 640512017877 tartronate semialdehyde reductase; Provisional; Region: PRK15059 640512017878 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 640512017879 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 640512017880 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 640512017881 dimer interface [polypeptide binding]; other site 640512017882 NADP binding site [chemical binding]; other site 640512017883 catalytic residues [active] 640512017884 Transcriptional regulators [Transcription]; Region: FadR; COG2186 640512017885 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640512017886 DNA-binding site [nucleotide binding]; DNA binding site 640512017887 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 640512017888 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512017889 D-galactonate transporter; Region: 2A0114; TIGR00893 640512017890 putative substrate translocation pore; other site 640512017891 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512017892 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 640512017893 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 640512017894 putative active site [active] 640512017895 catalytic residue [active] 640512017896 galactarate dehydratase; Region: galactar-dH20; TIGR03248 640512017897 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 640512017898 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 640512017899 extended (e) SDRs; Region: SDR_e; cd08946 640512017900 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 640512017901 NAD(P) binding site [chemical binding]; other site 640512017902 active site 640512017903 substrate binding site [chemical binding]; other site 640512017904 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 640512017905 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 640512017906 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 640512017907 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 640512017908 DctM-like transporters; Region: DctM; pfam06808 640512017909 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 640512017910 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640512017911 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 640512017912 trimer interface [polypeptide binding]; other site 640512017913 eyelet of channel; other site 640512017914 4-oxalocrotonate tautomerase; Provisional; Region: PRK00745 640512017915 active site 1 [active] 640512017916 dimer interface [polypeptide binding]; other site 640512017917 hexamer interface [polypeptide binding]; other site 640512017918 active site 2 [active] 640512017919 aldolase II superfamily protein; Provisional; Region: PRK07044 640512017920 intersubunit interface [polypeptide binding]; other site 640512017921 active site 640512017922 Zn2+ binding site [ion binding]; other site 640512017923 Urea transporter; Region: UT; pfam03253 640512017924 Putative glycolipid-binding; Region: Glycolipid_bind; pfam06475 640512017925 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 640512017926 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 640512017927 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 640512017928 short chain dehydrogenase; Provisional; Region: PRK07832 640512017929 classical (c) SDRs; Region: SDR_c; cd05233 640512017930 NAD(P) binding site [chemical binding]; other site 640512017931 active site 640512017932 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 640512017933 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 640512017934 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg2; cd04778 640512017935 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 640512017936 DNA binding residues [nucleotide binding] 640512017937 putative dimer interface [polypeptide binding]; other site 640512017938 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 640512017939 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 640512017940 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 640512017941 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 640512017942 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 640512017943 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640512017944 DNA-binding site [nucleotide binding]; DNA binding site 640512017945 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 640512017946 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640512017947 homodimer interface [polypeptide binding]; other site 640512017948 catalytic residue [active] 640512017949 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 640512017950 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640512017951 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512017952 putative substrate translocation pore; other site 640512017953 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512017954 putative substrate translocation pore; other site 640512017955 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640512017956 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640512017957 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 640512017958 Response regulator receiver domain; Region: Response_reg; pfam00072 640512017959 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512017960 active site 640512017961 phosphorylation site [posttranslational modification] 640512017962 intermolecular recognition site; other site 640512017963 dimerization interface [polypeptide binding]; other site 640512017964 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 640512017965 metal binding site 2 [ion binding]; metal-binding site 640512017966 putative DNA binding helix; other site 640512017967 metal binding site 1 [ion binding]; metal-binding site 640512017968 dimer interface [polypeptide binding]; other site 640512017969 structural Zn2+ binding site [ion binding]; other site 640512017970 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 640512017971 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 640512017972 putative C-terminal domain interface [polypeptide binding]; other site 640512017973 putative GSH binding site (G-site) [chemical binding]; other site 640512017974 putative dimer interface [polypeptide binding]; other site 640512017975 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 640512017976 putative N-terminal domain interface [polypeptide binding]; other site 640512017977 putative dimer interface [polypeptide binding]; other site 640512017978 putative substrate binding pocket (H-site) [chemical binding]; other site 640512017979 AAA domain; Region: AAA_22; pfam13401 640512017980 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 640512017981 Walker A motif; other site 640512017982 ATP binding site [chemical binding]; other site 640512017983 Family description; Region: UvrD_C_2; pfam13538 640512017984 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 640512017985 active site 640512017986 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 640512017987 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640512017988 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 640512017989 dimer interface [polypeptide binding]; other site 640512017990 phosphorylation site [posttranslational modification] 640512017991 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512017992 ATP binding site [chemical binding]; other site 640512017993 Mg2+ binding site [ion binding]; other site 640512017994 G-X-G motif; other site 640512017995 Response regulator receiver domain; Region: Response_reg; pfam00072 640512017996 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512017997 active site 640512017998 phosphorylation site [posttranslational modification] 640512017999 intermolecular recognition site; other site 640512018000 dimerization interface [polypeptide binding]; other site 640512018001 BetR domain; Region: BetR; pfam08667 640512018002 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 640512018003 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512018004 active site 640512018005 phosphorylation site [posttranslational modification] 640512018006 intermolecular recognition site; other site 640512018007 HipA N-terminal domain; Region: Couple_hipA; pfam13657 640512018008 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 640512018009 HipA-like N-terminal domain; Region: HipA_N; pfam07805 640512018010 HipA-like C-terminal domain; Region: HipA_C; pfam07804 640512018011 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 640512018012 non-specific DNA binding site [nucleotide binding]; other site 640512018013 salt bridge; other site 640512018014 sequence-specific DNA binding site [nucleotide binding]; other site 640512018015 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640512018016 hydroxyglutarate oxidase; Provisional; Region: PRK11728 640512018017 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 640512018018 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 640512018019 putative diguanylate cyclase; Provisional; Region: PRK13561 640512018020 ornithine cyclodeaminase; Validated; Region: PRK07340 640512018021 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 640512018022 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 640512018023 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 640512018024 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 640512018025 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 640512018026 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 640512018027 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 640512018028 type VI secretion lipoprotein, VC_A0113 family; Region: VI_chp_3; TIGR03352 640512018029 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 640512018030 TPR motif; other site 640512018031 binding surface 640512018032 Protein of unknown function (DUF770); Region: DUF770; pfam05591 640512018033 type VI secretion protein, EvpB/VC_A0108 family; Region: VI_chp_2; TIGR03355 640512018034 Protein of unknown function (DUF877); Region: DUF877; pfam05943 640512018035 Protein of unknown function (DUF796); Region: DUF796; pfam05638 640512018036 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3518 640512018037 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 640512018038 type VI secretion protein, VC_A0110 family; Region: VI_chp_6; TIGR03359 640512018039 type VI secretion protein, VC_A0111 family; Region: VI_chp_1; TIGR03347 640512018040 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 640512018041 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 640512018042 Walker A motif; other site 640512018043 ATP binding site [chemical binding]; other site 640512018044 Walker B motif; other site 640512018045 arginine finger; other site 640512018046 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 640512018047 Walker A motif; other site 640512018048 ATP binding site [chemical binding]; other site 640512018049 Walker B motif; other site 640512018050 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 640512018051 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 640512018052 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 640512018053 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 640512018054 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640512018055 ligand binding site [chemical binding]; other site 640512018056 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; cl01611 640512018057 Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]; Region: IcmF; COG3523 640512018058 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 640512018059 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 640512018060 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 640512018061 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 640512018062 Inosine-uridine preferring nucleoside hydrolase; Region: IU_nuc_hydro; pfam01156 640512018063 active site 640512018064 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512018065 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512018066 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 640512018067 putative effector binding pocket; other site 640512018068 putative dimerization interface [polypeptide binding]; other site 640512018069 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 640512018070 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 640512018071 putative NAD(P) binding site [chemical binding]; other site 640512018072 putative substrate binding site [chemical binding]; other site 640512018073 catalytic Zn binding site [ion binding]; other site 640512018074 structural Zn binding site [ion binding]; other site 640512018075 dimer interface [polypeptide binding]; other site 640512018076 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 640512018077 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512018078 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640512018079 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512018080 PAS domain; Region: PAS_9; pfam13426 640512018081 PAS domain; Region: PAS_9; pfam13426 640512018082 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640512018083 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640512018084 metal binding site [ion binding]; metal-binding site 640512018085 active site 640512018086 I-site; other site 640512018087 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 640512018088 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 640512018089 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 640512018090 active site 640512018091 dimer interface [polypeptide binding]; other site 640512018092 effector binding site; other site 640512018093 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 640512018094 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 640512018095 Predicted esterase [General function prediction only]; Region: COG0627 640512018096 OpgC protein; Region: OpgC_C; pfam10129 640512018097 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640512018098 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 640512018099 eyelet of channel; other site 640512018100 trimer interface [polypeptide binding]; other site 640512018101 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 640512018102 Peptidase family M23; Region: Peptidase_M23; pfam01551 640512018103 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640512018104 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 640512018105 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 640512018106 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 640512018107 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 640512018108 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 640512018109 Domain of unknown function (DUF1795); Region: DUF1795; cl02256 640512018110 PAAR motif; Region: PAAR_motif; pfam05488 640512018111 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 640512018112 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 640512018113 catalytic loop [active] 640512018114 iron binding site [ion binding]; other site 640512018115 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 640512018116 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640512018117 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 640512018118 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 640512018119 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640512018120 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640512018121 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640512018122 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 640512018123 Cytochrome c; Region: Cytochrom_C; pfam00034 640512018124 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640512018125 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512018126 dimer interface [polypeptide binding]; other site 640512018127 conserved gate region; other site 640512018128 putative PBP binding loops; other site 640512018129 ABC-ATPase subunit interface; other site 640512018130 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512018131 dimer interface [polypeptide binding]; other site 640512018132 conserved gate region; other site 640512018133 putative PBP binding loops; other site 640512018134 ABC-ATPase subunit interface; other site 640512018135 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 640512018136 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 640512018137 substrate binding pocket [chemical binding]; other site 640512018138 membrane-bound complex binding site; other site 640512018139 hinge residues; other site 640512018140 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640512018141 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512018142 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 640512018143 substrate binding pocket [chemical binding]; other site 640512018144 dimerization interface [polypeptide binding]; other site 640512018145 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 640512018146 BON domain; Region: BON; pfam04972 640512018147 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 640512018148 active site 640512018149 DNA binding site [nucleotide binding] 640512018150 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640512018151 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 640512018152 FOG: CBS domain [General function prediction only]; Region: COG0517 640512018153 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 640512018154 dimerization interface [polypeptide binding]; other site 640512018155 active site 640512018156 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 640512018157 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 640512018158 putative active site [active] 640512018159 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 640512018160 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 640512018161 ligand binding site [chemical binding]; other site 640512018162 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 640512018163 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 640512018164 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640512018165 catalytic residue [active] 640512018166 CHASE3 domain; Region: CHASE3; pfam05227 640512018167 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 640512018168 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640512018169 dimer interface [polypeptide binding]; other site 640512018170 putative CheW interface [polypeptide binding]; other site 640512018171 Cache domain; Region: Cache_1; pfam02743 640512018172 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640512018173 metal binding site [ion binding]; metal-binding site 640512018174 active site 640512018175 I-site; other site 640512018176 YjgH belongs 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 similarity and no...; Region: YjgH_like; cd02198 640512018177 homotrimer interaction site [polypeptide binding]; other site 640512018178 putative active site [active] 640512018179 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640512018180 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 640512018181 trimer interface [polypeptide binding]; other site 640512018182 eyelet of channel; other site 640512018183 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 640512018184 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 640512018185 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 640512018186 putative active site [active] 640512018187 putative catalytic site [active] 640512018188 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512018189 D-galactonate transporter; Region: 2A0114; TIGR00893 640512018190 putative substrate translocation pore; other site 640512018191 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 640512018192 TPR motif; other site 640512018193 binding surface 640512018194 TPR repeat; Region: TPR_11; pfam13414 640512018195 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 640512018196 TPR motif; other site 640512018197 binding surface 640512018198 TPR repeat; Region: TPR_11; pfam13414 640512018199 TPR repeat; Region: TPR_11; pfam13414 640512018200 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 640512018201 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 640512018202 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 640512018203 PAS domain; Region: PAS_9; pfam13426 640512018204 putative active site [active] 640512018205 heme pocket [chemical binding]; other site 640512018206 HAMP domain; Region: HAMP; pfam00672 640512018207 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 640512018208 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640512018209 dimer interface [polypeptide binding]; other site 640512018210 putative CheW interface [polypeptide binding]; other site 640512018211 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 640512018212 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640512018213 DNA-binding site [nucleotide binding]; DNA binding site 640512018214 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 640512018215 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640512018216 homodimer interface [polypeptide binding]; other site 640512018217 catalytic residue [active] 640512018218 MSMEG_0572 family protein; Region: MSMEG_0572_fam; TIGR04044 640512018219 Predicted amidohydrolase [General function prediction only]; Region: COG0388 640512018220 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 640512018221 putative active site [active] 640512018222 catalytic triad [active] 640512018223 putative dimer interface [polypeptide binding]; other site 640512018224 radical SAM protein, MSMEG_0568 family; Region: rSAM_MSMEG_0568; TIGR04043 640512018225 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 640512018226 FeS/SAM binding site; other site 640512018227 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640512018228 Coenzyme A binding pocket [chemical binding]; other site 640512018229 AIR synthase-related protein, sll0787 family; Region: AIR_rel_sll0787; TIGR04049 640512018230 AIR synthase (PurM) related protein, subgroup 3 of unknown function. The family of PurM related proteins includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM synthase and Selenophosphate synthetase (SelD). They all contain two...; Region: PurM-like3; cd02192 640512018231 dimerization interface [polypeptide binding]; other site 640512018232 putative ATP binding site [chemical binding]; other site 640512018233 glycosyltransferase, MSMEG_0565 family; Region: MSMEG_0565_glyc; TIGR04047 640512018234 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 640512018235 MSMEG_0570 family protein; Region: MSMEG_0570_fam; TIGR04042 640512018236 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 640512018237 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 640512018238 probable biosynthetic protein, Pnap_2097 family; Region: biosn_Pnap_2097; TIGR04099 640512018239 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 640512018240 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 640512018241 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 640512018242 B12 binding site [chemical binding]; other site 640512018243 Bacterial lipocalin [Cell envelope biogenesis, outer membrane]; Region: Blc; COG3040 640512018244 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 640512018245 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 640512018246 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 640512018247 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 640512018248 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 640512018249 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 640512018250 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 640512018251 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 640512018252 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 640512018253 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 640512018254 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 640512018255 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512018256 dimer interface [polypeptide binding]; other site 640512018257 conserved gate region; other site 640512018258 putative PBP binding loops; other site 640512018259 ABC-ATPase subunit interface; other site 640512018260 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 640512018261 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512018262 dimer interface [polypeptide binding]; other site 640512018263 conserved gate region; other site 640512018264 putative PBP binding loops; other site 640512018265 ABC-ATPase subunit interface; other site 640512018266 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 640512018267 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640512018268 Walker A/P-loop; other site 640512018269 ATP binding site [chemical binding]; other site 640512018270 Q-loop/lid; other site 640512018271 ABC transporter signature motif; other site 640512018272 Walker B; other site 640512018273 D-loop; other site 640512018274 H-loop/switch region; other site 640512018275 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640512018276 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640512018277 Walker A/P-loop; other site 640512018278 ATP binding site [chemical binding]; other site 640512018279 Q-loop/lid; other site 640512018280 ABC transporter signature motif; other site 640512018281 Walker B; other site 640512018282 D-loop; other site 640512018283 H-loop/switch region; other site 640512018284 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640512018285 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 640512018286 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640512018287 NAD(P) binding site [chemical binding]; other site 640512018288 active site 640512018289 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 640512018290 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512018291 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512018292 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 640512018293 Putative zinc-finger; Region: zf-HC2; pfam13490 640512018294 RNA polymerase sigma factor; Provisional; Region: PRK12511 640512018295 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640512018296 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 640512018297 DNA binding residues [nucleotide binding] 640512018298 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 640512018299 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640512018300 Uncharacterized conserved protein [Function unknown]; Region: COG4279 640512018301 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 640512018302 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 640512018303 ATP binding site [chemical binding]; other site 640512018304 putative Mg++ binding site [ion binding]; other site 640512018305 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 640512018306 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 640512018307 nucleotide binding region [chemical binding]; other site 640512018308 ATP-binding site [chemical binding]; other site 640512018309 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 640512018310 Peptidase family M23; Region: Peptidase_M23; pfam01551 640512018311 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 640512018312 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 640512018313 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 640512018314 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640512018315 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 640512018316 catalytic site [active] 640512018317 TAP-like protein; Region: Abhydrolase_4; pfam08386 640512018318 LysR family transcriptional regulator; Provisional; Region: PRK14997 640512018319 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 640512018320 putative effector binding pocket; other site 640512018321 dimerization interface [polypeptide binding]; other site 640512018322 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 640512018323 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512018324 putative substrate translocation pore; other site 640512018325 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640512018326 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 640512018327 conserved cys residue [active] 640512018328 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512018329 Methyltransferase domain; Region: Methyltransf_31; pfam13847 640512018330 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 640512018331 S-adenosylmethionine binding site [chemical binding]; other site 640512018332 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 640512018333 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 640512018334 active site 640512018335 phosphorylation site [posttranslational modification] 640512018336 intermolecular recognition site; other site 640512018337 dimerization interface [polypeptide binding]; other site 640512018338 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 640512018339 DNA binding site [nucleotide binding] 640512018340 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4254 640512018341 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 640512018342 FecR protein; Region: FecR; pfam04773 640512018343 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 640512018344 CHASE2 domain; Region: CHASE2; pfam05226 640512018345 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640512018346 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 640512018347 dimer interface [polypeptide binding]; other site 640512018348 phosphorylation site [posttranslational modification] 640512018349 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 640512018350 ATP binding site [chemical binding]; other site 640512018351 Mg2+ binding site [ion binding]; other site 640512018352 G-X-G motif; other site 640512018353 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 640512018354 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 640512018355 FMN binding site [chemical binding]; other site 640512018356 dimer interface [polypeptide binding]; other site 640512018357 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 640512018358 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 640512018359 catalytic triad [active] 640512018360 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 640512018361 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 640512018362 homodimer interface [polypeptide binding]; other site 640512018363 Walker A motif; other site 640512018364 ATP binding site [chemical binding]; other site 640512018365 hydroxycobalamin binding site [chemical binding]; other site 640512018366 Walker B motif; other site 640512018367 cobalamin biosynthesis protein CbiG; Provisional; Region: PRK07027 640512018368 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 640512018369 active site 640512018370 SAM binding site [chemical binding]; other site 640512018371 homodimer interface [polypeptide binding]; other site 640512018372 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 640512018373 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 640512018374 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 640512018375 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 640512018376 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 640512018377 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 640512018378 Mg-protoporyphyrin IX chelatase; Region: chlI; CHL00081 640512018379 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 640512018380 Walker A motif; other site 640512018381 ATP binding site [chemical binding]; other site 640512018382 Walker B motif; other site 640512018383 arginine finger; other site 640512018384 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 640512018385 metal ion-dependent adhesion site (MIDAS); other site 640512018386 Hydroxyneurosporene synthase (CrtC); Region: CrtC; pfam07143 640512018387 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 640512018388 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 640512018389 FtsX-like permease family; Region: FtsX; pfam02687 640512018390 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 640512018391 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 640512018392 Walker A/P-loop; other site 640512018393 ATP binding site [chemical binding]; other site 640512018394 Q-loop/lid; other site 640512018395 ABC transporter signature motif; other site 640512018396 Walker B; other site 640512018397 D-loop; other site 640512018398 H-loop/switch region; other site 640512018399 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 640512018400 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 640512018401 Uncharacterized conserved protein [Function unknown]; Region: COG2128 640512018402 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 640512018403 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 640512018404 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 640512018405 Phosphoesterase family; Region: Phosphoesterase; pfam04185 640512018406 short chain dehydrogenase; Provisional; Region: PRK07109 640512018407 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 640512018408 putative NAD(P) binding site [chemical binding]; other site 640512018409 active site 640512018410 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 640512018411 BON domain; Region: BON; pfam04972 640512018412 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 640512018413 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 640512018414 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 640512018415 Walker A/P-loop; other site 640512018416 ATP binding site [chemical binding]; other site 640512018417 Q-loop/lid; other site 640512018418 ABC transporter signature motif; other site 640512018419 Walker B; other site 640512018420 D-loop; other site 640512018421 H-loop/switch region; other site 640512018422 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 640512018423 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 640512018424 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512018425 dimer interface [polypeptide binding]; other site 640512018426 conserved gate region; other site 640512018427 putative PBP binding loops; other site 640512018428 ABC-ATPase subunit interface; other site 640512018429 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640512018430 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 640512018431 conserved cys residue [active] 640512018432 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 640512018433 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 640512018434 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640512018435 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 640512018436 conserved cys residue [active] 640512018437 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 640512018438 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512018439 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 640512018440 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 640512018441 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 640512018442 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 640512018443 hydroxyglutarate oxidase; Provisional; Region: PRK11728 640512018444 Sarcosine oxidase, delta subunit family; Region: SoxD; pfam04267 640512018445 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 640512018446 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 640512018447 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 640512018448 Putative NAD(P)-binding; Region: NAD_binding_7; cl17660 640512018449 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 640512018450 Sarcosine oxidase gamma subunit [Amino acid transport and metabolism]; Region: COG4583 640512018451 benzoate transport; Region: 2A0115; TIGR00895 640512018452 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512018453 putative substrate translocation pore; other site 640512018454 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512018455 beta-lactamase/D-alanine carboxypeptidase; Provisional; Region: ampC; PRK11289 640512018456 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 640512018457 choline dehydrogenase; Validated; Region: PRK02106 640512018458 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 640512018459 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 640512018460 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 640512018461 tetrameric interface [polypeptide binding]; other site 640512018462 NAD binding site [chemical binding]; other site 640512018463 catalytic residues [active] 640512018464 transcriptional regulator BetI; Validated; Region: PRK00767 640512018465 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640512018466 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 640512018467 formaldehyde dehydrogenase, glutathione-independent; Region: fdhA_non_GSH; TIGR02819 640512018468 Pseudomonas putida aldehyde-dismutating formaldehyde dehydrogenase (PFDH); Region: PFDH_like; cd08282 640512018469 NAD binding site [chemical binding]; other site 640512018470 catalytic Zn binding site [ion binding]; other site 640512018471 structural Zn binding site [ion binding]; other site 640512018472 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640512018473 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 640512018474 conserved cys residue [active] 640512018475 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512018476 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 640512018477 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 640512018478 dimer interface [polypeptide binding]; other site 640512018479 active site 640512018480 glycine-pyridoxal phosphate binding site [chemical binding]; other site 640512018481 folate binding site [chemical binding]; other site 640512018482 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 640512018483 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 640512018484 active site 640512018485 dimer interface [polypeptide binding]; other site 640512018486 The V4R (vinyl 4 reductase) domain is a predicted small molecular binding domain, that may bind to hydrocarbons; Region: V4R; smart00989 640512018487 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 640512018488 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 640512018489 putative active site [active] 640512018490 putative FMN binding site [chemical binding]; other site 640512018491 putative substrate binding site [chemical binding]; other site 640512018492 putative catalytic residue [active] 640512018493 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 640512018494 Domain of unknown function (DUF3483); Region: DUF3483; pfam11982 640512018495 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 640512018496 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 640512018497 Cysteine-rich domain; Region: CCG; pfam02754 640512018498 Cysteine-rich domain; Region: CCG; pfam02754 640512018499 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 640512018500 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 640512018501 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 640512018502 Electron transfer flavoprotein domain; Region: ETF; pfam01012 640512018503 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 640512018504 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 640512018505 [2Fe-2S] cluster binding site [ion binding]; other site 640512018506 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 640512018507 putative alpha subunit interface [polypeptide binding]; other site 640512018508 putative active site [active] 640512018509 putative substrate binding site [chemical binding]; other site 640512018510 Fe binding site [ion binding]; other site 640512018511 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 640512018512 HCP oxidoreductase, NADH-dependent; Provisional; Region: PRK10684 640512018513 FAD binding pocket [chemical binding]; other site 640512018514 FAD binding motif [chemical binding]; other site 640512018515 phosphate binding motif [ion binding]; other site 640512018516 beta-alpha-beta structure motif; other site 640512018517 NAD binding pocket [chemical binding]; other site 640512018518 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 640512018519 catalytic loop [active] 640512018520 iron binding site [ion binding]; other site 640512018521 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 640512018522 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 640512018523 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 640512018524 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 640512018525 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 640512018526 putative active site [active] 640512018527 putative substrate binding site [chemical binding]; other site 640512018528 putative cosubstrate binding site; other site 640512018529 catalytic site [active] 640512018530 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 640512018531 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512018532 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 640512018533 dimerization interface [polypeptide binding]; other site 640512018534 substrate binding pocket [chemical binding]; other site 640512018535 choline-sulfatase; Region: chol_sulfatase; TIGR03417 640512018536 Sulfatase; Region: Sulfatase; cl17466 640512018537 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 640512018538 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 640512018539 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 640512018540 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640512018541 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 640512018542 trimer interface [polypeptide binding]; other site 640512018543 eyelet of channel; other site 640512018544 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 640512018545 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512018546 The 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 640512018547 dimerization interface [polypeptide binding]; other site 640512018548 RIO kinase family; RIO1, RIO3 and similar proteins, catalytic domain. The RIO kinase catalytic domain family is part of a larger superfamily, that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein...; Region: RIO1_like; cd05145 640512018549 ATP binding site [chemical binding]; other site 640512018550 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 640512018551 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 640512018552 dimer interface [polypeptide binding]; other site 640512018553 active site 640512018554 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 640512018555 substrate binding site [chemical binding]; other site 640512018556 catalytic residue [active] 640512018557 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512018558 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512018559 The 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 640512018560 dimerization interface [polypeptide binding]; other site 640512018561 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 640512018562 putative metal binding site [ion binding]; other site 640512018563 putative homodimer interface [polypeptide binding]; other site 640512018564 putative homotetramer interface [polypeptide binding]; other site 640512018565 putative homodimer-homodimer interface [polypeptide binding]; other site 640512018566 putative allosteric switch controlling residues; other site 640512018567 EamA-like transporter family; Region: EamA; pfam00892 640512018568 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 640512018569 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 640512018570 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 640512018571 Beta-Casp domain; Region: Beta-Casp; smart01027 640512018572 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 640512018573 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 640512018574 ATPase, P-type (transporting), HAD superfamily, subfamily IC; Region: ATPase_P-type; TIGR01494 640512018575 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 640512018576 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 640512018577 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 640512018578 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512018579 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512018580 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 640512018581 putative dimerization interface [polypeptide binding]; other site 640512018582 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; pfam01977 640512018583 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 640512018584 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 640512018585 substrate binding site [chemical binding]; other site 640512018586 trimer interface [polypeptide binding]; other site 640512018587 oxyanion hole (OAH) forming residues; other site 640512018588 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 640512018589 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 640512018590 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 640512018591 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 640512018592 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 640512018593 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 640512018594 putative hydrophobic ligand binding site [chemical binding]; other site 640512018595 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 640512018596 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 640512018597 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640512018598 fumarylacetoacetase; Region: PLN02856 640512018599 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 640512018600 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 640512018601 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 640512018602 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640512018603 Zn binding site [ion binding]; other site 640512018604 FAD binding domain; Region: FAD_binding_3; pfam01494 640512018605 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 640512018606 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 640512018607 Flavoprotein; Region: Flavoprotein; pfam02441 640512018608 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640512018609 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 640512018610 trimer interface [polypeptide binding]; other site 640512018611 eyelet of channel; other site 640512018612 benzoate transport; Region: 2A0115; TIGR00895 640512018613 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512018614 putative substrate translocation pore; other site 640512018615 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512018616 Tar ligand binding domain homologue; Region: TarH; pfam02203 640512018617 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 640512018618 dimerization interface [polypeptide binding]; other site 640512018619 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 640512018620 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640512018621 dimer interface [polypeptide binding]; other site 640512018622 putative CheW interface [polypeptide binding]; other site 640512018623 benzoate transport; Region: 2A0115; TIGR00895 640512018624 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512018625 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 640512018626 S-adenosylmethionine binding site [chemical binding]; other site 640512018627 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 640512018628 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 640512018629 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640512018630 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 640512018631 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512018632 putative substrate translocation pore; other site 640512018633 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640512018634 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640512018635 DNA binding site [nucleotide binding] 640512018636 domain linker motif; other site 640512018637 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 640512018638 putative dimerization interface [polypeptide binding]; other site 640512018639 putative ligand binding site [chemical binding]; other site 640512018640 dihydroxy-acid dehydratase; Provisional; Region: PRK13017 640512018641 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]; Region: COG3970 640512018642 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 640512018643 Transcriptional regulators [Transcription]; Region: FadR; COG2186 640512018644 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640512018645 DNA-binding site [nucleotide binding]; DNA binding site 640512018646 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 640512018647 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512018648 D-galactonate transporter; Region: 2A0114; TIGR00893 640512018649 putative substrate translocation pore; other site 640512018650 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 640512018651 galactarate dehydratase; Region: galactar-dH20; TIGR03248 640512018652 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 640512018653 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 640512018654 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 640512018655 phosphate binding site [ion binding]; other site 640512018656 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 640512018657 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640512018658 putative ligand binding site [chemical binding]; other site 640512018659 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 640512018660 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 640512018661 Walker A/P-loop; other site 640512018662 ATP binding site [chemical binding]; other site 640512018663 Q-loop/lid; other site 640512018664 ABC transporter signature motif; other site 640512018665 Walker B; other site 640512018666 D-loop; other site 640512018667 H-loop/switch region; other site 640512018668 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 640512018669 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640512018670 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 640512018671 TM-ABC transporter signature motif; other site 640512018672 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 640512018673 TM-ABC transporter signature motif; other site 640512018674 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 640512018675 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 640512018676 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640512018677 putative ligand binding site [chemical binding]; other site 640512018678 D-lactate dehydrogenase; Provisional; Region: PRK11183 640512018679 FAD binding domain; Region: FAD_binding_4; pfam01565 640512018680 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 640512018681 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 640512018682 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512018683 putative substrate translocation pore; other site 640512018684 DNA-binding transcriptional regulator GlcC; Provisional; Region: PRK09990 640512018685 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640512018686 DNA-binding site [nucleotide binding]; DNA binding site 640512018687 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 640512018688 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640512018689 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640512018690 NAD(P) binding site [chemical binding]; other site 640512018691 active site 640512018692 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 640512018693 DctM-like transporters; Region: DctM; pfam06808 640512018694 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 640512018695 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 640512018696 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 640512018697 acetyl-CoA acetyltransferase; Provisional; Region: PRK07516 640512018698 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 640512018699 active site 640512018700 acyl-CoA synthetase; Validated; Region: PRK07470 640512018701 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 640512018702 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 640512018703 acyl-activating enzyme (AAE) consensus motif; other site 640512018704 acyl-activating enzyme (AAE) consensus motif; other site 640512018705 putative AMP binding site [chemical binding]; other site 640512018706 putative active site [active] 640512018707 putative CoA binding site [chemical binding]; other site 640512018708 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 640512018709 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 640512018710 active site 640512018711 catalytic tetrad [active] 640512018712 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640512018713 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512018714 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 640512018715 EamA-like transporter family; Region: EamA; pfam00892 640512018716 EamA-like transporter family; Region: EamA; pfam00892 640512018717 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 640512018718 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 640512018719 Walker A motif; other site 640512018720 ATP binding site [chemical binding]; other site 640512018721 Walker B motif; other site 640512018722 arginine finger; other site 640512018723 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 640512018724 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 640512018725 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512018726 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 640512018727 dimerization interface [polypeptide binding]; other site 640512018728 substrate binding pocket [chemical binding]; other site 640512018729 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 640512018730 trimer interface [polypeptide binding]; other site 640512018731 putative Zn binding site [ion binding]; other site 640512018732 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 640512018733 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 640512018734 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640512018735 homodimer interface [polypeptide binding]; other site 640512018736 catalytic residue [active] 640512018737 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 640512018738 putative hydrophobic ligand binding site [chemical binding]; other site 640512018739 protein interface [polypeptide binding]; other site 640512018740 gate; other site 640512018741 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 640512018742 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 640512018743 acyl-activating enzyme (AAE) consensus motif; other site 640512018744 AMP binding site [chemical binding]; other site 640512018745 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 640512018746 thioester reductase domain; Region: Thioester-redct; TIGR01746 640512018747 extended (e) SDRs, subgroup 1; Region: SDR_e1; cd05235 640512018748 putative NAD(P) binding site [chemical binding]; other site 640512018749 active site 640512018750 putative substrate binding site [chemical binding]; other site 640512018751 P-aminobenzoate N-oxygenase AurF; Region: AurF; pfam11583 640512018752 Protein of unknown function (DUF3050); Region: DUF3050; pfam11251 640512018753 Protein of unknown function (DUF1810); Region: DUF1810; pfam08837 640512018754 Cupin; Region: Cupin_6; pfam12852 640512018755 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640512018756 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640512018757 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 640512018758 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 640512018759 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 640512018760 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 640512018761 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640512018762 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 640512018763 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512018764 putative substrate translocation pore; other site 640512018765 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640512018766 HD domain; Region: HD_5; pfam13487 640512018767 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640512018768 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 640512018769 DNA binding residues [nucleotide binding] 640512018770 dimerization interface [polypeptide binding]; other site 640512018771 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 640512018772 active site 640512018773 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 640512018774 Amidase; Region: Amidase; cl11426 640512018775 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 640512018776 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 640512018777 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 640512018778 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512018779 dimer interface [polypeptide binding]; other site 640512018780 conserved gate region; other site 640512018781 putative PBP binding loops; other site 640512018782 ABC-ATPase subunit interface; other site 640512018783 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 640512018784 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 640512018785 Walker A/P-loop; other site 640512018786 ATP binding site [chemical binding]; other site 640512018787 Q-loop/lid; other site 640512018788 ABC transporter signature motif; other site 640512018789 Walker B; other site 640512018790 D-loop; other site 640512018791 H-loop/switch region; other site 640512018792 oxalate/formate antiporter; Region: oxa_formateAnti; TIGR04259 640512018793 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512018794 putative substrate translocation pore; other site 640512018795 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 640512018796 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 640512018797 Transcriptional regulators [Transcription]; Region: GntR; COG1802 640512018798 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640512018799 DNA-binding site [nucleotide binding]; DNA binding site 640512018800 FCD domain; Region: FCD; pfam07729 640512018801 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512018802 metabolite-proton symporter; Region: 2A0106; TIGR00883 640512018803 putative substrate translocation pore; other site 640512018804 shikimate 5-dehydrogenase; Region: aroE; TIGR00507 640512018805 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 640512018806 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 640512018807 shikimate binding site; other site 640512018808 NAD(P) binding site [chemical binding]; other site 640512018809 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 640512018810 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 640512018811 Bacterial transcriptional regulator; Region: IclR; pfam01614 640512018812 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 640512018813 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640512018814 NAD(P) binding site [chemical binding]; other site 640512018815 active site 640512018816 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640512018817 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640512018818 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 640512018819 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512018820 dimer interface [polypeptide binding]; other site 640512018821 conserved gate region; other site 640512018822 putative PBP binding loops; other site 640512018823 ABC-ATPase subunit interface; other site 640512018824 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 640512018825 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640512018826 Walker A/P-loop; other site 640512018827 ATP binding site [chemical binding]; other site 640512018828 Q-loop/lid; other site 640512018829 ABC transporter signature motif; other site 640512018830 Walker B; other site 640512018831 D-loop; other site 640512018832 H-loop/switch region; other site 640512018833 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 640512018834 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 640512018835 substrate binding pocket [chemical binding]; other site 640512018836 membrane-bound complex binding site; other site 640512018837 hinge residues; other site 640512018838 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 640512018839 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640512018840 active site 640512018841 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 640512018842 active site 640512018843 dimethyl sulfone monooxygenase SfnG; Region: LLM_DMSO2_sfnG; TIGR04021 640512018844 dimer interface [polypeptide binding]; other site 640512018845 non-prolyl cis peptide bond; other site 640512018846 insertion regions; other site 640512018847 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 640512018848 Cupin domain; Region: Cupin_2; pfam07883 640512018849 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512018850 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512018851 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 640512018852 putative effector binding pocket; other site 640512018853 dimerization interface [polypeptide binding]; other site 640512018854 Protein of unknown function, DUF488; Region: DUF488; pfam04343 640512018855 Predicted transcriptional regulators [Transcription]; Region: COG1733 640512018856 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 640512018857 dimerization interface [polypeptide binding]; other site 640512018858 putative DNA binding site [nucleotide binding]; other site 640512018859 putative Zn2+ binding site [ion binding]; other site 640512018860 glutathionine S-transferase; Provisional; Region: PRK10542 640512018861 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 640512018862 C-terminal domain interface [polypeptide binding]; other site 640512018863 GSH binding site (G-site) [chemical binding]; other site 640512018864 dimer interface [polypeptide binding]; other site 640512018865 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 640512018866 N-terminal domain interface [polypeptide binding]; other site 640512018867 dimer interface [polypeptide binding]; other site 640512018868 substrate binding pocket (H-site) [chemical binding]; other site 640512018869 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 640512018870 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 640512018871 Walker A motif; other site 640512018872 ATP binding site [chemical binding]; other site 640512018873 Walker B motif; other site 640512018874 arginine finger; other site 640512018875 HTH domain; Region: HTH_11; pfam08279 640512018876 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 640512018877 Integrase core domain; Region: rve; pfam00665 640512018878 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 640512018879 Predicted amidohydrolase [General function prediction only]; Region: COG0388 640512018880 active site 640512018881 catalytic triad [active] 640512018882 dimer interface [polypeptide binding]; other site 640512018883 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 640512018884 sequence-specific DNA binding site [nucleotide binding]; other site 640512018885 salt bridge; other site 640512018886 TniQ; Region: TniQ; pfam06527 640512018887 Protein of unknwon function (DUF2893); Region: DUF2893; pfam11459 640512018888 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512018889 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512018890 The 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 640512018891 dimerization interface [polypeptide binding]; other site 640512018892 Sulfatase; Region: Sulfatase; cl17466 640512018893 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 640512018894 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512018895 metabolite-proton symporter; Region: 2A0106; TIGR00883 640512018896 putative substrate translocation pore; other site 640512018897 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 640512018898 FAD binding domain; Region: FAD_binding_4; pfam01565 640512018899 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 640512018900 Ligand binding site [chemical binding]; other site 640512018901 Electron transfer flavoprotein domain; Region: ETF; pfam01012 640512018902 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 640512018903 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 640512018904 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 640512018905 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 640512018906 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 640512018907 dimer interface [polypeptide binding]; other site 640512018908 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 640512018909 active site 640512018910 Fe binding site [ion binding]; other site 640512018911 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 640512018912 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 640512018913 dimer interface [polypeptide binding]; other site 640512018914 ligand binding site [chemical binding]; other site 640512018915 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 640512018916 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 640512018917 dimerization interface [polypeptide binding]; other site 640512018918 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640512018919 dimer interface [polypeptide binding]; other site 640512018920 putative CheW interface [polypeptide binding]; other site 640512018921 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512018922 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512018923 The 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 640512018924 dimerization interface [polypeptide binding]; other site 640512018925 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512018926 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512018927 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 640512018928 putative dimerization interface [polypeptide binding]; other site 640512018929 tricarballylate dehydrogenase; Validated; Region: PRK08274 640512018930 tricarballylate utilization protein B; Provisional; Region: PRK15033 640512018931 aldolase II superfamily protein; Provisional; Region: PRK07044 640512018932 intersubunit interface [polypeptide binding]; other site 640512018933 active site 640512018934 Zn2+ binding site [ion binding]; other site 640512018935 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 640512018936 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512018937 putative substrate translocation pore; other site 640512018938 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 640512018939 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 640512018940 NAD binding site [chemical binding]; other site 640512018941 ligand binding site [chemical binding]; other site 640512018942 catalytic site [active] 640512018943 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640512018944 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 640512018945 trimer interface [polypeptide binding]; other site 640512018946 eyelet of channel; other site 640512018947 N-formylglutamate amidohydrolase; Region: FGase; cl01522 640512018948 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640512018949 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640512018950 The 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 640512018951 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 640512018952 delta-1-pyrroline-5-carboxylate dehydrogenase, group 1; Region: D1pyr5carbox1; TIGR01236 640512018953 NAD(P) binding site [chemical binding]; other site 640512018954 catalytic residues [active] 640512018955 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 640512018956 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 640512018957 inhibitor site; inhibition site 640512018958 active site 640512018959 dimer interface [polypeptide binding]; other site 640512018960 catalytic residue [active] 640512018961 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 640512018962 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 640512018963 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512018964 dimer interface [polypeptide binding]; other site 640512018965 conserved gate region; other site 640512018966 putative PBP binding loops; other site 640512018967 ABC-ATPase subunit interface; other site 640512018968 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 640512018969 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 640512018970 dimer interface [polypeptide binding]; other site 640512018971 conserved gate region; other site 640512018972 putative PBP binding loops; other site 640512018973 ABC-ATPase subunit interface; other site 640512018974 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 640512018975 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640512018976 Walker A/P-loop; other site 640512018977 ATP binding site [chemical binding]; other site 640512018978 Q-loop/lid; other site 640512018979 ABC transporter signature motif; other site 640512018980 Walker B; other site 640512018981 D-loop; other site 640512018982 H-loop/switch region; other site 640512018983 TOBE domain; Region: TOBE_2; pfam08402 640512018984 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 640512018985 FAD binding domain; Region: FAD_binding_4; pfam01565 640512018986 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 640512018987 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 640512018988 phosphate binding site [ion binding]; other site 640512018989 N-formylglutamate amidohydrolase; Region: FGase; cl01522 640512018990 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 640512018991 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 640512018992 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 640512018993 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 640512018994 Ligand binding site [chemical binding]; other site 640512018995 Electron transfer flavoprotein domain; Region: ETF; pfam01012 640512018996 HutD; Region: HutD; cl01532 640512018997 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640512018998 hydroxyglutarate oxidase; Provisional; Region: PRK11728 640512018999 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 640512019000 hydroxyglutarate oxidase; Provisional; Region: PRK11728 640512019001 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 640512019002 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 640512019003 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 640512019004 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 640512019005 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 640512019006 Fumarase C-terminus; Region: Fumerase_C; cl00795 640512019007 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 640512019008 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640512019009 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 640512019010 trimer interface [polypeptide binding]; other site 640512019011 eyelet of channel; other site 640512019012 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 640512019013 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 640512019014 putative substrate translocation pore; other site 640512019015 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 640512019016 CoA-transferase family III; Region: CoA_transf_3; pfam02515 640512019017 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 640512019018 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 640512019019 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640512019020 DNA-binding site [nucleotide binding]; DNA binding site 640512019021 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 640512019022 putative glutathione S-transferase; Provisional; Region: PRK10357 640512019023 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 640512019024 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 640512019025 dimer interface [polypeptide binding]; other site 640512019026 N-terminal domain interface [polypeptide binding]; other site 640512019027 putative substrate binding pocket (H-site) [chemical binding]; other site 640512019028 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 640512019029 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 640512019030 active site 640512019031 enoyl-CoA hydratase; Provisional; Region: PRK06495 640512019032 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 640512019033 substrate binding site [chemical binding]; other site 640512019034 oxyanion hole (OAH) forming residues; other site 640512019035 trimer interface [polypeptide binding]; other site 640512019036 RNA polymerase sigma factor; Provisional; Region: PRK12528 640512019037 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 640512019038 DNA binding residues [nucleotide binding] 640512019039 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 640512019040 FecR protein; Region: FecR; pfam04773 640512019041 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 640512019042 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 640512019043 putative DNA binding site [nucleotide binding]; other site 640512019044 putative Zn2+ binding site [ion binding]; other site 640512019045 AsnC family; Region: AsnC_trans_reg; pfam01037 640512019046 Secretin and TonB N terminus short domain; Region: STN; smart00965 640512019047 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 640512019048 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 640512019049 N-terminal plug; other site 640512019050 ligand-binding site [chemical binding]; other site 640512019051 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 640512019052 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 640512019053 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 640512019054 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 640512019055 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 640512019056 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 640512019057 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 640512019058 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 640512019059 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 640512019060 catalytic residues [active] 640512019061 peptidase PmbA; Provisional; Region: PRK11040 640512019062 protease TldD; Provisional; Region: tldD; PRK10735 640512019063 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 640512019064 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 640512019065 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640512019066 catalytic residue [active] 640512019067 aminopeptidase N; Provisional; Region: pepN; PRK14015 640512019068 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 640512019069 active site 640512019070 Zn binding site [ion binding]; other site 640512019071 Predicted transcriptional regulators [Transcription]; Region: COG1733 640512019072 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 640512019073 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 640512019074 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 640512019075 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 640512019076 NADH(P)-binding; Region: NAD_binding_10; pfam13460 640512019077 NAD binding site [chemical binding]; other site 640512019078 substrate binding site [chemical binding]; other site 640512019079 putative active site [active] 640512019080 short chain dehydrogenase; Provisional; Region: PRK06197 640512019081 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 640512019082 putative NAD(P) binding site [chemical binding]; other site 640512019083 active site 640512019084 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 640512019085 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 640512019086 active site 640512019087 DNA binding site [nucleotide binding] 640512019088 Int/Topo IB signature motif; other site 640512019089 Divergent AAA domain; Region: AAA_4; pfam04326 640512019090 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 640512019091 AAA domain; Region: AAA_13; pfam13166 640512019092 Domain of unknown function (DUF955); Region: DUF955; pfam06114 640512019093 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 640512019094 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 640512019095 non-specific DNA binding site [nucleotide binding]; other site 640512019096 salt bridge; other site 640512019097 sequence-specific DNA binding site [nucleotide binding]; other site 640512019098 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 640512019099 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 640512019100 active site 640512019101 NTP binding site [chemical binding]; other site 640512019102 metal binding triad [ion binding]; metal-binding site 640512019103 Prokaryotic E2 family B; Region: Prok-E2_B; pfam14461 640512019104 ThiF family; Region: ThiF; pfam00899 640512019105 ATP binding site [chemical binding]; other site