-- dump date 20140618_191926 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1036672000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1036672000002 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 1036672000003 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 1036672000004 Walker A motif; other site 1036672000005 ATP binding site [chemical binding]; other site 1036672000006 Walker B motif; other site 1036672000007 arginine finger; other site 1036672000008 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 1036672000009 DnaA box-binding interface [nucleotide binding]; other site 1036672000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 1036672000011 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 1036672000012 putative DNA binding surface [nucleotide binding]; other site 1036672000013 dimer interface [polypeptide binding]; other site 1036672000014 beta-clamp/clamp loader binding surface; other site 1036672000015 beta-clamp/translesion DNA polymerase binding surface; other site 1036672000016 potential frameshift: common BLAST hit: gi|187479879|ref|YP_787904.1| DNA gyrase subunit B 1036672000017 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1036672000018 EamA-like transporter family; Region: EamA; pfam00892 1036672000019 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1036672000020 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1036672000021 potential frameshift: common BLAST hit: gi|344207030|ref|YP_004792171.1| hydrophobe/amphiphile efflux-1 (HAE1) family transporter 1036672000022 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1036672000023 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1036672000024 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1036672000025 HlyD family secretion protein; Region: HlyD_3; pfam13437 1036672000026 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1036672000027 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672000028 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 1036672000029 putative effector binding pocket; other site 1036672000030 dimerization interface [polypeptide binding]; other site 1036672000031 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1036672000032 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1036672000033 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 1036672000034 ABC transporter transmembrane region; Region: ABC_membrane_3; pfam13748 1036672000035 potential frameshift: common BLAST hit: gi|77459658|ref|YP_349165.1| sigma-24 (FecI) 1036672000036 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1036672000037 Predicted transcriptional regulators [Transcription]; Region: COG1733 1036672000038 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1036672000039 LysE type translocator; Region: LysE; cl00565 1036672000040 potential frameshift: common BLAST hit: gi|33596707|ref|NP_884350.1| branched chain amino-acid ABC transporter substrate-binding protein 1036672000041 Cupin domain; Region: Cupin_2; pfam07883 1036672000042 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1036672000043 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 1036672000044 putative active site [active] 1036672000045 metal binding site [ion binding]; metal-binding site 1036672000046 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1036672000047 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672000048 The 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 1036672000049 dimerization interface [polypeptide binding]; other site 1036672000050 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1036672000051 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672000052 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 1036672000053 putative effector binding pocket; other site 1036672000054 dimerization interface [polypeptide binding]; other site 1036672000055 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 1036672000056 catalytic triad [active] 1036672000057 dimer interface [polypeptide binding]; other site 1036672000058 conserved cis-peptide bond; other site 1036672000059 Conserved protein containing a Zn-ribbon-like motif, possibly RNA-binding [General function prediction only]; Region: COG5516 1036672000060 Protein of unknown function (DUF1470); Region: DUF1470; pfam07336 1036672000061 CGNR zinc finger; Region: zf-CGNR; pfam11706 1036672000062 potential frameshift: common BLAST hit: gi|50122426|ref|YP_051593.1| hydrolase 1036672000063 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1036672000064 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 1036672000065 C-terminal domain interface [polypeptide binding]; other site 1036672000066 GSH binding site (G-site) [chemical binding]; other site 1036672000067 dimer interface [polypeptide binding]; other site 1036672000068 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 1036672000069 dimer interface [polypeptide binding]; other site 1036672000070 N-terminal domain interface [polypeptide binding]; other site 1036672000071 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1036672000072 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672000073 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 1036672000074 dimerization interface [polypeptide binding]; other site 1036672000075 substrate binding pocket [chemical binding]; other site 1036672000076 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1036672000077 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 1036672000078 C-terminal domain interface [polypeptide binding]; other site 1036672000079 GSH binding site (G-site) [chemical binding]; other site 1036672000080 dimer interface [polypeptide binding]; other site 1036672000081 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 1036672000082 dimer interface [polypeptide binding]; other site 1036672000083 N-terminal domain interface [polypeptide binding]; other site 1036672000084 luciferase-type oxidoreductase, BA3436 family; Region: lucif_BA3436; TIGR03571 1036672000085 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1036672000086 potential frameshift: common BLAST hit: gi|332286561|ref|YP_004418472.1| ABC transporter ATP-binding protein 1036672000087 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1036672000088 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1036672000089 DNA-binding site [nucleotide binding]; DNA binding site 1036672000090 FCD domain; Region: FCD; pfam07729 1036672000091 potential frameshift: common BLAST hit: gi|116691641|ref|YP_837174.1| short chain dehydrogenase 1036672000092 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1036672000093 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1036672000094 NAD(P) binding site [chemical binding]; other site 1036672000095 active site 1036672000096 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1036672000097 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1036672000098 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1036672000099 NAD(P) binding site [chemical binding]; other site 1036672000100 acetolactate synthase catalytic subunit; Validated; Region: PRK06112 1036672000101 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1036672000102 PYR/PP interface [polypeptide binding]; other site 1036672000103 dimer interface [polypeptide binding]; other site 1036672000104 TPP binding site [chemical binding]; other site 1036672000105 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1036672000106 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 1036672000107 TPP-binding site [chemical binding]; other site 1036672000108 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1036672000109 potential frameshift: common BLAST hit: gi|319782148|ref|YP_004141624.1| FAD dependent oxidoreductase 1036672000110 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1036672000111 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 1036672000112 putative DNA binding site [nucleotide binding]; other site 1036672000113 putative Zn2+ binding site [ion binding]; other site 1036672000114 AsnC family; Region: AsnC_trans_reg; pfam01037 1036672000115 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 1036672000116 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 1036672000117 putative active site [active] 1036672000118 putative catalytic site [active] 1036672000119 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1036672000120 KR domain; Region: KR; pfam08659 1036672000121 NAD(P) binding site [chemical binding]; other site 1036672000122 active site 1036672000123 potential frameshift: common BLAST hit: gi|163856270|ref|YP_001630568.1| acyl-CoA transferase 1036672000124 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672000125 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1036672000126 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672000127 The 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 1036672000128 dimerization interface [polypeptide binding]; other site 1036672000129 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1036672000130 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1036672000131 DNA-binding site [nucleotide binding]; DNA binding site 1036672000132 FCD domain; Region: FCD; pfam07729 1036672000133 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1036672000134 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1036672000135 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 1036672000136 active site pocket [active] 1036672000137 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 1036672000138 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1036672000139 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 1036672000140 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1036672000141 NAD binding site [chemical binding]; other site 1036672000142 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1036672000143 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 1036672000144 active site pocket [active] 1036672000145 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1036672000146 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 1036672000147 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 1036672000148 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 1036672000149 homotrimer interaction site [polypeptide binding]; other site 1036672000150 putative active site [active] 1036672000151 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1036672000152 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672000153 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 1036672000154 putative effector binding pocket; other site 1036672000155 putative dimerization interface [polypeptide binding]; other site 1036672000156 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 1036672000157 putative DNA binding site [nucleotide binding]; other site 1036672000158 putative Zn2+ binding site [ion binding]; other site 1036672000159 arsenical resistance protein ArsH; Region: resist_ArsH; TIGR02690 1036672000160 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1036672000161 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1036672000162 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1036672000163 active site 1036672000164 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 1036672000165 arsenical-resistance protein; Region: acr3; TIGR00832 1036672000166 potential frameshift: common BLAST hit: gi|241205135|ref|YP_002976231.1| major facilitator superfamily protein 1036672000167 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1036672000168 HAMP domain; Region: HAMP; pfam00672 1036672000169 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 1036672000170 dimer interface [polypeptide binding]; other site 1036672000171 phosphorylation site [posttranslational modification] 1036672000172 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1036672000173 ATP binding site [chemical binding]; other site 1036672000174 G-X-G motif; other site 1036672000175 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1036672000176 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1036672000177 active site 1036672000178 phosphorylation site [posttranslational modification] 1036672000179 intermolecular recognition site; other site 1036672000180 dimerization interface [polypeptide binding]; other site 1036672000181 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 1036672000182 DNA binding site [nucleotide binding] 1036672000183 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 1036672000184 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 1036672000185 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 1036672000186 [4Fe-4S] binding site [ion binding]; other site 1036672000187 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 1036672000188 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 1036672000189 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 1036672000190 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 1036672000191 molybdopterin cofactor binding site; other site 1036672000192 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 1036672000193 4Fe-4S binding domain; Region: Fer4; cl02805 1036672000194 Nitrate reductase delta subunit [Energy production and conversion]; Region: NarJ; COG2180 1036672000195 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 1036672000196 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1036672000197 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 1036672000198 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1036672000199 putative substrate translocation pore; other site 1036672000200 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK06130 1036672000201 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1036672000202 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1036672000203 hypothetical protein; Provisional; Region: PRK11171 1036672000204 Cupin domain; Region: Cupin_2; cl17218 1036672000205 Cupin domain; Region: Cupin_2; pfam07883 1036672000206 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; pfam04115 1036672000207 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 1036672000208 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1036672000209 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1036672000210 FCD domain; Region: FCD; pfam07729 1036672000211 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 1036672000212 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1036672000213 NAD(P) binding site [chemical binding]; other site 1036672000214 putative active site [active] 1036672000215 L-aspartate oxidase; Provisional; Region: PRK09077 1036672000216 L-aspartate oxidase; Provisional; Region: PRK06175 1036672000217 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1036672000218 Quinolinate synthetase A protein; Region: NadA; cl00420 1036672000219 quinolinate synthetase; Provisional; Region: PRK09375 1036672000220 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 1036672000221 potential frameshift: common BLAST hit: gi|148653759|ref|YP_001280852.1| nicotinate-nucleotide pyrophosphorylase 1036672000222 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 1036672000223 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1036672000224 Bacterial transcriptional regulator; Region: IclR; pfam01614 1036672000225 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK09053 1036672000226 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 1036672000227 tetramer interface [polypeptide binding]; other site 1036672000228 active site 1036672000229 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 1036672000230 heterodimer interface [polypeptide binding]; other site 1036672000231 multimer interface [polypeptide binding]; other site 1036672000232 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 1036672000233 active site 1036672000234 potential frameshift: common BLAST hit: gi|50084866|ref|YP_046376.1| protocatechuate 3,4-dioxygenase subunit alpha (3,4-PCD) 1036672000235 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1036672000236 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672000237 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 1036672000238 putative dimerization interface [polypeptide binding]; other site 1036672000239 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 1036672000240 classical (c) SDRs; Region: SDR_c; cd05233 1036672000241 NAD(P) binding site [chemical binding]; other site 1036672000242 active site 1036672000243 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 1036672000244 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1036672000245 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1036672000246 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1036672000247 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672000248 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1036672000249 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672000250 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1036672000251 dimerization interface [polypeptide binding]; other site 1036672000252 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 1036672000253 Ankyrin repeat; Region: Ank; pfam00023 1036672000254 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1036672000255 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 1036672000256 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 1036672000257 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 1036672000258 nucleoside/Zn binding site; other site 1036672000259 dimer interface [polypeptide binding]; other site 1036672000260 catalytic motif [active] 1036672000261 putative cyanate transporter; Provisional; Region: cynX; PRK09705 1036672000262 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1036672000263 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1036672000264 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1036672000265 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672000266 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 1036672000267 substrate binding pocket [chemical binding]; other site 1036672000268 dimerization interface [polypeptide binding]; other site 1036672000269 Cytochrome c; Region: Cytochrom_C; pfam00034 1036672000270 sulfite oxidase; Provisional; Region: PLN00177 1036672000271 bacterial SoxC is a member of the sulfite oxidase (SO) family of molybdopterin binding domains. SoxC is involved in oxidation of sulfur compounds during chemolithothrophic growth. Together with SoxD, a small c-type heme containing subunit, it forms a...; Region: bact_SoxC_Moco; cd02113 1036672000272 Moco binding site; other site 1036672000273 metal coordination site [ion binding]; other site 1036672000274 dimerization interface [polypeptide binding]; other site 1036672000275 TRAP-type mannitol/chloroaromatic compound transport system, small permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT2; COG4665 1036672000276 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 1036672000277 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 1036672000278 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 1036672000279 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 1036672000280 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1036672000281 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1036672000282 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 1036672000283 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 1036672000284 Isochorismatase family; Region: Isochorismatase; pfam00857 1036672000285 catalytic triad [active] 1036672000286 conserved cis-peptide bond; other site 1036672000287 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 1036672000288 inter-subunit interface; other site 1036672000289 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1036672000290 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 1036672000291 iron-sulfur cluster [ion binding]; other site 1036672000292 [2Fe-2S] cluster binding site [ion binding]; other site 1036672000293 C-terminal catalytic domain of the large/alpha subunit (ahdA1c) of a ring-hydroxylating dioxygenase from Sphingomonas sp. strain P2 and related proteins; Region: RHO_alpha_C_ahdA1c-like; cd08880 1036672000294 putative alpha subunit interface [polypeptide binding]; other site 1036672000295 putative active site [active] 1036672000296 putative substrate binding site [chemical binding]; other site 1036672000297 Fe binding site [ion binding]; other site 1036672000298 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 1036672000299 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1036672000300 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 1036672000301 [2Fe-2S] cluster binding site [ion binding]; other site 1036672000302 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 1036672000303 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1036672000304 potential frameshift: common BLAST hit: gi|33599270|ref|NP_886830.1| oxidoreductase, large chain 1036672000305 potential frameshift: common BLAST hit: gi|33599270|ref|NP_886830.1| oxidoreductase, large chain 1036672000306 FAD binding domain in molybdopterin dehydrogenase; Region: FAD_binding_5; pfam00941 1036672000307 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1036672000308 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 1036672000309 catalytic loop [active] 1036672000310 iron binding site [ion binding]; other site 1036672000311 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1036672000312 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_5; cd07823 1036672000313 putative hydrophobic ligand binding site [chemical binding]; other site 1036672000314 NMT1/THI5 like; Region: NMT1; pfam09084 1036672000315 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1036672000316 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1036672000317 Walker A/P-loop; other site 1036672000318 ATP binding site [chemical binding]; other site 1036672000319 Q-loop/lid; other site 1036672000320 ABC transporter signature motif; other site 1036672000321 Walker B; other site 1036672000322 D-loop; other site 1036672000323 H-loop/switch region; other site 1036672000324 potential frameshift: common BLAST hit: gi|384203098|ref|YP_005588837.1| ABC transporter permease 1036672000325 potential frameshift: common BLAST hit: gi|33599257|ref|NP_886817.1| MarR family transcriptional regulator 1036672000326 potential frameshift: common BLAST hit: gi|241663151|ref|YP_002981511.1| LysR family transcriptional regulator 1036672000327 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 1036672000328 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 1036672000329 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 1036672000330 oligomeric interface; other site 1036672000331 putative active site [active] 1036672000332 homodimer interface [polypeptide binding]; other site 1036672000333 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3755 1036672000334 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1036672000335 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1036672000336 Coenzyme A binding pocket [chemical binding]; other site 1036672000337 CsbD-like; Region: CsbD; cl17424 1036672000338 Competence-damaged protein; Region: CinA; pfam02464 1036672000339 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1036672000340 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 1036672000341 ligand binding site [chemical binding]; other site 1036672000342 active site 1036672000343 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1036672000344 potential frameshift: common BLAST hit: gi|71734625|ref|YP_276951.1| LacI family transcriptional regulator 1036672000345 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1036672000346 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 1036672000347 putative ligand binding site [chemical binding]; other site 1036672000348 NAD binding site [chemical binding]; other site 1036672000349 catalytic site [active] 1036672000350 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672000351 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672000352 Dehydratase family; Region: ILVD_EDD; cl00340 1036672000353 Dehydratase family; Region: ILVD_EDD; cl00340 1036672000354 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 1036672000355 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1036672000356 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 1036672000357 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 1036672000358 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672000359 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1036672000360 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1036672000361 DNA-binding site [nucleotide binding]; DNA binding site 1036672000362 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1036672000363 FCD domain; Region: FCD; pfam07729 1036672000364 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 1036672000365 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672000366 potential frameshift: common BLAST hit: gi|91789713|ref|YP_550665.1| aconitate hydratase 1036672000367 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1036672000368 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 1036672000369 substrate binding pocket [chemical binding]; other site 1036672000370 membrane-bound complex binding site; other site 1036672000371 hinge residues; other site 1036672000372 Uncharacterized conserved protein [Function unknown]; Region: COG5649 1036672000373 potential frameshift: common BLAST hit: gi|384203600|ref|YP_005589339.1| sodium/solute symporter 1036672000374 potential frameshift: common BLAST hit: gi|333911784|ref|YP_004485516.1| AraC family transcriptional regulator 1036672000375 enterobactin receptor protein; Provisional; Region: PRK13483 1036672000376 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 1036672000377 N-terminal plug; other site 1036672000378 ligand-binding site [chemical binding]; other site 1036672000379 ferrichrome/ferrioxamine B periplasmic transporter; Provisional; Region: PRK14048 1036672000380 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 1036672000381 intersubunit interface [polypeptide binding]; other site 1036672000382 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 1036672000383 ABC-ATPase subunit interface; other site 1036672000384 dimer interface [polypeptide binding]; other site 1036672000385 putative PBP binding regions; other site 1036672000386 potential frameshift: common BLAST hit: gi|316934487|ref|YP_004109469.1| ABC transporter-like protein 1036672000387 potential frameshift: common BLAST hit: gi|333911785|ref|YP_004485517.1| FAD-binding 9 siderophore-interacting domain-containing protein 1036672000388 enterobactin exporter EntS; Provisional; Region: PRK10489 1036672000389 enterobactin exporter EntS; Provisional; Region: PRK10489 1036672000390 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1036672000391 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 1036672000392 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1036672000393 putative substrate translocation pore; other site 1036672000394 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 1036672000395 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 1036672000396 DctM-like transporters; Region: DctM; pfam06808 1036672000397 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1036672000398 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1036672000399 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1036672000400 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1036672000401 potential frameshift: common BLAST hit: gi|157372252|ref|YP_001480241.1| aldehyde oxidase and xanthine dehydrogenase 1036672000402 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1036672000403 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1036672000404 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1036672000405 Cytochrome c; Region: Cytochrom_C; pfam00034 1036672000406 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1036672000407 RibD C-terminal domain; Region: RibD_C; cl17279 1036672000408 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1036672000409 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1036672000410 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 1036672000411 ligand binding site [chemical binding]; other site 1036672000412 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1036672000413 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1036672000414 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 1036672000415 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1036672000416 TM-ABC transporter signature motif; other site 1036672000417 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1036672000418 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 1036672000419 TM-ABC transporter signature motif; other site 1036672000420 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1036672000421 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1036672000422 Walker A/P-loop; other site 1036672000423 ATP binding site [chemical binding]; other site 1036672000424 Q-loop/lid; other site 1036672000425 ABC transporter signature motif; other site 1036672000426 Walker B; other site 1036672000427 D-loop; other site 1036672000428 H-loop/switch region; other site 1036672000429 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1036672000430 Walker A/P-loop; other site 1036672000431 ATP binding site [chemical binding]; other site 1036672000432 ABC transporter; Region: ABC_tran; pfam00005 1036672000433 Q-loop/lid; other site 1036672000434 ABC transporter signature motif; other site 1036672000435 Walker B; other site 1036672000436 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1036672000437 H-loop/switch region; other site 1036672000438 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1036672000439 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1036672000440 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 1036672000441 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 1036672000442 Isochorismatase family; Region: Isochorismatase; pfam00857 1036672000443 catalytic triad [active] 1036672000444 conserved cis-peptide bond; other site 1036672000445 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1036672000446 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1036672000447 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1036672000448 NAD(P) binding site [chemical binding]; other site 1036672000449 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1036672000450 active site 1036672000451 potential frameshift: common BLAST hit: gi|33601439|ref|NP_888999.1| mandelate racemase/muconate lactonizing enzyme 1036672000452 choline dehydrogenase; Validated; Region: PRK02106 1036672000453 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1036672000454 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1036672000455 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 1036672000456 substrate binding pocket [chemical binding]; other site 1036672000457 membrane-bound complex binding site; other site 1036672000458 hinge residues; other site 1036672000459 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1036672000460 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1036672000461 Walker A/P-loop; other site 1036672000462 ATP binding site [chemical binding]; other site 1036672000463 Q-loop/lid; other site 1036672000464 ABC transporter signature motif; other site 1036672000465 Walker B; other site 1036672000466 D-loop; other site 1036672000467 H-loop/switch region; other site 1036672000468 potential frameshift: common BLAST hit: gi|146343621|ref|YP_001208669.1| permease 1036672000469 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1036672000470 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1036672000471 DNA-binding site [nucleotide binding]; DNA binding site 1036672000472 UTRA domain; Region: UTRA; pfam07702 1036672000473 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 1036672000474 putative metal binding site [ion binding]; other site 1036672000475 putative homodimer interface [polypeptide binding]; other site 1036672000476 putative homotetramer interface [polypeptide binding]; other site 1036672000477 putative homodimer-homodimer interface [polypeptide binding]; other site 1036672000478 putative allosteric switch controlling residues; other site 1036672000479 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1036672000480 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1036672000481 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1036672000482 potential frameshift: common BLAST hit: gi|146305239|ref|YP_001185704.1| L-lactate permease 1036672000483 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1036672000484 The 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 1036672000485 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1036672000486 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672000487 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 1036672000488 dimerization interface [polypeptide binding]; other site 1036672000489 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 1036672000490 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1036672000491 NAD binding site [chemical binding]; other site 1036672000492 substrate binding site [chemical binding]; other site 1036672000493 putative active site [active] 1036672000494 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1036672000495 conserved hypothetical protein; Region: TIGR02118 1036672000496 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1036672000497 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1036672000498 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1036672000499 putative substrate translocation pore; other site 1036672000500 potential frameshift: common BLAST hit: gi|311105512|ref|YP_003978365.1| AraC family transcriptional regulator 1036672000501 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1036672000502 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1036672000503 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 1036672000504 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5383 1036672000505 potential frameshift: common BLAST hit: gi|187479130|ref|YP_787155.1| iron ABC transporter substrate-binding protein 1036672000506 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1036672000507 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 1036672000508 ABC-ATPase subunit interface; other site 1036672000509 dimer interface [polypeptide binding]; other site 1036672000510 putative PBP binding regions; other site 1036672000511 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 1036672000512 ABC-ATPase subunit interface; other site 1036672000513 dimer interface [polypeptide binding]; other site 1036672000514 putative PBP binding regions; other site 1036672000515 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 1036672000516 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1036672000517 Walker A/P-loop; other site 1036672000518 ATP binding site [chemical binding]; other site 1036672000519 Q-loop/lid; other site 1036672000520 ABC transporter signature motif; other site 1036672000521 Walker B; other site 1036672000522 D-loop; other site 1036672000523 H-loop/switch region; other site 1036672000524 potential frameshift: common BLAST hit: gi|311108659|ref|YP_003981512.1| mechanosensitive ion channel 1036672000525 potential frameshift: common BLAST hit: gi|311108659|ref|YP_003981512.1| mechanosensitive ion channel 1036672000526 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1036672000527 classical (c) SDRs; Region: SDR_c; cd05233 1036672000528 NAD(P) binding site [chemical binding]; other site 1036672000529 active site 1036672000530 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 1036672000531 dimer interface [polypeptide binding]; other site 1036672000532 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 1036672000533 dimer interface [polypeptide binding]; other site 1036672000534 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 1036672000535 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 1036672000536 ATP binding site [chemical binding]; other site 1036672000537 Walker B motif; other site 1036672000538 arginine finger; other site 1036672000539 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1036672000540 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 1036672000541 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1036672000542 NAD(P) binding site [chemical binding]; other site 1036672000543 catalytic residues [active] 1036672000544 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1036672000545 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 1036672000546 catalytic loop [active] 1036672000547 iron binding site [ion binding]; other site 1036672000548 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1036672000549 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1036672000550 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1036672000551 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1036672000552 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1036672000553 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 1036672000554 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 1036672000555 Ligand binding site; other site 1036672000556 metal-binding site 1036672000557 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 1036672000558 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1036672000559 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1036672000560 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 1036672000561 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 1036672000562 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1036672000563 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1036672000564 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 1036672000565 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 1036672000566 Trp docking motif [polypeptide binding]; other site 1036672000567 active site 1036672000568 acetylornithine deacetylase; Provisional; Region: PRK07522 1036672000569 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 1036672000570 metal binding site [ion binding]; metal-binding site 1036672000571 putative dimer interface [polypeptide binding]; other site 1036672000572 potential frameshift: common BLAST hit: gi|311104724|ref|YP_003977577.1| sugar transporter family protein 5 1036672000573 OsmC-like protein; Region: OsmC; cl00767 1036672000574 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1036672000575 Arylamine N-acetyltransferase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NhoA; COG2162 1036672000576 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 1036672000577 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 1036672000578 DNA binding residues [nucleotide binding] 1036672000579 dimer interface [polypeptide binding]; other site 1036672000580 [2Fe-2S] cluster binding site [ion binding]; other site 1036672000581 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 1036672000582 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cl00279 1036672000583 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 1036672000584 active site 1036672000585 potential frameshift: common BLAST hit: gi|340787264|ref|YP_004752729.1| hydrolase or acyltransferase-like protein 1036672000586 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 1036672000587 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1036672000588 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1036672000589 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 1036672000590 Fumarase C-terminus; Region: Fumerase_C; cl00795 1036672000591 Uncharacterized conserved protein [Function unknown]; Region: COG3189 1036672000592 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 1036672000593 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 1036672000594 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 1036672000595 Trp docking motif [polypeptide binding]; other site 1036672000596 putative active site [active] 1036672000597 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 1036672000598 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1036672000599 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 1036672000600 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1036672000601 Isochorismatase family; Region: Isochorismatase; pfam00857 1036672000602 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 1036672000603 catalytic triad [active] 1036672000604 conserved cis-peptide bond; other site 1036672000605 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1036672000606 conserved cys residue [active] 1036672000607 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1036672000608 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1036672000609 Bacterial transcriptional regulator; Region: IclR; pfam01614 1036672000610 potential frameshift: common BLAST hit: gi|91790346|ref|YP_551298.1| hydroxymethylglutaryl-CoA lyase 1036672000611 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1036672000612 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1036672000613 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1036672000614 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1036672000615 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1036672000616 putative acyl-acceptor binding pocket; other site 1036672000617 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 1036672000618 Enoylreductase; Region: PKS_ER; smart00829 1036672000619 NADP binding site [chemical binding]; other site 1036672000620 dimer interface [polypeptide binding]; other site 1036672000621 Uncharacterized protein conserved in bacteria (DUF2191); Region: DUF2191; pfam09957 1036672000622 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: VapC; COG1487 1036672000623 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 1036672000624 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 1036672000625 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672000626 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 1036672000627 putative effector binding pocket; other site 1036672000628 putative dimerization interface [polypeptide binding]; other site 1036672000629 Predicted membrane protein (DUF2214); Region: DUF2214; cl01427 1036672000630 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 1036672000631 putative active site pocket [active] 1036672000632 dimerization interface [polypeptide binding]; other site 1036672000633 putative catalytic residue [active] 1036672000634 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 1036672000635 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1036672000636 Walker A/P-loop; other site 1036672000637 ATP binding site [chemical binding]; other site 1036672000638 ABC transporter; Region: ABC_tran; pfam00005 1036672000639 Q-loop/lid; other site 1036672000640 ABC transporter signature motif; other site 1036672000641 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1036672000642 Walker B; other site 1036672000643 D-loop; other site 1036672000644 H-loop/switch region; other site 1036672000645 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1036672000646 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1036672000647 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1036672000648 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1036672000649 putative active site [active] 1036672000650 putative metal binding site [ion binding]; other site 1036672000651 Lysine efflux permease [General function prediction only]; Region: COG1279 1036672000652 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 1036672000653 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 1036672000654 Walker A/P-loop; other site 1036672000655 ATP binding site [chemical binding]; other site 1036672000656 Q-loop/lid; other site 1036672000657 ABC transporter signature motif; other site 1036672000658 Walker B; other site 1036672000659 D-loop; other site 1036672000660 H-loop/switch region; other site 1036672000661 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 1036672000662 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672000663 dimer interface [polypeptide binding]; other site 1036672000664 conserved gate region; other site 1036672000665 putative PBP binding loops; other site 1036672000666 ABC-ATPase subunit interface; other site 1036672000667 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1036672000668 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1036672000669 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1036672000670 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1036672000671 Cupin domain; Region: Cupin_2; pfam07883 1036672000672 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672000673 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1036672000674 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1036672000675 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1036672000676 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1036672000677 active site 1036672000678 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1036672000679 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1036672000680 Bacterial transcriptional regulator; Region: IclR; pfam01614 1036672000681 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 1036672000682 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 1036672000683 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 1036672000684 active site 1036672000685 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1036672000686 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1036672000687 active site 1036672000688 metal binding site [ion binding]; metal-binding site 1036672000689 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 1036672000690 metal-binding site [ion binding] 1036672000691 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1036672000692 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1036672000693 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1036672000694 N-terminal domain interface [polypeptide binding]; other site 1036672000695 dimer interface [polypeptide binding]; other site 1036672000696 substrate binding pocket (H-site) [chemical binding]; other site 1036672000697 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1036672000698 Coenzyme A binding pocket [chemical binding]; other site 1036672000699 potential frameshift: common BLAST hit: gi|319778804|ref|YP_004129717.1| Oligopeptide ABC transporter, periplasmic oligopeptide-binding 1036672000700 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1036672000701 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1036672000702 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672000703 dimer interface [polypeptide binding]; other site 1036672000704 ABC-ATPase subunit interface; other site 1036672000705 putative PBP binding loops; other site 1036672000706 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1036672000707 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672000708 dimer interface [polypeptide binding]; other site 1036672000709 conserved gate region; other site 1036672000710 putative PBP binding loops; other site 1036672000711 ABC-ATPase subunit interface; other site 1036672000712 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 1036672000713 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1036672000714 Walker A/P-loop; other site 1036672000715 ATP binding site [chemical binding]; other site 1036672000716 Q-loop/lid; other site 1036672000717 ABC transporter signature motif; other site 1036672000718 Walker B; other site 1036672000719 D-loop; other site 1036672000720 H-loop/switch region; other site 1036672000721 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1036672000722 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 1036672000723 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 1036672000724 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1036672000725 catalytic residues [active] 1036672000726 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 1036672000727 multidrug efflux system translocase MdfA; Provisional; Region: PRK15402 1036672000728 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1036672000729 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1036672000730 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 1036672000731 FAD binding pocket [chemical binding]; other site 1036672000732 FAD binding motif [chemical binding]; other site 1036672000733 phosphate binding motif [ion binding]; other site 1036672000734 beta-alpha-beta structure motif; other site 1036672000735 NAD binding pocket [chemical binding]; other site 1036672000736 potential frameshift: common BLAST hit: gi|348589363|ref|YP_004873825.1| ATP-dependent DNA helicase PcrA 1036672000737 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 cycle, which allows certain organisms, like plants and fungi, to derive their...; Region: malate_synt; cl17217 1036672000738 active site 1036672000739 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 cycle, which allows certain organisms, like plants and fungi, to derive their...; Region: malate_synt; cl17217 1036672000740 antitoxin YefM; Provisional; Region: PRK11409 1036672000741 Plasmid encoded toxin Txe; Region: Plasmid_Txe; cl17389 1036672000742 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1036672000743 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1036672000744 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1036672000745 Domain of unknown function (DUF4150); Region: DUF4150; pfam13665 1036672000746 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1036672000747 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1036672000748 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1036672000749 Uncharacterized protein conserved in bacteria (DUF2169); Region: DUF2169; cl02212 1036672000750 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1036672000751 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1036672000752 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1036672000753 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1036672000754 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1036672000755 potential frameshift: common BLAST hit: gi|348590357|ref|YP_004874819.1| RHS protein 1036672000756 Domain of unknown function (DUF4284); Region: DUF4284; pfam14112 1036672000757 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 1036672000758 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 1036672000759 active site residue [active] 1036672000760 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 1036672000761 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 1036672000762 active site residue [active] 1036672000763 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_10; cd07251 1036672000764 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1036672000765 potential frameshift: common BLAST hit: gi|91779188|ref|YP_554396.1| putative integral membrane protein 1036672000766 potential frameshift: common BLAST hit: gi|319778805|ref|YP_004129718.1| Exopolysaccharide biosynthesis protein-like protein 1036672000767 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 1036672000768 Pseudouridine synthase, a subgroup of the RluA family; Region: PSRA_1; cd02558 1036672000769 probable active site [active] 1036672000770 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 1036672000771 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 1036672000772 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 1036672000773 potential frameshift: common BLAST hit: gi|146294153|ref|YP_001184577.1| NAD(P) transhydrogenase subunit alpha 1036672000774 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1036672000775 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1036672000776 enoyl-CoA hydratase; Provisional; Region: PRK08290 1036672000777 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 1036672000778 substrate binding site [chemical binding]; other site 1036672000779 oxyanion hole (OAH) forming residues; other site 1036672000780 trimer interface [polypeptide binding]; other site 1036672000781 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 1036672000782 CoA binding domain; Region: CoA_binding_2; pfam13380 1036672000783 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 1036672000784 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 1036672000785 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672000786 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1036672000787 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1036672000788 active site 1036672000789 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1036672000790 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1036672000791 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1036672000792 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 1036672000793 NodB motif; other site 1036672000794 active site 1036672000795 catalytic site [active] 1036672000796 metal binding site [ion binding]; metal-binding site 1036672000797 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1036672000798 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 1036672000799 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1036672000800 DNA-binding site [nucleotide binding]; DNA binding site 1036672000801 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 1036672000802 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1036672000803 homodimer interface [polypeptide binding]; other site 1036672000804 catalytic residue [active] 1036672000805 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 1036672000806 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 1036672000807 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 1036672000808 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 1036672000809 Nucleoside 2-deoxyribosyltransferase [Nucleotide transport and metabolism]; Region: COG3613 1036672000810 SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain; Region: SET; smart00317 1036672000811 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 1036672000812 oligomerization interface [polypeptide binding]; other site 1036672000813 active site 1036672000814 metal binding site [ion binding]; metal-binding site 1036672000815 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 1036672000816 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1036672000817 PYR/PP interface [polypeptide binding]; other site 1036672000818 dimer interface [polypeptide binding]; other site 1036672000819 TPP binding site [chemical binding]; other site 1036672000820 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; cd00368 1036672000821 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 1036672000822 TPP-binding site [chemical binding]; other site 1036672000823 dimer interface [polypeptide binding]; other site 1036672000824 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1036672000825 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 1036672000826 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1036672000827 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672000828 dimer interface [polypeptide binding]; other site 1036672000829 conserved gate region; other site 1036672000830 putative PBP binding loops; other site 1036672000831 ABC-ATPase subunit interface; other site 1036672000832 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1036672000833 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672000834 dimer interface [polypeptide binding]; other site 1036672000835 conserved gate region; other site 1036672000836 putative PBP binding loops; other site 1036672000837 ABC-ATPase subunit interface; other site 1036672000838 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1036672000839 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1036672000840 Walker A/P-loop; other site 1036672000841 ATP binding site [chemical binding]; other site 1036672000842 Q-loop/lid; other site 1036672000843 ABC transporter signature motif; other site 1036672000844 Walker B; other site 1036672000845 D-loop; other site 1036672000846 H-loop/switch region; other site 1036672000847 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1036672000848 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1036672000849 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 1036672000850 Walker A/P-loop; other site 1036672000851 ATP binding site [chemical binding]; other site 1036672000852 Q-loop/lid; other site 1036672000853 ABC transporter signature motif; other site 1036672000854 Walker B; other site 1036672000855 D-loop; other site 1036672000856 H-loop/switch region; other site 1036672000857 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1036672000858 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_2; cd08498 1036672000859 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1036672000860 Acyl-CoA thioester hydrolase/BAAT N-terminal region; Region: Bile_Hydr_Trans; pfam04775 1036672000861 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 1036672000862 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1036672000863 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1036672000864 NAD(P) binding site [chemical binding]; other site 1036672000865 active site 1036672000866 Citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CCL cleaves citryl-CoA (CiCoA) to acetyl-CoA (AcCoA) and oxaloacetate (OAA); Region: CCL_ACL-C; cd06100 1036672000867 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1036672000868 active site 1036672000869 oxalacetate binding site [chemical binding]; other site 1036672000870 citrylCoA binding site [chemical binding]; other site 1036672000871 coenzyme A binding site [chemical binding]; other site 1036672000872 catalytic triad [active] 1036672000873 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1036672000874 AMP binding site [chemical binding]; other site 1036672000875 active site 1036672000876 CoA binding site [chemical binding]; other site 1036672000877 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1036672000878 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1036672000879 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1036672000880 acyl-activating enzyme (AAE) consensus motif; other site 1036672000881 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672000882 potential frameshift: common BLAST hit: gi|332286191|ref|YP_004418102.1| IclR family transcriptional regulator 1036672000883 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4950; cl17731 1036672000884 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1036672000885 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 1036672000886 YcfA-like protein; Region: YcfA; pfam07927 1036672000887 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 1036672000888 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 1036672000889 Methyltransferase domain; Region: Methyltransf_32; pfam13679 1036672000890 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1036672000891 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 1036672000892 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 1036672000893 FeS/SAM binding site; other site 1036672000894 HemN C-terminal domain; Region: HemN_C; pfam06969 1036672000895 DNA topoisomerase III; Validated; Region: PRK08173 1036672000896 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 1036672000897 active site 1036672000898 putative interdomain interaction site [polypeptide binding]; other site 1036672000899 putative metal-binding site [ion binding]; other site 1036672000900 putative nucleotide binding site [chemical binding]; other site 1036672000901 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 1036672000902 domain I; other site 1036672000903 DNA binding groove [nucleotide binding] 1036672000904 phosphate binding site [ion binding]; other site 1036672000905 domain II; other site 1036672000906 domain III; other site 1036672000907 nucleotide binding site [chemical binding]; other site 1036672000908 catalytic site [active] 1036672000909 domain IV; other site 1036672000910 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 1036672000911 PADR1 (NUC008) domain; Region: PADR1; pfam08063 1036672000912 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 1036672000913 Predicted membrane protein (DUF2157); Region: DUF2157; pfam09925 1036672000914 GDYXXLXY protein; Region: GDYXXLXY; pfam14345 1036672000915 GDYXXLXY protein; Region: GDYXXLXY; cl02066 1036672000916 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 1036672000917 active site 1036672000918 HIGH motif; other site 1036672000919 nucleotide binding site [chemical binding]; other site 1036672000920 active site 1036672000921 KMSKS motif; other site 1036672000922 acetylornithine transaminase protein; Provisional; Region: argD; PRK03715 1036672000923 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 1036672000924 inhibitor-cofactor binding pocket; inhibition site 1036672000925 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1036672000926 catalytic residue [active] 1036672000927 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 1036672000928 carboxyltransferase (CT) interaction site; other site 1036672000929 biotinylation site [posttranslational modification]; other site 1036672000930 potential frameshift: common BLAST hit: gi|33603923|ref|NP_891483.1| biotin carboxylase 1036672000931 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 1036672000932 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1036672000933 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 1036672000934 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 1036672000935 dimer interface [polypeptide binding]; other site 1036672000936 active site 1036672000937 potential frameshift: common BLAST hit: gi|33603920|ref|NP_891480.1| bifunctional isocitrate dehydrogenase kinase/phosphatase 1036672000938 potential frameshift: common BLAST hit: gi|187479839|ref|YP_787864.1| isovaleryl-CoA dehydrogenase 1036672000939 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 1036672000940 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1036672000941 DNA binding residues [nucleotide binding] 1036672000942 putative dimer interface [polypeptide binding]; other site 1036672000943 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1036672000944 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 1036672000945 putative glutathione S-transferase; Provisional; Region: PRK10357 1036672000946 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 1036672000947 putative C-terminal domain interface [polypeptide binding]; other site 1036672000948 putative GSH binding site (G-site) [chemical binding]; other site 1036672000949 putative dimer interface [polypeptide binding]; other site 1036672000950 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 1036672000951 dimer interface [polypeptide binding]; other site 1036672000952 N-terminal domain interface [polypeptide binding]; other site 1036672000953 putative substrate binding pocket (H-site) [chemical binding]; other site 1036672000954 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1036672000955 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 1036672000956 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 1036672000957 active site 1036672000958 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1036672000959 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 1036672000960 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1036672000961 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 1036672000962 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1036672000963 active site 1036672000964 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1036672000965 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1036672000966 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 1036672000967 putative active site [active] 1036672000968 putative catalytic site [active] 1036672000969 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672000970 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672000971 potential frameshift: common BLAST hit: gi|239820800|ref|YP_002947985.1| L-carnitine dehydratase/bile acid-inducible protein F 1036672000972 enoyl-CoA hydratase; Provisional; Region: PRK06495 1036672000973 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 1036672000974 substrate binding site [chemical binding]; other site 1036672000975 oxyanion hole (OAH) forming residues; other site 1036672000976 trimer interface [polypeptide binding]; other site 1036672000977 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1036672000978 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1036672000979 DNA-binding site [nucleotide binding]; DNA binding site 1036672000980 UTRA domain; Region: UTRA; pfam07702 1036672000981 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1036672000982 LysE type translocator; Region: LysE; cl00565 1036672000983 potential frameshift: common BLAST hit: gi|33603915|ref|NP_891475.1| cystathionine beta-lyase 1036672000984 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 1036672000985 dimer interface [polypeptide binding]; other site 1036672000986 pyridoxal binding site [chemical binding]; other site 1036672000987 ATP binding site [chemical binding]; other site 1036672000988 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 1036672000989 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1036672000990 catalytic residue [active] 1036672000991 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 1036672000992 catalytic residues [active] 1036672000993 hinge region; other site 1036672000994 alpha helical domain; other site 1036672000995 Sporulation related domain; Region: SPOR; pfam05036 1036672000996 potential frameshift: common BLAST hit: gi|348589374|ref|YP_004873836.1| arginyl-tRNA synthetase 1036672000997 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1036672000998 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 1036672000999 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 1036672001000 2-isopropylmalate synthase; Validated; Region: PRK03739 1036672001001 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 1036672001002 active site 1036672001003 catalytic residues [active] 1036672001004 metal binding site [ion binding]; metal-binding site 1036672001005 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 1036672001006 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 1036672001007 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1036672001008 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1036672001009 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1036672001010 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 1036672001011 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 1036672001012 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 1036672001013 heme binding site [chemical binding]; other site 1036672001014 ferroxidase pore; other site 1036672001015 ferroxidase diiron center [ion binding]; other site 1036672001016 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1036672001017 putative substrate translocation pore; other site 1036672001018 Predicted transcriptional regulator [Transcription]; Region: COG2345 1036672001019 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 1036672001020 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1036672001021 G1 box; other site 1036672001022 putative GEF interaction site [polypeptide binding]; other site 1036672001023 GTP/Mg2+ binding site [chemical binding]; other site 1036672001024 Switch I region; other site 1036672001025 G2 box; other site 1036672001026 G3 box; other site 1036672001027 Switch II region; other site 1036672001028 G4 box; other site 1036672001029 G5 box; other site 1036672001030 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 1036672001031 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09560 1036672001032 RES domain; Region: RES; smart00953 1036672001033 Helix-turn-helix; Region: HTH_3; pfam01381 1036672001034 non-specific DNA binding site [nucleotide binding]; other site 1036672001035 salt bridge; other site 1036672001036 sequence-specific DNA binding site [nucleotide binding]; other site 1036672001037 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 1036672001038 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 1036672001039 Repair protein; Region: Repair_PSII; pfam04536 1036672001040 Repair protein; Region: Repair_PSII; pfam04536 1036672001041 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1036672001042 G1 box; other site 1036672001043 GTP/Mg2+ binding site [chemical binding]; other site 1036672001044 G2 box; other site 1036672001045 Switch I region; other site 1036672001046 G3 box; other site 1036672001047 Switch II region; other site 1036672001048 G4 box; other site 1036672001049 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 1036672001050 G5 box; other site 1036672001051 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 1036672001052 Uncharacterized conserved protein [Function unknown]; Region: COG3339 1036672001053 Transglycosylase associated protein; Region: Transgly_assoc; pfam04226 1036672001054 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 1036672001055 EamA-like transporter family; Region: EamA; pfam00892 1036672001056 EamA-like transporter family; Region: EamA; pfam00892 1036672001057 Subgroup of sulfite oxidase (SO) family molybdopterin binding domains that contains conserved dimerization domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate...; Region: SO_family_Moco_dimer; cd02110 1036672001058 Moco binding site; other site 1036672001059 metal coordination site [ion binding]; other site 1036672001060 dimerization interface [polypeptide binding]; other site 1036672001061 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1036672001062 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1036672001063 potential frameshift: common BLAST hit: gi|348590334|ref|YP_004874796.1| ferric iron ABC transporter permease 1036672001064 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1036672001065 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1036672001066 Walker A/P-loop; other site 1036672001067 ATP binding site [chemical binding]; other site 1036672001068 Q-loop/lid; other site 1036672001069 ABC transporter signature motif; other site 1036672001070 Walker B; other site 1036672001071 D-loop; other site 1036672001072 H-loop/switch region; other site 1036672001073 TOBE domain; Region: TOBE_2; pfam08402 1036672001074 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 1036672001075 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1036672001076 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1036672001077 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1036672001078 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 1036672001079 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1036672001080 catalytic triad [active] 1036672001081 dimer interface [polypeptide binding]; other site 1036672001082 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1036672001083 Membrane protein of unknown function (DUF340); Region: DUF340; cl01028 1036672001084 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1036672001085 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 1036672001086 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 1036672001087 substrate binding pocket [chemical binding]; other site 1036672001088 membrane-bound complex binding site; other site 1036672001089 hinge residues; other site 1036672001090 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1036672001091 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672001092 dimer interface [polypeptide binding]; other site 1036672001093 conserved gate region; other site 1036672001094 putative PBP binding loops; other site 1036672001095 ABC-ATPase subunit interface; other site 1036672001096 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1036672001097 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1036672001098 potential frameshift: common BLAST hit: gi|319778837|ref|YP_004129750.1| Histidine ABC transporter, ATP-binding protein HisP 1036672001099 potential frameshift: common BLAST hit: gi|33600936|ref|NP_888496.1| integral membrane protein 1036672001100 Protein of unknown function (DUF3025); Region: DUF3025; pfam11227 1036672001101 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 1036672001102 CreA protein; Region: CreA; pfam05981 1036672001103 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 1036672001104 RNA binding surface [nucleotide binding]; other site 1036672001105 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 1036672001106 gamma-glutamyltranspeptidase; Region: g_glut_trans; TIGR00066 1036672001107 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 1036672001108 FMN binding site [chemical binding]; other site 1036672001109 substrate binding site [chemical binding]; other site 1036672001110 putative catalytic residue [active] 1036672001111 potential frameshift: common BLAST hit: gi|222083027|ref|YP_002542392.1| permease 1036672001112 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1036672001113 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1036672001114 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 1036672001115 putative FMN binding site [chemical binding]; other site 1036672001116 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1036672001117 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 1036672001118 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1036672001119 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672001120 dimer interface [polypeptide binding]; other site 1036672001121 conserved gate region; other site 1036672001122 putative PBP binding loops; other site 1036672001123 ABC-ATPase subunit interface; other site 1036672001124 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1036672001125 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1036672001126 Walker A/P-loop; other site 1036672001127 ATP binding site [chemical binding]; other site 1036672001128 Q-loop/lid; other site 1036672001129 ABC transporter signature motif; other site 1036672001130 Walker B; other site 1036672001131 D-loop; other site 1036672001132 H-loop/switch region; other site 1036672001133 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1036672001134 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 1036672001135 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1036672001136 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 1036672001137 Pirin-related protein [General function prediction only]; Region: COG1741 1036672001138 Pirin; Region: Pirin; pfam02678 1036672001139 potential frameshift: common BLAST hit: gi|332284339|ref|YP_004416250.1| LysR family transcriptional regulator 1036672001140 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 1036672001141 potential frameshift: common BLAST hit: gi|120611260|ref|YP_970938.1| TRAP dicarboxylate transporter subunit DctP 1036672001142 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1036672001143 DctM-like transporters; Region: DctM; pfam06808 1036672001144 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1036672001145 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 1036672001146 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1036672001147 D-galactonate transporter; Region: 2A0114; TIGR00893 1036672001148 putative substrate translocation pore; other site 1036672001149 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1036672001150 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1036672001151 Subfamily of fatty acid CoA ligase (FACL) similar to Fum10p of Gibberella moniliformis; Region: FACL_fum10p_like; cd05926 1036672001152 acyl-activating enzyme (AAE) consensus motif; other site 1036672001153 putative AMP binding site [chemical binding]; other site 1036672001154 putative active site [active] 1036672001155 putative CoA binding site [chemical binding]; other site 1036672001156 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1036672001157 catalytic residues [active] 1036672001158 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1036672001159 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1036672001160 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1036672001161 Bacterial transcriptional regulator; Region: IclR; pfam01614 1036672001162 LysR family transcriptional regulator; Provisional; Region: PRK14997 1036672001163 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672001164 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 1036672001165 putative effector binding pocket; other site 1036672001166 dimerization interface [polypeptide binding]; other site 1036672001167 NmrA-like family; Region: NmrA; pfam05368 1036672001168 NmrA (a transcriptional regulator) and HSCARG (an NADPH sensor) like proteins, atypical (a) SDRs; Region: NmrA_like_SDR_a; cd05251 1036672001169 NADP binding site [chemical binding]; other site 1036672001170 active site 1036672001171 regulatory binding site [polypeptide binding]; other site 1036672001172 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1036672001173 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672001174 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 1036672001175 putative dimerization interface [polypeptide binding]; other site 1036672001176 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672001177 (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 1036672001178 active site 1036672001179 catalytic site [active] 1036672001180 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1036672001181 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1036672001182 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1036672001183 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672001184 The 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 1036672001185 dimerization interface [polypeptide binding]; other site 1036672001186 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672001187 potential frameshift: common BLAST hit: gi|339327824|ref|YP_004687516.1| fumarate reductase iron-sulfur subunit 1036672001188 Succinate:quinone oxidoreductase (SQR) and Quinol:fumarate reductase (QFR) family, transmembrane subunits; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol, while QFR catalyzes the reverse reaction. SQR; Region: SQR_QFR_TM; cl00881 1036672001189 Iron-sulfur protein interface; other site 1036672001190 proximal heme binding site [chemical binding]; other site 1036672001191 potential frameshift: common BLAST hit: gi|311104351|ref|YP_003977204.1| fumarate reductase/succinate dehydrogenase flavoprotein C-terminal 1036672001192 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 1036672001193 Fumarase C-terminus; Region: Fumerase_C; cl00795 1036672001194 Amidohydrolase; Region: Amidohydro_2; pfam04909 1036672001195 RES domain; Region: RES; pfam08808 1036672001196 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 1036672001197 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 1036672001198 1,4-dihydroxy-2-naphthoate octaprenyltransferase [Coenzyme metabolism]; Region: MenA; cl17224 1036672001199 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 1036672001200 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 1036672001201 Trp docking motif [polypeptide binding]; other site 1036672001202 putative active site [active] 1036672001203 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1036672001204 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 1036672001205 putative heme binding pocket [chemical binding]; other site 1036672001206 potential frameshift: common BLAST hit: gi|330808596|ref|YP_004353058.1| RNA polymerase sigma factor 1036672001207 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 1036672001208 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 1036672001209 potential frameshift: common BLAST hit: gi|28869063|ref|NP_791682.1| aliphatic isothiocyanate resistance protein SaxA 1036672001210 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 1036672001211 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 1036672001212 conserved cys residue [active] 1036672001213 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1036672001214 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1036672001215 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 1036672001216 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 1036672001217 putative catalytic residue [active] 1036672001218 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 1036672001219 classical (c) SDR, subgroup 10; Region: SDR_c10; cd05373 1036672001220 putative NAD(P) binding site [chemical binding]; other site 1036672001221 active site 1036672001222 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1036672001223 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 1036672001224 FMN binding site [chemical binding]; other site 1036672001225 substrate binding site [chemical binding]; other site 1036672001226 putative catalytic residue [active] 1036672001227 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1036672001228 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1036672001229 acyl-activating enzyme (AAE) consensus motif; other site 1036672001230 AMP binding site [chemical binding]; other site 1036672001231 active site 1036672001232 CoA binding site [chemical binding]; other site 1036672001233 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1036672001234 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 1036672001235 Bacterial transcriptional regulator; Region: IclR; pfam01614 1036672001236 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 1036672001237 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672001238 potential frameshift: common BLAST hit: gi|357413268|ref|YP_004925004.1| luciferase oxidoreductase, group 1 1036672001239 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 1036672001240 Isochorismatase family; Region: Isochorismatase; pfam00857 1036672001241 catalytic triad [active] 1036672001242 conserved cis-peptide bond; other site 1036672001243 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1036672001244 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 1036672001245 conserved cys residue [active] 1036672001246 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1036672001247 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1036672001248 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672001249 The 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 1036672001250 dimerization interface [polypeptide binding]; other site 1036672001251 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1036672001252 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1036672001253 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672001254 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 1036672001255 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 1036672001256 NADP binding site [chemical binding]; other site 1036672001257 dimer interface [polypeptide binding]; other site 1036672001258 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1036672001259 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 1036672001260 glutaminase active site [active] 1036672001261 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 1036672001262 dimer interface [polypeptide binding]; other site 1036672001263 active site 1036672001264 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 1036672001265 dimer interface [polypeptide binding]; other site 1036672001266 active site 1036672001267 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1036672001268 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 1036672001269 putative DNA binding site [nucleotide binding]; other site 1036672001270 putative Zn2+ binding site [ion binding]; other site 1036672001271 AsnC family; Region: AsnC_trans_reg; pfam01037 1036672001272 potential frameshift: common BLAST hit: gi|311103454|ref|YP_003976307.1| glycosyl transferase group 1 1036672001273 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1036672001274 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 1036672001275 putative metal binding site; other site 1036672001276 potential frameshift: common BLAST hit: gi|311103452|ref|YP_003976305.1| major facilitator protein 1036672001277 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 1036672001278 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1036672001279 Substrate binding site; other site 1036672001280 Mg++ binding site; other site 1036672001281 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 1036672001282 active site 1036672001283 substrate binding site [chemical binding]; other site 1036672001284 CoA binding site [chemical binding]; other site 1036672001285 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 1036672001286 nudix motif; other site 1036672001287 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00168 1036672001288 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 1036672001289 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1036672001290 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 1036672001291 Subunit I/III interface [polypeptide binding]; other site 1036672001292 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1036672001293 D-pathway; other site 1036672001294 Subunit I/VIIc interface [polypeptide binding]; other site 1036672001295 Subunit I/IV interface [polypeptide binding]; other site 1036672001296 Subunit I/II interface [polypeptide binding]; other site 1036672001297 Low-spin heme (heme a) binding site [chemical binding]; other site 1036672001298 Subunit I/VIIa interface [polypeptide binding]; other site 1036672001299 Subunit I/VIa interface [polypeptide binding]; other site 1036672001300 Dimer interface; other site 1036672001301 Putative water exit pathway; other site 1036672001302 Binuclear center (heme a3/CuB) [ion binding]; other site 1036672001303 K-pathway; other site 1036672001304 Subunit I/Vb interface [polypeptide binding]; other site 1036672001305 Putative proton exit pathway; other site 1036672001306 Subunit I/VIb interface; other site 1036672001307 Subunit I/VIc interface [polypeptide binding]; other site 1036672001308 Subunit I/VIIIb interface [polypeptide binding]; other site 1036672001309 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 1036672001310 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 1036672001311 Subunit III/VIIa interface [polypeptide binding]; other site 1036672001312 Phospholipid binding site [chemical binding]; other site 1036672001313 Subunit I/III interface [polypeptide binding]; other site 1036672001314 Subunit III/VIb interface [polypeptide binding]; other site 1036672001315 Subunit III/VIa interface; other site 1036672001316 Subunit III/Vb interface [polypeptide binding]; other site 1036672001317 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 1036672001318 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 1036672001319 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1036672001320 potential frameshift: common BLAST hit: gi|332286010|ref|YP_004417921.1| cytochrome oxidase assembly protein 1036672001321 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 1036672001322 UbiA prenyltransferase family; Region: UbiA; pfam01040 1036672001323 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 1036672001324 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1036672001325 Cu(I) binding site [ion binding]; other site 1036672001326 potential frameshift: common BLAST hit: gi|311103435|ref|YP_003976288.1| sodium/hydrogen exchanger family protein 1036672001327 alternative sigma factor RpoH; Region: rpoH_proteo; TIGR02392 1036672001328 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1036672001329 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 1036672001330 DNA binding residues [nucleotide binding] 1036672001331 S-formylglutathione hydrolase; Region: PLN02442 1036672001332 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 1036672001333 potential frameshift: common BLAST hit: gi|311104054|ref|YP_003976907.1| sulfatase family protein 2 1036672001334 glycerol kinase; Provisional; Region: glpK; PRK00047 1036672001335 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 1036672001336 N- and C-terminal domain interface [polypeptide binding]; other site 1036672001337 active site 1036672001338 MgATP binding site [chemical binding]; other site 1036672001339 catalytic site [active] 1036672001340 metal binding site [ion binding]; metal-binding site 1036672001341 glycerol binding site [chemical binding]; other site 1036672001342 homotetramer interface [polypeptide binding]; other site 1036672001343 homodimer interface [polypeptide binding]; other site 1036672001344 FBP binding site [chemical binding]; other site 1036672001345 protein IIAGlc interface [polypeptide binding]; other site 1036672001346 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 1036672001347 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 1036672001348 ATP binding site [chemical binding]; other site 1036672001349 Mg++ binding site [ion binding]; other site 1036672001350 motif III; other site 1036672001351 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 1036672001352 nucleotide binding region [chemical binding]; other site 1036672001353 ATP-binding site [chemical binding]; other site 1036672001354 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 1036672001355 putative RNA binding site [nucleotide binding]; other site 1036672001356 potential frameshift: common BLAST hit: gi|311103429|ref|YP_003976282.1| ferredoxin-dependent glutamate synthase 1036672001357 potential frameshift: common BLAST hit: gi|311103429|ref|YP_003976282.1| ferredoxin-dependent glutamate synthase 1036672001358 potential frameshift: common BLAST hit: gi|187479761|ref|YP_787786.1| glutamate synthase [NADPH] large chain 1036672001359 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 1036672001360 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1036672001361 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1036672001362 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1036672001363 Walker A/P-loop; other site 1036672001364 ATP binding site [chemical binding]; other site 1036672001365 Q-loop/lid; other site 1036672001366 ABC transporter signature motif; other site 1036672001367 Walker B; other site 1036672001368 D-loop; other site 1036672001369 H-loop/switch region; other site 1036672001370 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1036672001371 Permease; Region: Permease; pfam02405 1036672001372 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1036672001373 mce related protein; Region: MCE; pfam02470 1036672001374 VacJ like lipoprotein; Region: VacJ; cl01073 1036672001375 VacJ like lipoprotein; Region: VacJ; cl01073 1036672001376 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 1036672001377 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1036672001378 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 1036672001379 Walker A/P-loop; other site 1036672001380 ATP binding site [chemical binding]; other site 1036672001381 Q-loop/lid; other site 1036672001382 ABC transporter signature motif; other site 1036672001383 Walker B; other site 1036672001384 D-loop; other site 1036672001385 H-loop/switch region; other site 1036672001386 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1036672001387 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1036672001388 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 1036672001389 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1036672001390 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 1036672001391 hinge; other site 1036672001392 active site 1036672001393 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 1036672001394 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 1036672001395 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 1036672001396 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 1036672001397 dimerization interface [polypeptide binding]; other site 1036672001398 NAD binding site [chemical binding]; other site 1036672001399 product binding site; other site 1036672001400 substrate binding site [chemical binding]; other site 1036672001401 zinc binding site [ion binding]; other site 1036672001402 catalytic residues [active] 1036672001403 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1036672001404 putative active site pocket [active] 1036672001405 4-fold oligomerization interface [polypeptide binding]; other site 1036672001406 metal binding residues [ion binding]; metal-binding site 1036672001407 3-fold/trimer interface [polypeptide binding]; other site 1036672001408 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 1036672001409 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1036672001410 putative active site [active] 1036672001411 oxyanion strand; other site 1036672001412 catalytic triad [active] 1036672001413 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 1036672001414 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1036672001415 catalytic residues [active] 1036672001416 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 1036672001417 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1036672001418 substrate binding site [chemical binding]; other site 1036672001419 glutamase interaction surface [polypeptide binding]; other site 1036672001420 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 1036672001421 phosphate binding site [ion binding]; other site 1036672001422 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 1036672001423 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 1036672001424 metal binding site [ion binding]; metal-binding site 1036672001425 twin arginine translocase protein A; Provisional; Region: tatA; PRK00442 1036672001426 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 1036672001427 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 1036672001428 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 1036672001429 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1036672001430 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 1036672001431 protein binding site [polypeptide binding]; other site 1036672001432 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1036672001433 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 1036672001434 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 1036672001435 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1036672001436 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 1036672001437 [2Fe-2S] cluster binding site [ion binding]; other site 1036672001438 potential frameshift: common BLAST hit: gi|319778651|ref|YP_004129564.1| Ubiquinol-cytochrome c reductase, cytochrome B subunit 1036672001439 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 1036672001440 stringent starvation protein A; Provisional; Region: sspA; PRK09481 1036672001441 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 1036672001442 C-terminal domain interface [polypeptide binding]; other site 1036672001443 putative GSH binding site (G-site) [chemical binding]; other site 1036672001444 dimer interface [polypeptide binding]; other site 1036672001445 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 1036672001446 dimer interface [polypeptide binding]; other site 1036672001447 N-terminal domain interface [polypeptide binding]; other site 1036672001448 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 1036672001449 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 1036672001450 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 1036672001451 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1036672001452 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 1036672001453 Walker A motif; other site 1036672001454 ATP binding site [chemical binding]; other site 1036672001455 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 1036672001456 Walker B motif; other site 1036672001457 arginine finger; other site 1036672001458 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1036672001459 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 1036672001460 active site 1036672001461 HslU subunit interaction site [polypeptide binding]; other site 1036672001462 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 1036672001463 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1036672001464 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 1036672001465 P-loop, Walker A motif; other site 1036672001466 Base recognition motif; other site 1036672001467 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1036672001468 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1036672001469 metal binding site 2 [ion binding]; metal-binding site 1036672001470 putative DNA binding helix; other site 1036672001471 metal binding site 1 [ion binding]; metal-binding site 1036672001472 dimer interface [polypeptide binding]; other site 1036672001473 structural Zn2+ binding site [ion binding]; other site 1036672001474 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1036672001475 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1036672001476 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1036672001477 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 1036672001478 ABC-ATPase subunit interface; other site 1036672001479 dimer interface [polypeptide binding]; other site 1036672001480 putative PBP binding regions; other site 1036672001481 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1036672001482 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 1036672001483 active site 1036672001484 DNA binding site [nucleotide binding] 1036672001485 Int/Topo IB signature motif; other site 1036672001486 Protein of unknown function, DUF484; Region: DUF484; cl17449 1036672001487 GAF domain; Region: GAF_2; pfam13185 1036672001488 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1036672001489 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1036672001490 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1036672001491 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1036672001492 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1036672001493 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1036672001494 putative acyl-acceptor binding pocket; other site 1036672001495 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1036672001496 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1036672001497 MarR family; Region: MarR; pfam01047 1036672001498 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1036672001499 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1036672001500 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1036672001501 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1036672001502 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 1036672001503 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 1036672001504 homotetramer interface [polypeptide binding]; other site 1036672001505 ligand binding site [chemical binding]; other site 1036672001506 catalytic site [active] 1036672001507 NAD binding site [chemical binding]; other site 1036672001508 Membrane protein of unknown function; Region: DUF360; cl00850 1036672001509 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 1036672001510 FAD binding site [chemical binding]; other site 1036672001511 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 1036672001512 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1036672001513 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 1036672001514 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1036672001515 catalytic residue [active] 1036672001516 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1036672001517 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 1036672001518 active site 1036672001519 NTP binding site [chemical binding]; other site 1036672001520 metal binding triad [ion binding]; metal-binding site 1036672001521 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1036672001522 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 1036672001523 Flavoprotein; Region: Flavoprotein; pfam02441 1036672001524 Protein of unknown function (DUF2390); Region: DUF2390; pfam09523 1036672001525 Predicted membrane protein [Function unknown]; Region: COG3671 1036672001526 potential frameshift: common BLAST hit: gi|92109299|ref|YP_571587.1| cation diffusion facilitator family transporter 1036672001527 Uncharacterized conserved protein [Function unknown]; Region: COG1565 1036672001528 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 1036672001529 S-adenosylmethionine binding site [chemical binding]; other site 1036672001530 helicase 45; Provisional; Region: PTZ00424 1036672001531 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 1036672001532 ATP binding site [chemical binding]; other site 1036672001533 Mg++ binding site [ion binding]; other site 1036672001534 motif III; other site 1036672001535 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 1036672001536 nucleotide binding region [chemical binding]; other site 1036672001537 ATP-binding site [chemical binding]; other site 1036672001538 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 1036672001539 nucleotide binding site/active site [active] 1036672001540 HIT family signature motif; other site 1036672001541 catalytic residue [active] 1036672001542 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 1036672001543 active site 1036672001544 ribulose/triose binding site [chemical binding]; other site 1036672001545 phosphate binding site [ion binding]; other site 1036672001546 substrate (anthranilate) binding pocket [chemical binding]; other site 1036672001547 product (indole) binding pocket [chemical binding]; other site 1036672001548 potential frameshift: common BLAST hit: gi|311103559|ref|YP_003976412.1| anthranilate phosphoribosyltransferase 1036672001549 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 1036672001550 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1036672001551 glutamine binding [chemical binding]; other site 1036672001552 catalytic triad [active] 1036672001553 anthranilate synthase component I; Provisional; Region: PRK13565 1036672001554 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1036672001555 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1036672001556 2-phosphoglycolate phosphatase, prokaryotic; Region: PGP_bact; TIGR01449 1036672001557 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 1036672001558 motif II; other site 1036672001559 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 1036672001560 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 1036672001561 hexamer interface [polypeptide binding]; other site 1036672001562 metal binding site [ion binding]; metal-binding site 1036672001563 substrate binding site [chemical binding]; other site 1036672001564 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 1036672001565 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 1036672001566 potential frameshift: common BLAST hit: gi|348589579|ref|YP_004874041.1| membrane-bound lytic murein transglycosylase A 1036672001567 potential frameshift: common BLAST hit: gi|311103566|ref|YP_003976419.1| ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family 1036672001568 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 1036672001569 dimerization domain [polypeptide binding]; other site 1036672001570 dimer interface [polypeptide binding]; other site 1036672001571 catalytic residues [active] 1036672001572 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 1036672001573 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 1036672001574 motif II; other site 1036672001575 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 1036672001576 feedback inhibition sensing region; other site 1036672001577 homohexameric interface [polypeptide binding]; other site 1036672001578 nucleotide binding site [chemical binding]; other site 1036672001579 N-acetyl-L-glutamate binding site [chemical binding]; other site 1036672001580 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 1036672001581 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1036672001582 catalytic residues [active] 1036672001583 outer membrane lipoprotein; Provisional; Region: PRK11023 1036672001584 BON domain; Region: BON; pfam04972 1036672001585 BON domain; Region: BON; cl02771 1036672001586 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 1036672001587 dimer interface [polypeptide binding]; other site 1036672001588 active site 1036672001589 Uncharacterized protein family UPF0102; Region: UPF0102; cl00516 1036672001590 Predicted methyltransferases [General function prediction only]; Region: COG0313 1036672001591 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1036672001592 putative SAM binding site [chemical binding]; other site 1036672001593 putative homodimer interface [polypeptide binding]; other site 1036672001594 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1036672001595 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1036672001596 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 1036672001597 AAA domain; Region: AAA_18; pfam13238 1036672001598 HPr kinase/phosphorylase; Provisional; Region: PRK05428 1036672001599 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 1036672001600 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 1036672001601 Hpr binding site; other site 1036672001602 active site 1036672001603 homohexamer subunit interaction site [polypeptide binding]; other site 1036672001604 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 1036672001605 active site 1036672001606 phosphorylation site [posttranslational modification] 1036672001607 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 1036672001608 30S subunit binding site; other site 1036672001609 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 1036672001610 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 1036672001611 Walker A/P-loop; other site 1036672001612 ATP binding site [chemical binding]; other site 1036672001613 Q-loop/lid; other site 1036672001614 ABC transporter signature motif; other site 1036672001615 Walker B; other site 1036672001616 D-loop; other site 1036672001617 H-loop/switch region; other site 1036672001618 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 1036672001619 OstA-like protein; Region: OstA; pfam03968 1036672001620 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 1036672001621 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 1036672001622 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 1036672001623 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 1036672001624 active site 1036672001625 motif I; other site 1036672001626 motif II; other site 1036672001627 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 1036672001628 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 1036672001629 putative active site [active] 1036672001630 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 1036672001631 potential frameshift: common BLAST hit: gi|33603474|ref|NP_891034.1| phosphoribosylglycinamide formyltransferase 2 1036672001632 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1036672001633 active site 1036672001634 threonine dehydratase; Reviewed; Region: PRK09224 1036672001635 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 1036672001636 tetramer interface [polypeptide binding]; other site 1036672001637 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1036672001638 catalytic residue [active] 1036672001639 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 1036672001640 putative Ile/Val binding site [chemical binding]; other site 1036672001641 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 1036672001642 putative Ile/Val binding site [chemical binding]; other site 1036672001643 Predicted membrane protein [Function unknown]; Region: COG1238 1036672001644 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 1036672001645 putative active site [active] 1036672001646 Allophanate hydrolase subunit 2; Region: AHS2; pfam02626 1036672001647 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 1036672001648 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 1036672001649 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672001650 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672001651 potential frameshift: common BLAST hit: gi|311107613|ref|YP_003980466.1| AMP-binding protein 1036672001652 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1036672001653 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672001654 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 1036672001655 putative effector binding pocket; other site 1036672001656 dimerization interface [polypeptide binding]; other site 1036672001657 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1036672001658 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 1036672001659 dimer interface [polypeptide binding]; other site 1036672001660 phosphorylation site [posttranslational modification] 1036672001661 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1036672001662 ATP binding site [chemical binding]; other site 1036672001663 Mg2+ binding site [ion binding]; other site 1036672001664 G-X-G motif; other site 1036672001665 potential frameshift: common BLAST hit: gi|319779028|ref|YP_004129941.1| Phosphate regulon transcriptional regulatory protein PhoB (SphR) 1036672001666 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1036672001667 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 1036672001668 S-adenosylmethionine binding site [chemical binding]; other site 1036672001669 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4627 1036672001670 Tim44-like domain; Region: Tim44; pfam04280 1036672001671 potential frameshift: common BLAST hit: gi|163856871|ref|YP_001631169.1| ABC transporter ATP-binding protein 1036672001672 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 1036672001673 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1036672001674 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1036672001675 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672001676 dimer interface [polypeptide binding]; other site 1036672001677 conserved gate region; other site 1036672001678 putative PBP binding loops; other site 1036672001679 ABC-ATPase subunit interface; other site 1036672001680 potential frameshift: common BLAST hit: gi|163856868|ref|YP_001631166.1| ABC transporter substrate-binding protein 1036672001681 SCP-2 sterol transfer family; Region: SCP2; pfam02036 1036672001682 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 1036672001683 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 1036672001684 potential frameshift: common BLAST hit: gi|332286640|ref|YP_004418551.1| cytidylyltransferase 1036672001685 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 1036672001686 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 1036672001687 S-adenosylmethionine binding site [chemical binding]; other site 1036672001688 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 1036672001689 substrate binding site [chemical binding]; other site 1036672001690 dimer interface [polypeptide binding]; other site 1036672001691 ATP binding site [chemical binding]; other site 1036672001692 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 1036672001693 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1036672001694 MarR family; Region: MarR_2; pfam12802 1036672001695 MarR family; Region: MarR_2; cl17246 1036672001696 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1036672001697 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 1036672001698 Zn binding site [ion binding]; other site 1036672001699 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1036672001700 NlpC/P60 family; Region: NLPC_P60; pfam00877 1036672001701 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 1036672001702 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1036672001703 active site 1036672001704 FMN binding site [chemical binding]; other site 1036672001705 substrate binding site [chemical binding]; other site 1036672001706 catalytic residue [active] 1036672001707 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 1036672001708 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1036672001709 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1036672001710 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 1036672001711 putative active site [active] 1036672001712 L-Asparaginase type 2. L-Asparaginase hydrolyzes L-asparagine to L-aspartate and ammonia. The proenzyme undergoes an autoproteolytic cleavage into alpha and beta subunits to expose a threonine residue which becomes the N-terminal residue of the beta...; Region: Asparaginase_2; cd04701 1036672001713 catalytic nucleophile [active] 1036672001714 potential frameshift: common BLAST hit: gi|348590652|ref|YP_004875114.1| dipeptide transport ATP-binding protein DppD 1036672001715 glutathione ABC transporter substrate-binding protein GsiB; Provisional; Region: PRK15413 1036672001716 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 1036672001717 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 1036672001718 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672001719 dimer interface [polypeptide binding]; other site 1036672001720 conserved gate region; other site 1036672001721 putative PBP binding loops; other site 1036672001722 ABC-ATPase subunit interface; other site 1036672001723 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 1036672001724 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672001725 dimer interface [polypeptide binding]; other site 1036672001726 conserved gate region; other site 1036672001727 putative PBP binding loops; other site 1036672001728 ABC-ATPase subunit interface; other site 1036672001729 DmpA/OAT superfamily; composed of L-aminopeptidase D-amidase/D-esterase (DmpA), ornithine acetyltransferase (OAT) and similar proteins. DmpA is an aminopeptidase that releases N-terminal D and L amino acids from peptide substrates. This group represents...; Region: DmpA_OAT; cl00603 1036672001730 Peptidase family S58; Region: Peptidase_S58; pfam03576 1036672001731 active site pocket [active] 1036672001732 Ferredoxin-dependent bilin reductase; Region: Fe_bilin_red; cl07930 1036672001733 DmpA/OAT superfamily; composed of L-aminopeptidase D-amidase/D-esterase (DmpA), ornithine acetyltransferase (OAT) and similar proteins. DmpA is an aminopeptidase that releases N-terminal D and L amino acids from peptide substrates. This group represents...; Region: DmpA_OAT; cl00603 1036672001734 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_1; cd08663 1036672001735 SxDxEG motif; other site 1036672001736 active site 1036672001737 metal binding site [ion binding]; metal-binding site 1036672001738 homopentamer interface [polypeptide binding]; other site 1036672001739 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 1036672001740 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 1036672001741 aspartate racemase; Region: asp_race; TIGR00035 1036672001742 glutathione reductase; Validated; Region: PRK06116 1036672001743 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1036672001744 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1036672001745 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1036672001746 potential frameshift: common BLAST hit: gi|163855032|ref|YP_001629330.1| LysR family transcriptional regulator 1036672001747 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1036672001748 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1036672001749 NAD(P) binding site [chemical binding]; other site 1036672001750 active site 1036672001751 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 1036672001752 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672001753 potential frameshift: common BLAST hit: gi|148263591|ref|YP_001230297.1| adenylate cyclase 1036672001754 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1036672001755 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1036672001756 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1036672001757 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 1036672001758 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 1036672001759 tetramer interface [polypeptide binding]; other site 1036672001760 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1036672001761 catalytic residue [active] 1036672001762 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1036672001763 putative substrate translocation pore; other site 1036672001764 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1036672001765 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 1036672001766 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 1036672001767 Walker A/P-loop; other site 1036672001768 ATP binding site [chemical binding]; other site 1036672001769 Q-loop/lid; other site 1036672001770 ABC transporter signature motif; other site 1036672001771 Walker B; other site 1036672001772 D-loop; other site 1036672001773 H-loop/switch region; other site 1036672001774 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 1036672001775 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672001776 conserved gate region; other site 1036672001777 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 1036672001778 transcriptional regulator protein; Region: phnR; TIGR03337 1036672001779 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1036672001780 DNA-binding site [nucleotide binding]; DNA binding site 1036672001781 UTRA domain; Region: UTRA; pfam07702 1036672001782 Phosphonate metabolism protein PhnG; Region: PhnG; pfam06754 1036672001783 Bacterial phosphonate metabolism protein (PhnH); Region: PhnH; pfam05845 1036672001784 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; pfam05861 1036672001785 Phosphonate metabolism protein PhnJ; Region: PhnJ; pfam06007 1036672001786 potential frameshift: common BLAST hit: gi|330502689|ref|YP_004379558.1| phosphonate C-P lyase system protein PhnK 1036672001787 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1036672001788 Walker A/P-loop; other site 1036672001789 ATP binding site [chemical binding]; other site 1036672001790 ABC transporter; Region: ABC_tran; pfam00005 1036672001791 Q-loop/lid; other site 1036672001792 ABC transporter signature motif; other site 1036672001793 Walker B; other site 1036672001794 D-loop; other site 1036672001795 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 1036672001796 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 1036672001797 PhnM is believed to be a subunit of the membrane associated C-P lyase complex. C-P lyase is thought to catalyze the direct cleavage of inactivated C-P bonds to yield inorganic phosphate and the corresponding hydrocarbons. It is responsible for cleavage...; Region: PhnM; cd01306 1036672001798 active site 1036672001799 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 1036672001800 active site 1036672001801 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1036672001802 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1036672001803 Fe2+ transport protein; Region: Iron_transport; pfam10634 1036672001804 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 1036672001805 potential frameshift: common BLAST hit: gi|187477724|ref|YP_785748.1| permease 1036672001806 potential frameshift: common BLAST hit: gi|187477725|ref|YP_785749.1| membrane protein 1036672001807 potential frameshift: common BLAST hit: gi|187477725|ref|YP_785749.1| membrane protein 1036672001808 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1036672001809 UL73 viral envelope glycoprotein; Region: Herpes_UL73; cl17381 1036672001810 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1036672001811 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1036672001812 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1036672001813 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 1036672001814 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1036672001815 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1036672001816 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1036672001817 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1036672001818 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1036672001819 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1036672001820 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1036672001821 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1036672001822 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1036672001823 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 1036672001824 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 1036672001825 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 1036672001826 carboxyltransferase (CT) interaction site; other site 1036672001827 biotinylation site [posttranslational modification]; other site 1036672001828 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 1036672001829 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1036672001830 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1036672001831 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 1036672001832 CoenzymeA binding site [chemical binding]; other site 1036672001833 subunit interaction site [polypeptide binding]; other site 1036672001834 PHB binding site; other site 1036672001835 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1036672001836 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672001837 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 1036672001838 putative dimerization interface [polypeptide binding]; other site 1036672001839 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 1036672001840 membrane-bound complex binding site; other site 1036672001841 hinge residues; other site 1036672001842 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 1036672001843 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1036672001844 substrate binding pocket [chemical binding]; other site 1036672001845 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 1036672001846 putative active site [active] 1036672001847 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1036672001848 NMT1-like family; Region: NMT1_2; pfam13379 1036672001849 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1036672001850 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1036672001851 Walker A/P-loop; other site 1036672001852 ATP binding site [chemical binding]; other site 1036672001853 Q-loop/lid; other site 1036672001854 ABC transporter signature motif; other site 1036672001855 Walker B; other site 1036672001856 D-loop; other site 1036672001857 H-loop/switch region; other site 1036672001858 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1036672001859 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672001860 dimer interface [polypeptide binding]; other site 1036672001861 conserved gate region; other site 1036672001862 putative PBP binding loops; other site 1036672001863 ABC-ATPase subunit interface; other site 1036672001864 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 1036672001865 tartrate dehydrogenase; Region: TTC; TIGR02089 1036672001866 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 1036672001867 active site 1036672001868 homodimer interface [polypeptide binding]; other site 1036672001869 homotetramer interface [polypeptide binding]; other site 1036672001870 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 1036672001871 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1036672001872 active site 1036672001873 catalytic tetrad [active] 1036672001874 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 1036672001875 GAF domain; Region: GAF; pfam01590 1036672001876 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 1036672001877 Walker A motif; other site 1036672001878 ATP binding site [chemical binding]; other site 1036672001879 Walker B motif; other site 1036672001880 arginine finger; other site 1036672001881 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1036672001882 potential frameshift: common BLAST hit: gi|121603852|ref|YP_981181.1| hydantoinase/oxoprolinase 1036672001883 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 1036672001884 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 1036672001885 Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcxC; COG4647 1036672001886 Acetone carboxylase gamma subunit; Region: Acetone_carb_G; pfam08882 1036672001887 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 1036672001888 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1036672001889 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1036672001890 EamA-like transporter family; Region: EamA; pfam00892 1036672001891 EamA-like transporter family; Region: EamA; pfam00892 1036672001892 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1036672001893 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672001894 The 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 1036672001895 dimerization interface [polypeptide binding]; other site 1036672001896 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1036672001897 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 1036672001898 Na binding site [ion binding]; other site 1036672001899 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 1036672001900 potential frameshift: common BLAST hit: gi|119386065|ref|YP_917120.1| methyltransferase type 11 1036672001901 potential frameshift: common BLAST hit: gi|348589434|ref|YP_004873896.1| ClpB protein 1036672001902 FHA domain; Region: FHA; pfam00498 1036672001903 phosphopeptide binding site; other site 1036672001904 type VI secretion lipoprotein, VC_A0113 family; Region: VI_chp_3; TIGR03352 1036672001905 hypothetical protein; Provisional; Region: PRK07033 1036672001906 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 1036672001907 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1036672001908 ligand binding site [chemical binding]; other site 1036672001909 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; pfam09867 1036672001910 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1036672001911 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1036672001912 potential frameshift: common BLAST hit: gi|384204998|ref|YP_005590737.1| trifunctional transcriptional regulator/proline 1036672001913 Predicted transcriptional regulator [Transcription]; Region: COG3905 1036672001914 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 1036672001915 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1036672001916 NAD(P) binding site [chemical binding]; other site 1036672001917 catalytic residues [active] 1036672001918 potential frameshift: common BLAST hit: gi|163859182|ref|YP_001633480.1| 4-hydroxybenzoate octaprenyltransferase 1036672001919 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 1036672001920 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 1036672001921 GAF domain; Region: GAF_2; pfam13185 1036672001922 Protein of unknown function (DUF1504); Region: DUF1504; pfam07399 1036672001923 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 1036672001924 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1036672001925 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 1036672001926 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 1036672001927 homodimer interface [polypeptide binding]; other site 1036672001928 motif 1; other site 1036672001929 active site 1036672001930 motif 2; other site 1036672001931 GAD domain; Region: GAD; pfam02938 1036672001932 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 1036672001933 active site 1036672001934 motif 3; other site 1036672001935 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 1036672001936 classical (c) SDRs; Region: SDR_c; cd05233 1036672001937 NAD(P) binding site [chemical binding]; other site 1036672001938 active site 1036672001939 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 1036672001940 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1036672001941 nucleophile elbow; other site 1036672001942 Patatin phospholipase; Region: DUF3734; pfam12536 1036672001943 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 1036672001944 sequence-specific DNA binding site [nucleotide binding]; other site 1036672001945 salt bridge; other site 1036672001946 Plasmid maintenance system killer protein; Region: Plasmid_killer; pfam05015 1036672001947 Predicted metalloprotease [General function prediction only]; Region: COG2321 1036672001948 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 1036672001949 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 1036672001950 Peptidase family M50; Region: Peptidase_M50; pfam02163 1036672001951 active site 1036672001952 putative substrate binding region [chemical binding]; other site 1036672001953 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1036672001954 putative catalytic site [active] 1036672001955 putative metal binding site [ion binding]; other site 1036672001956 putative phosphate binding site [ion binding]; other site 1036672001957 potential frameshift: common BLAST hit: gi|332286491|ref|YP_004418402.1| lipopolysaccharide heptosyltransferase-1 1036672001958 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 1036672001959 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1036672001960 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 1036672001961 potential frameshift: common BLAST hit: gi|348589405|ref|YP_004873867.1| biotin-protein ligase 1036672001962 Type III pantothenate kinase; Region: Pan_kinase; cl17198 1036672001963 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 1036672001964 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1036672001965 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1036672001966 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1036672001967 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 1036672001968 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1036672001969 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 1036672001970 homodimer interface [polypeptide binding]; other site 1036672001971 substrate-cofactor binding pocket; other site 1036672001972 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1036672001973 catalytic residue [active] 1036672001974 Protein of unknown function (DUF493); Region: DUF493; cl01102 1036672001975 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 1036672001976 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 1036672001977 lipoyl synthase; Provisional; Region: PRK05481 1036672001978 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 1036672001979 FeS/SAM binding site; other site 1036672001980 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 1036672001981 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1036672001982 NAD binding site [chemical binding]; other site 1036672001983 homodimer interface [polypeptide binding]; other site 1036672001984 active site 1036672001985 substrate binding site [chemical binding]; other site 1036672001986 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1036672001987 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 1036672001988 potential frameshift: common BLAST hit: gi|332286408|ref|YP_004418319.1| glucose-6-phosphate isomerase 1036672001989 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1036672001990 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1036672001991 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 1036672001992 active site 1036672001993 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1036672001994 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 1036672001995 Exopolysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: COG5039 1036672001996 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1036672001997 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 1036672001998 active site 1036672001999 glycosyltransferase, TIGR04182 family; Region: glyco_TIGR04182 1036672002000 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 1036672002001 Ligand binding site; other site 1036672002002 Putative Catalytic site; other site 1036672002003 DXD motif; other site 1036672002004 20S proteasome chaperone; Region: chaperone_DMP; pfam10448 1036672002005 Predicted membrane protein [Function unknown]; Region: COG2246 1036672002006 GtrA-like protein; Region: GtrA; pfam04138 1036672002007 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1036672002008 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1036672002009 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 1036672002010 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1036672002011 Walker A/P-loop; other site 1036672002012 ATP binding site [chemical binding]; other site 1036672002013 Q-loop/lid; other site 1036672002014 ABC transporter signature motif; other site 1036672002015 Walker B; other site 1036672002016 D-loop; other site 1036672002017 H-loop/switch region; other site 1036672002018 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 1036672002019 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1036672002020 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1036672002021 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 1036672002022 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1036672002023 GDSL-like Lipase/Acylhydrolase family; Region: Lipase_GDSL_2; pfam13472 1036672002024 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 1036672002025 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 1036672002026 active site 1036672002027 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 1036672002028 catalytic triad [active] 1036672002029 dimer interface [polypeptide binding]; other site 1036672002030 O-Antigen ligase; Region: Wzy_C; pfam04932 1036672002031 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 1036672002032 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 1036672002033 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1036672002034 catalytic residue [active] 1036672002035 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1036672002036 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 1036672002037 ligand binding site [chemical binding]; other site 1036672002038 flexible hinge region; other site 1036672002039 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 1036672002040 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 1036672002041 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1036672002042 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 1036672002043 acyl-activating enzyme (AAE) consensus motif; other site 1036672002044 putative AMP binding site [chemical binding]; other site 1036672002045 putative active site [active] 1036672002046 putative CoA binding site [chemical binding]; other site 1036672002047 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1036672002048 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1036672002049 Walker A/P-loop; other site 1036672002050 ATP binding site [chemical binding]; other site 1036672002051 Q-loop/lid; other site 1036672002052 ABC transporter signature motif; other site 1036672002053 Walker B; other site 1036672002054 D-loop; other site 1036672002055 H-loop/switch region; other site 1036672002056 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1036672002057 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 1036672002058 TM-ABC transporter signature motif; other site 1036672002059 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1036672002060 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 1036672002061 TM-ABC transporter signature motif; other site 1036672002062 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_1; cd06334 1036672002063 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1036672002064 putative ligand binding site [chemical binding]; other site 1036672002065 potential frameshift: common BLAST hit: gi|33599217|ref|NP_886777.1| ABC transporter ATP-binding protein 1036672002066 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1036672002067 acyl-activating enzyme (AAE) consensus motif; other site 1036672002068 active site 1036672002069 AMP binding site [chemical binding]; other site 1036672002070 CoA binding site [chemical binding]; other site 1036672002071 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 1036672002072 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 1036672002073 active site 1036672002074 catalytic residues [active] 1036672002075 metal binding site [ion binding]; metal-binding site 1036672002076 DNA protecting protein DprA; Region: dprA; TIGR00732 1036672002077 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 1036672002078 Predicted flavoprotein [General function prediction only]; Region: COG0431 1036672002079 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1036672002080 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 1036672002081 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 1036672002082 active site 1036672002083 catalytic residues [active] 1036672002084 metal binding site [ion binding]; metal-binding site 1036672002085 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1036672002086 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 1036672002087 potential frameshift: common BLAST hit: gi|33599237|ref|NP_886797.1| methionyl-tRNA formyltransferase 1036672002088 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1036672002089 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1036672002090 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 1036672002091 motif II; other site 1036672002092 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 1036672002093 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1036672002094 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 1036672002095 FeS/SAM binding site; other site 1036672002096 16S rRNA methyltransferase B; Provisional; Region: PRK10901 1036672002097 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 1036672002098 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 1036672002099 S-adenosylmethionine binding site [chemical binding]; other site 1036672002100 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 1036672002101 potential frameshift: common BLAST hit: gi|332285813|ref|YP_004417724.1| two-component sensor kinase 1036672002102 Response regulator receiver domain; Region: Response_reg; pfam00072 1036672002103 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1036672002104 active site 1036672002105 phosphorylation site [posttranslational modification] 1036672002106 intermolecular recognition site; other site 1036672002107 dimerization interface [polypeptide binding]; other site 1036672002108 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 1036672002109 TrkA-N domain; Region: TrkA_N; pfam02254 1036672002110 TrkA-N domain; Region: TrkA_N; pfam02254 1036672002111 TrkA-C domain; Region: TrkA_C; pfam02080 1036672002112 potential frameshift: common BLAST hit: gi|33594980|ref|NP_882623.1| Trk system potassium uptake protein 1036672002113 potential frameshift: common BLAST hit: gi|311109235|ref|YP_003982088.1| Trk system potassium uptake protein 1036672002114 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 1036672002115 agmatinase; Region: agmatinase; TIGR01230 1036672002116 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 1036672002117 putative active site [active] 1036672002118 putative metal binding site [ion binding]; other site 1036672002119 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1036672002120 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1036672002121 Walker A/P-loop; other site 1036672002122 ATP binding site [chemical binding]; other site 1036672002123 Q-loop/lid; other site 1036672002124 ABC transporter signature motif; other site 1036672002125 Walker B; other site 1036672002126 D-loop; other site 1036672002127 H-loop/switch region; other site 1036672002128 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1036672002129 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672002130 dimer interface [polypeptide binding]; other site 1036672002131 conserved gate region; other site 1036672002132 putative PBP binding loops; other site 1036672002133 ABC-ATPase subunit interface; other site 1036672002134 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 1036672002135 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1036672002136 substrate binding pocket [chemical binding]; other site 1036672002137 membrane-bound complex binding site; other site 1036672002138 hinge residues; other site 1036672002139 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1036672002140 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1036672002141 Bacterial transcriptional regulator; Region: IclR; pfam01614 1036672002142 comF family protein; Region: comF; TIGR00201 1036672002143 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1036672002144 active site 1036672002145 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 1036672002146 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 1036672002147 S-adenosylmethionine binding site [chemical binding]; other site 1036672002148 potential frameshift: common BLAST hit: gi|163859019|ref|YP_001633317.1| NAD(P)H-dependent glycerol-3-phosphate dehydrogenase 1036672002149 preprotein translocase subunit SecB; Validated; Region: PRK05751 1036672002150 SecA binding site; other site 1036672002151 Preprotein binding site; other site 1036672002152 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 1036672002153 GSH binding site [chemical binding]; other site 1036672002154 catalytic residues [active] 1036672002155 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 1036672002156 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 1036672002157 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 1036672002158 catalytic core [active] 1036672002159 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 1036672002160 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 1036672002161 Peptidase family M23; Region: Peptidase_M23; pfam01551 1036672002162 potential frameshift: common BLAST hit: gi|187476759|ref|YP_784783.1| carboxy-terminal processing protease 1036672002163 potential frameshift: common BLAST hit: gi|33599289|ref|NP_886849.1| carboxy-terminal processing protease precursor 1036672002164 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 1036672002165 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 1036672002166 ATP binding site [chemical binding]; other site 1036672002167 substrate interface [chemical binding]; other site 1036672002168 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 1036672002169 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 1036672002170 PDZ domain; Region: PDZ_2; pfam13180 1036672002171 enoyl-CoA hydratase; Provisional; Region: PRK05862 1036672002172 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 1036672002173 substrate binding site [chemical binding]; other site 1036672002174 oxyanion hole (OAH) forming residues; other site 1036672002175 trimer interface [polypeptide binding]; other site 1036672002176 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1036672002177 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1036672002178 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 1036672002179 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1036672002180 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 1036672002181 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1036672002182 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1036672002183 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 1036672002184 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1036672002185 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 1036672002186 beta subunit interaction interface [polypeptide binding]; other site 1036672002187 Walker A motif; other site 1036672002188 ATP binding site [chemical binding]; other site 1036672002189 Walker B motif; other site 1036672002190 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1036672002191 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1036672002192 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1036672002193 core domain interface [polypeptide binding]; other site 1036672002194 delta subunit interface [polypeptide binding]; other site 1036672002195 epsilon subunit interface [polypeptide binding]; other site 1036672002196 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1036672002197 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1036672002198 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 1036672002199 alpha subunit interaction interface [polypeptide binding]; other site 1036672002200 Walker A motif; other site 1036672002201 ATP binding site [chemical binding]; other site 1036672002202 Walker B motif; other site 1036672002203 inhibitor binding site; inhibition site 1036672002204 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1036672002205 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 1036672002206 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1036672002207 gamma subunit interface [polypeptide binding]; other site 1036672002208 epsilon subunit interface [polypeptide binding]; other site 1036672002209 LBP interface [polypeptide binding]; other site 1036672002210 thiamine pyrophosphate protein; Validated; Region: PRK08199 1036672002211 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1036672002212 PYR/PP interface [polypeptide binding]; other site 1036672002213 dimer interface [polypeptide binding]; other site 1036672002214 TPP binding site [chemical binding]; other site 1036672002215 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1036672002216 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 1036672002217 TPP-binding site [chemical binding]; other site 1036672002218 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672002219 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1036672002220 potential frameshift: common BLAST hit: gi|187479681|ref|YP_787706.1| uroporphyrinogen decarboxylase 1036672002221 primosome assembly protein PriA; Validated; Region: PRK05580 1036672002222 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 1036672002223 ATP binding site [chemical binding]; other site 1036672002224 putative Mg++ binding site [ion binding]; other site 1036672002225 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1036672002226 potential frameshift: common BLAST hit: gi|384205491|ref|YP_005591230.1| ATP-dependent DNA helicase 1036672002227 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1036672002228 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1036672002229 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 1036672002230 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1036672002231 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 1036672002232 phenylcoumaran benzylic ether reductase (PCBER) like, atypical (a) SDRs; Region: PCBER_SDR_a; cd05259 1036672002233 NmrA-like family; Region: NmrA; pfam05368 1036672002234 NAD(P) binding site [chemical binding]; other site 1036672002235 active site lysine 1036672002236 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1036672002237 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672002238 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 1036672002239 putative effector binding pocket; other site 1036672002240 putative dimerization interface [polypeptide binding]; other site 1036672002241 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1036672002242 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1036672002243 Walker A/P-loop; other site 1036672002244 ATP binding site [chemical binding]; other site 1036672002245 ABC transporter; Region: ABC_tran; pfam00005 1036672002246 Q-loop/lid; other site 1036672002247 ABC transporter signature motif; other site 1036672002248 Walker B; other site 1036672002249 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1036672002250 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1036672002251 H-loop/switch region; other site 1036672002252 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1036672002253 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1036672002254 inhibitor site; inhibition site 1036672002255 active site 1036672002256 dimer interface [polypeptide binding]; other site 1036672002257 catalytic residue [active] 1036672002258 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672002259 potential frameshift: common BLAST hit: gi|377807783|ref|YP_004978975.1| L-rhamnonate dehydratase 1036672002260 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1036672002261 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672002262 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 1036672002263 putative dimerization interface [polypeptide binding]; other site 1036672002264 Glutaredoxin and related proteins [Posttranslational modification, protein turnover, chaperones]; Region: GrxC; COG0695 1036672002265 Response regulator receiver domain; Region: Response_reg; pfam00072 1036672002266 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1036672002267 active site 1036672002268 phosphorylation site [posttranslational modification] 1036672002269 intermolecular recognition site; other site 1036672002270 dimerization interface [polypeptide binding]; other site 1036672002271 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1036672002272 potential frameshift: common BLAST hit: gi|15838130|ref|NP_298818.1| surface protein 1036672002273 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 1036672002274 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1036672002275 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1036672002276 ligand binding site [chemical binding]; other site 1036672002277 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1036672002278 malonate decarboxylase, epsilon subunit; Region: malonate_mdcH; TIGR03131 1036672002279 triphosphoribosyl-dephospho-CoA synthase MdcB; Region: malonate_mdcB; TIGR03132 1036672002280 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; pfam10620 1036672002281 malonate decarboxylase holo-[acyl-carrier-protein] synthase; Region: malonate_mdcG; TIGR03135 1036672002282 malonate decarboxylase, gamma subunit; Region: malonate_gamma; TIGR03134 1036672002283 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189 1036672002284 Malonate decarboxylase delta subunit (MdcD); Region: ACP; cl06082 1036672002285 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 1036672002286 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 1036672002287 malonate transporter, MadM subunit; Region: malonate_madM; TIGR00808 1036672002288 Malonate transporter MadL subunit; Region: MadL; cl04273 1036672002289 Malonate transporter MadL subunit; Region: MadL; cl04273 1036672002290 potential frameshift: common BLAST hit: gi|241665432|ref|YP_002983791.1| LysR family transcriptional regulator 1036672002291 Carboxylesterase family; Region: COesterase; pfam00135 1036672002292 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 1036672002293 substrate binding pocket [chemical binding]; other site 1036672002294 catalytic triad [active] 1036672002295 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672002296 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1036672002297 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1036672002298 potential frameshift: common BLAST hit: gi|339325644|ref|YP_004685337.1| peptide ABC transporter permease 1036672002299 potential frameshift: common BLAST hit: gi|113867488|ref|YP_725977.1| ABC transporter periplasmic protein 1036672002300 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1036672002301 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672002302 dimer interface [polypeptide binding]; other site 1036672002303 conserved gate region; other site 1036672002304 putative PBP binding loops; other site 1036672002305 ABC-ATPase subunit interface; other site 1036672002306 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1036672002307 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672002308 dimer interface [polypeptide binding]; other site 1036672002309 conserved gate region; other site 1036672002310 ABC-ATPase subunit interface; other site 1036672002311 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1036672002312 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1036672002313 Walker A/P-loop; other site 1036672002314 ATP binding site [chemical binding]; other site 1036672002315 ABC transporter; Region: ABC_tran; pfam00005 1036672002316 Q-loop/lid; other site 1036672002317 ABC transporter signature motif; other site 1036672002318 Walker B; other site 1036672002319 D-loop; other site 1036672002320 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1036672002321 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 1036672002322 H-loop/switch region; other site 1036672002323 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1036672002324 potential frameshift: common BLAST hit: gi|113867484|ref|YP_725973.1| ABC transporter ATPase 1036672002325 allantoate amidohydrolase; Reviewed; Region: PRK12893 1036672002326 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1036672002327 active site 1036672002328 metal binding site [ion binding]; metal-binding site 1036672002329 dimer interface [polypeptide binding]; other site 1036672002330 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1036672002331 Amidase; Region: Amidase; cl11426 1036672002332 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1036672002333 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 1036672002334 trimer interface [polypeptide binding]; other site 1036672002335 eyelet of channel; other site 1036672002336 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 1036672002337 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 1036672002338 proline/glycine betaine transporter; Provisional; Region: PRK10642 1036672002339 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1036672002340 putative substrate translocation pore; other site 1036672002341 Osmosensory transporter coiled coil; Region: Osmo_CC; pfam08946 1036672002342 Uncharacterized protein conserved in bacteria (DUF2195); Region: DUF2195; cl02042 1036672002343 OmpW family; Region: OmpW; cl17427 1036672002344 Predicted ATPase [General function prediction only]; Region: COG3911 1036672002345 AAA domain; Region: AAA_28; pfam13521 1036672002346 potential frameshift: common BLAST hit: gi|160896339|ref|YP_001561921.1| asparaginase 1036672002347 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1036672002348 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1036672002349 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1036672002350 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1036672002351 DNA-binding site [nucleotide binding]; DNA binding site 1036672002352 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1036672002353 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672002354 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1036672002355 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 1036672002356 metal binding site [ion binding]; metal-binding site 1036672002357 substrate binding pocket [chemical binding]; other site 1036672002358 fumarate hydratase; Provisional; Region: PRK06246 1036672002359 Fumarase C-terminus; Region: Fumerase_C; cl00795 1036672002360 Fumarase C-terminus; Region: Fumerase_C; cl00795 1036672002361 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1036672002362 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1036672002363 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1036672002364 DNA binding site [nucleotide binding] 1036672002365 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 1036672002366 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1036672002367 putative ligand binding site [chemical binding]; other site 1036672002368 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1036672002369 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1036672002370 potential frameshift: common BLAST hit: gi|91785947|ref|YP_546899.1| TRAP dicarboxylate transporter subunit DctM 1036672002371 potential frameshift: common BLAST hit: gi|311107049|ref|YP_003979902.1| tripartite ATP-independent periplasmic transporter subunit DctQ 1036672002372 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 1036672002373 dimer interface [polypeptide binding]; other site 1036672002374 substrate binding site [chemical binding]; other site 1036672002375 metal binding site [ion binding]; metal-binding site 1036672002376 Ribulose 1,5-bisphosphate carboxylase, large subunit [Carbohydrate transport and metabolism]; Region: RbcL; COG1850 1036672002377 Ribulose bisphosphate carboxylase like proteins from nonphototrophic bacteria; Region: RLP_NonPhot; cd08207 1036672002378 dimer interface [polypeptide binding]; other site 1036672002379 active site 1036672002380 catalytic residue [active] 1036672002381 metal binding site [ion binding]; metal-binding site 1036672002382 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 1036672002383 Dodecin; Region: Dodecin; pfam07311 1036672002384 Aminoglycoside/hydroxyurea antibiotic resistance kinase; Region: APH_6_hur; cl17810 1036672002385 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in mouse RS21-C6 protein and its homologs; Region: NTP-PPase_RS21-C6_like; cd11537 1036672002386 homodimer interface [polypeptide binding]; other site 1036672002387 chemical substrate binding site [chemical binding]; other site 1036672002388 oligomer interface [polypeptide binding]; other site 1036672002389 metal binding site [ion binding]; metal-binding site 1036672002390 The 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 1036672002391 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672002392 The 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 1036672002393 dimerization interface [polypeptide binding]; other site 1036672002394 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1036672002395 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1036672002396 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1036672002397 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 1036672002398 substrate binding site [chemical binding]; other site 1036672002399 oxyanion hole (OAH) forming residues; other site 1036672002400 trimer interface [polypeptide binding]; other site 1036672002401 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 1036672002402 potential frameshift: common BLAST hit: gi|311104937|ref|YP_003977790.1| extra-cytoplasmic solute receptor family protein 35 1036672002403 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1036672002404 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1036672002405 putative substrate translocation pore; other site 1036672002406 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1036672002407 extended (e) SDRs; Region: SDR_e; cd08946 1036672002408 active site 1036672002409 substrate binding site [chemical binding]; other site 1036672002410 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672002411 dimer interface [polypeptide binding]; other site 1036672002412 conserved gate region; other site 1036672002413 putative PBP binding loops; other site 1036672002414 ABC-ATPase subunit interface; other site 1036672002415 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1036672002416 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672002417 dimer interface [polypeptide binding]; other site 1036672002418 conserved gate region; other site 1036672002419 putative PBP binding loops; other site 1036672002420 ABC-ATPase subunit interface; other site 1036672002421 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1036672002422 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1036672002423 Walker A/P-loop; other site 1036672002424 ATP binding site [chemical binding]; other site 1036672002425 Q-loop/lid; other site 1036672002426 ABC transporter signature motif; other site 1036672002427 Walker B; other site 1036672002428 D-loop; other site 1036672002429 H-loop/switch region; other site 1036672002430 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1036672002431 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 1036672002432 substrate binding pocket [chemical binding]; other site 1036672002433 membrane-bound complex binding site; other site 1036672002434 hinge residues; other site 1036672002435 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 1036672002436 homodimer interface [polypeptide binding]; other site 1036672002437 catalytic residues [active] 1036672002438 NAD binding site [chemical binding]; other site 1036672002439 substrate binding pocket [chemical binding]; other site 1036672002440 flexible flap; other site 1036672002441 potential frameshift: common BLAST hit: gi|163857653|ref|YP_001631951.1| TRAP dicarboxylate transporter 1036672002442 potential frameshift: common BLAST hit: gi|163857653|ref|YP_001631951.1| TRAP dicarboxylate transporter 1036672002443 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 1036672002444 potential frameshift: common BLAST hit: gi|163857651|ref|YP_001631949.1| periplasmic mannitol-binding protein 1036672002445 potential frameshift: common BLAST hit: gi|163857650|ref|YP_001631948.1| GntR family transcriptional regulator 1036672002446 potential frameshift: common BLAST hit: gi|326318679|ref|YP_004236351.1| catalase 1036672002447 Predicted transcriptional regulator [Transcription]; Region: COG2944 1036672002448 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 1036672002449 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 1036672002450 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672002451 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672002452 potential frameshift: common BLAST hit: gi|73539219|ref|YP_299586.1| LysR family transcriptional regulator 1036672002453 hypothetical protein; Validated; Region: PRK06201 1036672002454 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 1036672002455 aspartate aminotransferase; Provisional; Region: PRK05764 1036672002456 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 1036672002457 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1036672002458 homodimer interface [polypeptide binding]; other site 1036672002459 catalytic residue [active] 1036672002460 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1036672002461 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 1036672002462 substrate binding pocket [chemical binding]; other site 1036672002463 membrane-bound complex binding site; other site 1036672002464 hinge residues; other site 1036672002465 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1036672002466 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672002467 dimer interface [polypeptide binding]; other site 1036672002468 conserved gate region; other site 1036672002469 putative PBP binding loops; other site 1036672002470 ABC-ATPase subunit interface; other site 1036672002471 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672002472 dimer interface [polypeptide binding]; other site 1036672002473 conserved gate region; other site 1036672002474 putative PBP binding loops; other site 1036672002475 ABC-ATPase subunit interface; other site 1036672002476 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1036672002477 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1036672002478 Walker A/P-loop; other site 1036672002479 ATP binding site [chemical binding]; other site 1036672002480 Q-loop/lid; other site 1036672002481 ABC transporter signature motif; other site 1036672002482 Walker B; other site 1036672002483 D-loop; other site 1036672002484 H-loop/switch region; other site 1036672002485 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1036672002486 The 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 1036672002487 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1036672002488 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672002489 The 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 1036672002490 dimerization interface [polypeptide binding]; other site 1036672002491 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672002492 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672002493 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1036672002494 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1036672002495 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1036672002496 MarR family; Region: MarR_2; cl17246 1036672002497 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 1036672002498 substrate binding site [chemical binding]; other site 1036672002499 putative catalytic residue [active] 1036672002500 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 1036672002501 phosphate binding site [ion binding]; other site 1036672002502 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1036672002503 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 1036672002504 substrate binding site [chemical binding]; other site 1036672002505 oxyanion hole (OAH) forming residues; other site 1036672002506 trimer interface [polypeptide binding]; other site 1036672002507 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1036672002508 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1036672002509 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672002510 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1036672002511 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 1036672002512 substrate binding site [chemical binding]; other site 1036672002513 oxyanion hole (OAH) forming residues; other site 1036672002514 trimer interface [polypeptide binding]; other site 1036672002515 AMP-binding domain protein; Validated; Region: PRK08315 1036672002516 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1036672002517 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 1036672002518 acyl-activating enzyme (AAE) consensus motif; other site 1036672002519 acyl-activating enzyme (AAE) consensus motif; other site 1036672002520 putative AMP binding site [chemical binding]; other site 1036672002521 putative active site [active] 1036672002522 putative CoA binding site [chemical binding]; other site 1036672002523 potential frameshift: common BLAST hit: gi|299770781|ref|YP_003732807.1| HMGL-like family protein 1036672002524 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 1036672002525 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 1036672002526 metal binding site [ion binding]; metal-binding site 1036672002527 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1036672002528 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1036672002529 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 1036672002530 homotrimer interaction site [polypeptide binding]; other site 1036672002531 putative active site [active] 1036672002532 potential frameshift: common BLAST hit: gi|295680608|ref|YP_003609182.1| BFD (2Fe-2S)-binding domain-containing protein 1036672002533 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 1036672002534 potential frameshift: common BLAST hit: gi|194292043|ref|YP_002007950.1| opine oxidase subunit b; fad dependent oxidoreductase 1036672002535 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1036672002536 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672002537 dimer interface [polypeptide binding]; other site 1036672002538 conserved gate region; other site 1036672002539 putative PBP binding loops; other site 1036672002540 ABC-ATPase subunit interface; other site 1036672002541 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1036672002542 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672002543 dimer interface [polypeptide binding]; other site 1036672002544 conserved gate region; other site 1036672002545 putative PBP binding loops; other site 1036672002546 ABC-ATPase subunit interface; other site 1036672002547 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1036672002548 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1036672002549 Walker A/P-loop; other site 1036672002550 ATP binding site [chemical binding]; other site 1036672002551 Q-loop/lid; other site 1036672002552 ABC transporter signature motif; other site 1036672002553 Walker B; other site 1036672002554 D-loop; other site 1036672002555 H-loop/switch region; other site 1036672002556 TOBE domain; Region: TOBE_2; pfam08402 1036672002557 potential frameshift: common BLAST hit: gi|91790215|ref|YP_551167.1| extracellular solute-binding protein 1036672002558 The 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 1036672002559 dimerization interface [polypeptide binding]; other site 1036672002560 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672002561 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 1036672002562 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 1036672002563 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 1036672002564 dimerization interface [polypeptide binding]; other site 1036672002565 substrate binding pocket [chemical binding]; other site 1036672002566 potential frameshift: common BLAST hit: gi|385233778|ref|YP_005795120.1| TRAP-T family transporter, large 1036672002567 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 1036672002568 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 1036672002569 active site 1 [active] 1036672002570 dimer interface [polypeptide binding]; other site 1036672002571 hexamer interface [polypeptide binding]; other site 1036672002572 active site 2 [active] 1036672002573 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 1036672002574 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_6; cd06233 1036672002575 putative active site [active] 1036672002576 Zn binding site [ion binding]; other site 1036672002577 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 1036672002578 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 1036672002579 substrate binding pocket [chemical binding]; other site 1036672002580 membrane-bound complex binding site; other site 1036672002581 hinge residues; other site 1036672002582 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1036672002583 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672002584 dimer interface [polypeptide binding]; other site 1036672002585 conserved gate region; other site 1036672002586 putative PBP binding loops; other site 1036672002587 ABC-ATPase subunit interface; other site 1036672002588 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672002589 dimer interface [polypeptide binding]; other site 1036672002590 conserved gate region; other site 1036672002591 putative PBP binding loops; other site 1036672002592 ABC-ATPase subunit interface; other site 1036672002593 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 1036672002594 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1036672002595 Walker A/P-loop; other site 1036672002596 ATP binding site [chemical binding]; other site 1036672002597 Q-loop/lid; other site 1036672002598 ABC transporter signature motif; other site 1036672002599 Walker B; other site 1036672002600 D-loop; other site 1036672002601 H-loop/switch region; other site 1036672002602 Protein of unknwon function (DUF3008); Region: DUF3008; pfam11450 1036672002603 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1036672002604 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 1036672002605 iron-sulfur cluster [ion binding]; other site 1036672002606 [2Fe-2S] cluster binding site [ion binding]; other site 1036672002607 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 1036672002608 alpha subunit interface [polypeptide binding]; other site 1036672002609 active site 1036672002610 substrate binding site [chemical binding]; other site 1036672002611 Fe binding site [ion binding]; other site 1036672002612 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 1036672002613 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 1036672002614 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 1036672002615 potential frameshift: common BLAST hit: gi|33603528|ref|NP_891088.1| homoserine O-acetyltransferase 1036672002616 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1036672002617 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 1036672002618 S-adenosylmethionine binding site [chemical binding]; other site 1036672002619 muropeptide transporter; Reviewed; Region: ampG; PRK11902 1036672002620 muropeptide transporter; Validated; Region: ampG; cl17669 1036672002621 Cytochrome c; Region: Cytochrom_C; cl11414 1036672002622 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1036672002623 Cytochrome c; Region: Cytochrom_C; cl11414 1036672002624 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1036672002625 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1036672002626 Cytochrome c; Region: Cytochrom_C; pfam00034 1036672002627 potential frameshift: common BLAST hit: gi|33603508|ref|NP_891068.1| endonuclease 1036672002628 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1036672002629 EamA-like transporter family; Region: EamA; pfam00892 1036672002630 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 1036672002631 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 1036672002632 putative active site [active] 1036672002633 metal binding site [ion binding]; metal-binding site 1036672002634 DoxX; Region: DoxX; pfam07681 1036672002635 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1036672002636 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672002637 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 1036672002638 putative effector binding pocket; other site 1036672002639 dimerization interface [polypeptide binding]; other site 1036672002640 potential frameshift: common BLAST hit: gi|311109327|ref|YP_003982180.1| orotate phosphoribosyltransferase 1036672002641 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1036672002642 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1036672002643 GatB domain; Region: GatB_Yqey; smart00845 1036672002644 potential frameshift: common BLAST hit: gi|187479648|ref|YP_787673.1| aspartyl/glutamyl-tRNA amidotransferase subunit A 1036672002645 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 1036672002646 potential frameshift: common BLAST hit: gi|384202888|ref|YP_005588627.1| rod shape-determining protein MreB 1036672002647 rod shape-determining protein MreC; Provisional; Region: PRK13922 1036672002648 rod shape-determining protein MreC; Region: MreC; pfam04085 1036672002649 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 1036672002650 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1036672002651 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1036672002652 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1036672002653 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 1036672002654 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 1036672002655 A/G-specific adenine glycosylase; Region: mutY; TIGR01084 1036672002656 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1036672002657 minor groove reading motif; other site 1036672002658 helix-hairpin-helix signature motif; other site 1036672002659 substrate binding pocket [chemical binding]; other site 1036672002660 active site 1036672002661 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 1036672002662 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 1036672002663 DNA binding and oxoG recognition site [nucleotide binding] 1036672002664 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 1036672002665 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1036672002666 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1036672002667 Walker A/P-loop; other site 1036672002668 ATP binding site [chemical binding]; other site 1036672002669 Q-loop/lid; other site 1036672002670 ABC transporter signature motif; other site 1036672002671 Walker B; other site 1036672002672 D-loop; other site 1036672002673 H-loop/switch region; other site 1036672002674 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1036672002675 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 1036672002676 substrate binding pocket [chemical binding]; other site 1036672002677 membrane-bound complex binding site; other site 1036672002678 hinge residues; other site 1036672002679 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 1036672002680 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1036672002681 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1036672002682 potential frameshift: common BLAST hit: gi|311109072|ref|YP_003981925.1| general L-amino acid transporter permease AAPM 1036672002683 potential frameshift: common BLAST hit: gi|311109072|ref|YP_003981925.1| general L-amino acid transporter permease AAPM 1036672002684 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1036672002685 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1036672002686 Walker A/P-loop; other site 1036672002687 ATP binding site [chemical binding]; other site 1036672002688 Q-loop/lid; other site 1036672002689 ABC transporter signature motif; other site 1036672002690 Walker B; other site 1036672002691 D-loop; other site 1036672002692 H-loop/switch region; other site 1036672002693 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 1036672002694 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 1036672002695 Pantoate-beta-alanine ligase; Region: PanC; cd00560 1036672002696 pantoate--beta-alanine ligase; Region: panC; TIGR00018 1036672002697 active site 1036672002698 ATP-binding site [chemical binding]; other site 1036672002699 pantoate-binding site; other site 1036672002700 HXXH motif; other site 1036672002701 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1036672002702 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 1036672002703 DNA binding residues [nucleotide binding] 1036672002704 dimerization interface [polypeptide binding]; other site 1036672002705 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1036672002706 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 1036672002707 ATP-binding [chemical binding]; other site 1036672002708 CoA-binding site [chemical binding]; other site 1036672002709 hypothetical protein; Provisional; Region: PRK05287 1036672002710 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1036672002711 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1036672002712 HlyD family secretion protein; Region: HlyD_3; pfam13437 1036672002713 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 1036672002714 Protein export membrane protein; Region: SecD_SecF; cl14618 1036672002715 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 1036672002716 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 1036672002717 Protein export membrane protein; Region: SecD_SecF; cl14618 1036672002718 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 1036672002719 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 1036672002720 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1036672002721 serine O-acetyltransferase; Region: cysE; TIGR01172 1036672002722 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 1036672002723 trimer interface [polypeptide binding]; other site 1036672002724 active site 1036672002725 substrate binding site [chemical binding]; other site 1036672002726 CoA binding site [chemical binding]; other site 1036672002727 potential frameshift: common BLAST hit: gi|311103789|ref|YP_003976642.1| NUDIX domain-containing protein 2 1036672002728 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 1036672002729 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 1036672002730 Walker A motif; other site 1036672002731 ATP binding site [chemical binding]; other site 1036672002732 Walker B motif; other site 1036672002733 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1036672002734 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1036672002735 substrate binding pocket [chemical binding]; other site 1036672002736 chain length determination region; other site 1036672002737 substrate-Mg2+ binding site; other site 1036672002738 catalytic residues [active] 1036672002739 aspartate-rich region 1; other site 1036672002740 active site lid residues [active] 1036672002741 aspartate-rich region 2; other site 1036672002742 glutamine ABC transporter periplasmic protein; Reviewed; Region: glnH; PRK09495 1036672002743 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 1036672002744 substrate binding pocket [chemical binding]; other site 1036672002745 membrane-bound complex binding site; other site 1036672002746 hinge residues; other site 1036672002747 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1036672002748 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672002749 dimer interface [polypeptide binding]; other site 1036672002750 conserved gate region; other site 1036672002751 putative PBP binding loops; other site 1036672002752 ABC-ATPase subunit interface; other site 1036672002753 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1036672002754 Q-loop/lid; other site 1036672002755 ABC transporter signature motif; other site 1036672002756 Walker B; other site 1036672002757 D-loop; other site 1036672002758 H-loop/switch region; other site 1036672002759 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 1036672002760 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 1036672002761 potential frameshift: common BLAST hit: gi|163858843|ref|YP_001633141.1| phosphoenolpyruvate carboxylase 1036672002762 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 1036672002763 3-isopropylmalate dehydratase, small subunit; Region: LEUD_arch; TIGR02087 1036672002764 substrate binding site [chemical binding]; other site 1036672002765 3-isopropylmalate dehydratase large subunit [Amino acid transport and metabolism]; Region: LeuC; COG0065 1036672002766 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1036672002767 substrate binding site [chemical binding]; other site 1036672002768 ligand binding site [chemical binding]; other site 1036672002769 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 1036672002770 ANTAR domain; Region: ANTAR; pfam03861 1036672002771 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1036672002772 NMT1-like family; Region: NMT1_2; pfam13379 1036672002773 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1036672002774 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672002775 ABC-ATPase subunit interface; other site 1036672002776 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1036672002777 Walker A/P-loop; other site 1036672002778 ATP binding site [chemical binding]; other site 1036672002779 ABC transporter; Region: ABC_tran; pfam00005 1036672002780 Q-loop/lid; other site 1036672002781 ABC transporter signature motif; other site 1036672002782 Walker B; other site 1036672002783 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1036672002784 H-loop/switch region; other site 1036672002785 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 1036672002786 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 1036672002787 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1036672002788 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1036672002789 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1036672002790 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1036672002791 Small subunit of nitrite reductase (NirD) family, Rieske domain; composed of proteins similar to the Bacillus subtilis small subunit of assimilatory nitrite reductase containing a Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain...; Region: Rieske_NirD_small_Bacillus; cd03530 1036672002792 [2Fe-2S] cluster binding site [ion binding]; other site 1036672002793 potential frameshift: common BLAST hit: gi|163857951|ref|YP_001632249.1| nitrate reductase, catalytic subunit 1036672002794 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1036672002795 active site 1036672002796 SAM binding site [chemical binding]; other site 1036672002797 homodimer interface [polypeptide binding]; other site 1036672002798 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 1036672002799 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 1036672002800 ThiC-associated domain; Region: ThiC-associated; pfam13667 1036672002801 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 1036672002802 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 1036672002803 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1036672002804 active site 1036672002805 SAM binding site [chemical binding]; other site 1036672002806 homodimer interface [polypeptide binding]; other site 1036672002807 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 1036672002808 sulfite reductase subunit alpha; Provisional; Region: cysJ; PRK10953 1036672002809 Flavodoxin; Region: Flavodoxin_1; pfam00258 1036672002810 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 1036672002811 FAD binding pocket [chemical binding]; other site 1036672002812 FAD binding motif [chemical binding]; other site 1036672002813 catalytic residues [active] 1036672002814 NAD binding pocket [chemical binding]; other site 1036672002815 phosphate binding motif [ion binding]; other site 1036672002816 beta-alpha-beta structure motif; other site 1036672002817 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1036672002818 sulfite reductase subunit beta; Provisional; Region: PRK13504 1036672002819 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1036672002820 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1036672002821 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 1036672002822 non-specific DNA binding site [nucleotide binding]; other site 1036672002823 salt bridge; other site 1036672002824 sequence-specific DNA binding site [nucleotide binding]; other site 1036672002825 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1036672002826 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1036672002827 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1036672002828 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1036672002829 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1036672002830 putative substrate translocation pore; other site 1036672002831 gamma-glutamyl kinase; Provisional; Region: PRK05429 1036672002832 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 1036672002833 nucleotide binding site [chemical binding]; other site 1036672002834 homotetrameric interface [polypeptide binding]; other site 1036672002835 putative phosphate binding site [ion binding]; other site 1036672002836 putative allosteric binding site; other site 1036672002837 PUA domain; Region: PUA; pfam01472 1036672002838 GTPase CgtA; Reviewed; Region: obgE; PRK12299 1036672002839 GTP1/OBG; Region: GTP1_OBG; pfam01018 1036672002840 Obg GTPase; Region: Obg; cd01898 1036672002841 G1 box; other site 1036672002842 GTP/Mg2+ binding site [chemical binding]; other site 1036672002843 Switch I region; other site 1036672002844 G2 box; other site 1036672002845 G3 box; other site 1036672002846 Switch II region; other site 1036672002847 G4 box; other site 1036672002848 G5 box; other site 1036672002849 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1036672002850 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1036672002851 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 1036672002852 Domain of unknown function (DUF1853); Region: DUF1853; cl01545 1036672002853 Domain of unknown function (DUF1853); Region: DUF1853; cl01545 1036672002854 potential frameshift: common BLAST hit: gi|384205958|ref|YP_005591697.1| bifunctional ornithine acetyltransferase/N-acetylglutamate synthase 1036672002855 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 1036672002856 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 1036672002857 inhibitor-cofactor binding pocket; inhibition site 1036672002858 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1036672002859 catalytic residue [active] 1036672002860 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 1036672002861 thiamine phosphate binding site [chemical binding]; other site 1036672002862 active site 1036672002863 pyrophosphate binding site [ion binding]; other site 1036672002864 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 1036672002865 substrate binding site [chemical binding]; other site 1036672002866 ATP binding site [chemical binding]; other site 1036672002867 Rubredoxin [Energy production and conversion]; Region: COG1773 1036672002868 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 1036672002869 iron binding site [ion binding]; other site 1036672002870 hypothetical protein; Validated; Region: PRK00228 1036672002871 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 1036672002872 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 1036672002873 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1036672002874 active site 1036672002875 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 1036672002876 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1036672002877 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1036672002878 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1036672002879 dihydroorotase; Provisional; Region: PRK07627 1036672002880 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 1036672002881 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 1036672002882 active site 1036672002883 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1036672002884 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1036672002885 putative acyl-acceptor binding pocket; other site 1036672002886 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 1036672002887 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 1036672002888 active site 1036672002889 metal binding site [ion binding]; metal-binding site 1036672002890 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1036672002891 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 1036672002892 potential frameshift: common BLAST hit: gi|311103831|ref|YP_003976684.1| monofunctional biosynthetic peptidoglycan transglycosylase 1036672002893 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1036672002894 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1036672002895 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1036672002896 shikimate binding site; other site 1036672002897 NAD(P) binding site [chemical binding]; other site 1036672002898 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 1036672002899 RNB domain; Region: RNB; pfam00773 1036672002900 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 1036672002901 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1036672002902 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 1036672002903 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 1036672002904 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1036672002905 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1036672002906 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1036672002907 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 1036672002908 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1036672002909 catalytic residues [active] 1036672002910 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 1036672002911 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1036672002912 active site 1036672002913 trimer interface [polypeptide binding]; other site 1036672002914 dimer interface [polypeptide binding]; other site 1036672002915 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1036672002916 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 1036672002917 carboxyltransferase (CT) interaction site; other site 1036672002918 biotinylation site [posttranslational modification]; other site 1036672002919 potential frameshift: common BLAST hit: gi|187479466|ref|YP_787491.1| acetyl-CoA carboxylase biotin carboxylase subunit 1036672002920 potential frameshift: common BLAST hit: gi|311103846|ref|YP_003976699.1| methyltransferase 1036672002921 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 1036672002922 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 1036672002923 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1036672002924 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 1036672002925 substrate binding site [chemical binding]; other site 1036672002926 ATP binding site [chemical binding]; other site 1036672002927 YGGT family; Region: YGGT; pfam02325 1036672002928 YGGT family; Region: YGGT; pfam02325 1036672002929 potential frameshift: common BLAST hit: gi|163854893|ref|YP_001629191.1| glutamyl-tRNA synthetase 1036672002930 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 1036672002931 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 1036672002932 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 1036672002933 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1036672002934 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1036672002935 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 1036672002936 Serine hydrolase (FSH1); Region: FSH1; pfam03959 1036672002937 hypothetical protein; Provisional; Region: PRK05255 1036672002938 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 1036672002939 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1036672002940 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 1036672002941 23S rRNA interface [nucleotide binding]; other site 1036672002942 L3 interface [polypeptide binding]; other site 1036672002943 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1036672002944 potential frameshift: common BLAST hit: gi|187479438|ref|YP_787463.1| N-acetyl-gamma-glutamyl-phosphate reductase 1036672002945 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 1036672002946 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 1036672002947 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1036672002948 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1036672002949 active site 1036672002950 HIGH motif; other site 1036672002951 dimer interface [polypeptide binding]; other site 1036672002952 KMSKS motif; other site 1036672002953 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 1036672002954 RNA binding surface [nucleotide binding]; other site 1036672002955 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 1036672002956 substrate binding site [chemical binding]; other site 1036672002957 potential frameshift: common BLAST hit: gi|311103891|ref|YP_003976744.1| methyltransferase 1036672002958 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1036672002959 ATP cone domain; Region: ATP-cone; pfam03477 1036672002960 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 1036672002961 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 1036672002962 catalytic motif [active] 1036672002963 Zn binding site [ion binding]; other site 1036672002964 RibD C-terminal domain; Region: RibD_C; cl17279 1036672002965 Lumazine binding domain; Region: Lum_binding; pfam00677 1036672002966 Lumazine binding domain; Region: Lum_binding; pfam00677 1036672002967 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 1036672002968 probable addiction module antidote protein; Region: dnstrm_HI1420; TIGR02684 1036672002969 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1036672002970 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1036672002971 sulfite oxidase; Provisional; Region: PLN00177 1036672002972 Subgroup of sulfite oxidase (SO) family molybdopterin binding domains that contains conserved dimerization domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate...; Region: SO_family_Moco_dimer; cd02110 1036672002973 Moco binding site; other site 1036672002974 metal coordination site [ion binding]; other site 1036672002975 dimerization interface [polypeptide binding]; other site 1036672002976 Dyp-type peroxidase family; Region: Dyp_perox; pfam04261 1036672002977 potential frameshift: common BLAST hit: gi|333933506|ref|YP_004507084.1| oxidoreductase alpha (molybdopterin) subunit 1036672002978 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 1036672002979 nucleotide binding site/active site [active] 1036672002980 HIT family signature motif; other site 1036672002981 catalytic residue [active] 1036672002982 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1036672002983 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 1036672002984 Copper(I)-binding protein [Inorganic ion transport and metabolism]; Region: COG2847 1036672002985 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1036672002986 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 1036672002987 Cu(I) binding site [ion binding]; other site 1036672002988 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like2; cd05667 1036672002989 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1036672002990 metal binding site [ion binding]; metal-binding site 1036672002991 putative dimer interface [polypeptide binding]; other site 1036672002992 Protein of unknown function (DUF3829); Region: DUF3829; pfam12889 1036672002993 short chain dehydrogenase; Provisional; Region: PRK07478 1036672002994 classical (c) SDRs; Region: SDR_c; cd05233 1036672002995 NAD(P) binding site [chemical binding]; other site 1036672002996 active site 1036672002997 potential frameshift: common BLAST hit: gi|333931722|ref|YP_004505300.1| LysR family transcriptional regulator 1036672002998 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 1036672002999 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 1036672003000 active site 1036672003001 homotetramer interface [polypeptide binding]; other site 1036672003002 homodimer interface [polypeptide binding]; other site 1036672003003 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 1036672003004 S-adenosylmethionine binding site [chemical binding]; other site 1036672003005 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1036672003006 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1036672003007 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 1036672003008 TrkA-N domain; Region: TrkA_N; pfam02254 1036672003009 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1036672003010 hypothetical protein; Provisional; Region: PRK09946 1036672003011 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 1036672003012 LysE type translocator; Region: LysE; cl00565 1036672003013 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1036672003014 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1036672003015 Dehydratase family; Region: ILVD_EDD; cl00340 1036672003016 Dehydratase family; Region: ILVD_EDD; cl00340 1036672003017 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1036672003018 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672003019 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 1036672003020 putative dimerization interface [polypeptide binding]; other site 1036672003021 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1036672003022 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 1036672003023 conserved cys residue [active] 1036672003024 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 1036672003025 NAD(P) binding site [chemical binding]; other site 1036672003026 LDH/MDH dimer interface [polypeptide binding]; other site 1036672003027 substrate binding site [chemical binding]; other site 1036672003028 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 1036672003029 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1036672003030 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1036672003031 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1036672003032 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1036672003033 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1036672003034 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1036672003035 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1036672003036 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1036672003037 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1036672003038 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1036672003039 Uncharacterized protein conserved in bacteria (DUF2169); Region: DUF2169; pfam09937 1036672003040 Protein of unknown function (DUF3540); Region: DUF3540; pfam12059 1036672003041 Protein of unknown function (DUF1428); Region: DUF1428; pfam07237 1036672003042 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1036672003043 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 1036672003044 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1036672003045 RNA/DNA hybrid binding site [nucleotide binding]; other site 1036672003046 active site 1036672003047 Methyltransferase domain; Region: Methyltransf_11; pfam08241 1036672003048 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 1036672003049 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 1036672003050 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 1036672003051 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1036672003052 catalytic residue [active] 1036672003053 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1036672003054 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1036672003055 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1036672003056 potential frameshift: common BLAST hit: gi|311103911|ref|YP_003976764.1| enoyl-[acyl-carrier-protein] reductase [NADH] 1 1036672003057 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 1036672003058 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 1036672003059 active site 1036672003060 catalytic site [active] 1036672003061 substrate binding site [chemical binding]; other site 1036672003062 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1036672003063 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1036672003064 Ligand binding site; other site 1036672003065 Putative Catalytic site; other site 1036672003066 DXD motif; other site 1036672003067 uncharacterized YdjC-like family proteins from bacteria; Region: YdjC_like_3; cd10807 1036672003068 putative active site [active] 1036672003069 YdjC motif; other site 1036672003070 Mg binding site [ion binding]; other site 1036672003071 putative homodimer interface [polypeptide binding]; other site 1036672003072 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1036672003073 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1036672003074 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1036672003075 Coenzyme A binding pocket [chemical binding]; other site 1036672003076 Putative phosphatase (DUF442); Region: DUF442; cl17385 1036672003077 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 1036672003078 Ligand Binding Site [chemical binding]; other site 1036672003079 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1036672003080 HAMP domain; Region: HAMP; pfam00672 1036672003081 dimerization interface [polypeptide binding]; other site 1036672003082 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 1036672003083 dimer interface [polypeptide binding]; other site 1036672003084 phosphorylation site [posttranslational modification] 1036672003085 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1036672003086 ATP binding site [chemical binding]; other site 1036672003087 Mg2+ binding site [ion binding]; other site 1036672003088 G-X-G motif; other site 1036672003089 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1036672003090 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1036672003091 active site 1036672003092 phosphorylation site [posttranslational modification] 1036672003093 intermolecular recognition site; other site 1036672003094 dimerization interface [polypeptide binding]; other site 1036672003095 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 1036672003096 DNA binding site [nucleotide binding] 1036672003097 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 1036672003098 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1036672003099 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 1036672003100 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 1036672003101 potential frameshift: common BLAST hit: gi|311108353|ref|YP_003981206.1| formate dehydrogenase H 1036672003102 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 1036672003103 putative dimer interface [polypeptide binding]; other site 1036672003104 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 1036672003105 SLBB domain; Region: SLBB; pfam10531 1036672003106 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 1036672003107 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 1036672003108 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 1036672003109 putative dimer interface [polypeptide binding]; other site 1036672003110 [2Fe-2S] cluster binding site [ion binding]; other site 1036672003111 potential frameshift: common BLAST hit: gi|384204959|ref|YP_005590698.1| putative molybdenum-binding protein 1036672003112 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 1036672003113 Radical SAM superfamily; Region: Radical_SAM; pfam04055 1036672003114 FeS/SAM binding site; other site 1036672003115 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1036672003116 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 1036672003117 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 1036672003118 GTP binding site; other site 1036672003119 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 1036672003120 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1036672003121 putative MPT binding site; other site 1036672003122 MoCF_BD: molybdenum cofactor (MoCF) binding domain (BD). This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. The domain is presumed to bind molybdopterin; Region: MoCF_BD; cl00451 1036672003123 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1036672003124 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 1036672003125 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 1036672003126 MPT binding site; other site 1036672003127 trimer interface [polypeptide binding]; other site 1036672003128 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 1036672003129 MoaE homodimer interface [polypeptide binding]; other site 1036672003130 MoaD interaction [polypeptide binding]; other site 1036672003131 active site residues [active] 1036672003132 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 1036672003133 MoaE interaction surface [polypeptide binding]; other site 1036672003134 MoeB interaction surface [polypeptide binding]; other site 1036672003135 thiocarboxylated glycine; other site 1036672003136 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 1036672003137 trimer interface [polypeptide binding]; other site 1036672003138 dimer interface [polypeptide binding]; other site 1036672003139 putative active site [active] 1036672003140 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 1036672003141 catalytic triad [active] 1036672003142 dimer interface [polypeptide binding]; other site 1036672003143 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1036672003144 putative substrate translocation pore; other site 1036672003145 putative MFS family transporter protein; Provisional; Region: PRK03633 1036672003146 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1036672003147 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1036672003148 DNA-binding site [nucleotide binding]; DNA binding site 1036672003149 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1036672003150 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1036672003151 FAD binding domain; Region: FAD_binding_4; pfam01565 1036672003152 biotin synthase; Region: bioB; TIGR00433 1036672003153 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 1036672003154 FeS/SAM binding site; other site 1036672003155 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 1036672003156 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 1036672003157 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 1036672003158 substrate binding pocket [chemical binding]; other site 1036672003159 membrane-bound complex binding site; other site 1036672003160 hinge residues; other site 1036672003161 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1036672003162 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672003163 dimer interface [polypeptide binding]; other site 1036672003164 conserved gate region; other site 1036672003165 putative PBP binding loops; other site 1036672003166 ABC-ATPase subunit interface; other site 1036672003167 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672003168 dimer interface [polypeptide binding]; other site 1036672003169 conserved gate region; other site 1036672003170 putative PBP binding loops; other site 1036672003171 ABC-ATPase subunit interface; other site 1036672003172 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 1036672003173 active site 1036672003174 Zn binding site [ion binding]; other site 1036672003175 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 1036672003176 dimer interface [polypeptide binding]; other site 1036672003177 ADP-ribose binding site [chemical binding]; other site 1036672003178 active site 1036672003179 nudix motif; other site 1036672003180 metal binding site [ion binding]; metal-binding site 1036672003181 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 1036672003182 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 1036672003183 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1036672003184 putative active site [active] 1036672003185 catalytic site [active] 1036672003186 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 1036672003187 putative active site [active] 1036672003188 catalytic site [active] 1036672003189 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1036672003190 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1036672003191 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 1036672003192 DNA binding site [nucleotide binding] 1036672003193 active site 1036672003194 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 1036672003195 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1036672003196 putative active site [active] 1036672003197 catalytic residue [active] 1036672003198 galactarate dehydratase; Region: galactar-dH20; TIGR03248 1036672003199 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 1036672003200 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 1036672003201 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1036672003202 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1036672003203 DNA-binding site [nucleotide binding]; DNA binding site 1036672003204 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1036672003205 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 1036672003206 putative substrate binding site [chemical binding]; other site 1036672003207 putative ATP binding site [chemical binding]; other site 1036672003208 YodA lipocalin-like domain; Region: YodA; pfam09223 1036672003209 short chain dehydrogenase; Provisional; Region: PRK12744 1036672003210 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1036672003211 NAD(P) binding site [chemical binding]; other site 1036672003212 active site 1036672003213 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1036672003214 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672003215 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 1036672003216 putative effector binding pocket; other site 1036672003217 putative dimerization interface [polypeptide binding]; other site 1036672003218 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1036672003219 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1036672003220 Predicted membrane protein [Function unknown]; Region: COG3212 1036672003221 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1036672003222 Uncharacterized conserved protein [Function unknown]; Region: COG4544 1036672003223 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 1036672003224 active site 1036672003225 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 1036672003226 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 1036672003227 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 1036672003228 generic binding surface II; other site 1036672003229 generic binding surface I; other site 1036672003230 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 1036672003231 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1036672003232 putative active site [active] 1036672003233 catalytic triad [active] 1036672003234 putative dimer interface [polypeptide binding]; other site 1036672003235 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 1036672003236 Transporter associated domain; Region: CorC_HlyC; smart01091 1036672003237 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 1036672003238 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 1036672003239 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1036672003240 PhoH-like protein; Region: PhoH; pfam02562 1036672003241 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 1036672003242 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1036672003243 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 1036672003244 FeS/SAM binding site; other site 1036672003245 TRAM domain; Region: TRAM; pfam01938 1036672003246 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 1036672003247 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1036672003248 Protein export membrane protein; Region: SecD_SecF; pfam02355 1036672003249 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 1036672003250 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1036672003251 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK12933 1036672003252 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 1036672003253 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1036672003254 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 1036672003255 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1036672003256 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1036672003257 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1036672003258 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1036672003259 potential frameshift: common BLAST hit: gi|332285317|ref|YP_004417228.1| D-alanyl-D-alanine carboxypeptidase 1036672003260 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1036672003261 active site 1036672003262 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 1036672003263 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 1036672003264 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1036672003265 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 1036672003266 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1036672003267 catalytic residue [active] 1036672003268 aminotransferase; Validated; Region: PRK07337 1036672003269 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 1036672003270 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1036672003271 homodimer interface [polypeptide binding]; other site 1036672003272 catalytic residue [active] 1036672003273 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 1036672003274 active site 1036672003275 nucleophile elbow; other site 1036672003276 Barstar is an intracellular inhibitor of barnase, an extracellular ribonuclease of Bacillus amyloliquefaciens. Barstar binds tightly to the barnase active site and sterically blocks it, thus inhibiting its potentially lethal RNase activity inside the...; Region: Barstar_like; cl01048 1036672003277 RNAase interaction site [polypeptide binding]; other site 1036672003278 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 1036672003279 nudix motif; other site 1036672003280 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 1036672003281 RNA methyltransferase, RsmE family; Region: TIGR00046 1036672003282 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 1036672003283 TPP-binding site [chemical binding]; other site 1036672003284 dimer interface [polypeptide binding]; other site 1036672003285 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 1036672003286 PYR/PP interface [polypeptide binding]; other site 1036672003287 dimer interface [polypeptide binding]; other site 1036672003288 TPP binding site [chemical binding]; other site 1036672003289 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1036672003290 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 1036672003291 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1036672003292 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1036672003293 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 1036672003294 Phosphoglycerate kinase; Region: PGK; pfam00162 1036672003295 substrate binding site [chemical binding]; other site 1036672003296 hinge regions; other site 1036672003297 ADP binding site [chemical binding]; other site 1036672003298 catalytic site [active] 1036672003299 potential frameshift: common BLAST hit: gi|94312462|ref|YP_585672.1| large extracellular alpha-helicalprotein 1036672003300 potential frameshift: common BLAST hit: gi|332284614|ref|YP_004416525.1| alpha-2-macroglobulin 1036672003301 potential frameshift: common BLAST hit: gi|339327708|ref|YP_004687401.1| large extracellular alpha-helical protein 1036672003302 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 1036672003303 Transglycosylase; Region: Transgly; pfam00912 1036672003304 Transglycosylase; Region: Transgly; cl17702 1036672003305 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1036672003306 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 1036672003307 potential frameshift: common BLAST hit: gi|319778526|ref|YP_004129439.1| hydrolase 1036672003308 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 1036672003309 MPT binding site; other site 1036672003310 trimer interface [polypeptide binding]; other site 1036672003311 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 1036672003312 intersubunit interface [polypeptide binding]; other site 1036672003313 active site 1036672003314 zinc binding site [ion binding]; other site 1036672003315 Na+ binding site [ion binding]; other site 1036672003316 Protein of unknown function (DUF1044); Region: DUF1044; pfam06296 1036672003317 Predicted transcriptional regulator [Transcription]; Region: COG2944 1036672003318 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 1036672003319 non-specific DNA binding site [nucleotide binding]; other site 1036672003320 salt bridge; other site 1036672003321 sequence-specific DNA binding site [nucleotide binding]; other site 1036672003322 potential frameshift: common BLAST hit: gi|311108232|ref|YP_003981085.1| phosphoribosylaminoimidazole-succinocarboxamide synthase 1036672003323 AIR carboxylase; Region: AIRC; pfam00731 1036672003324 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1036672003325 ATP-grasp domain; Region: ATP-grasp; pfam02222 1036672003326 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 1036672003327 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 1036672003328 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1036672003329 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 1036672003330 metal binding site [ion binding]; metal-binding site 1036672003331 putative dimer interface [polypeptide binding]; other site 1036672003332 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1036672003333 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1036672003334 Spore Coat Protein U domain; Region: SCPU; pfam05229 1036672003335 potential frameshift: common BLAST hit: gi|311279582|ref|YP_003941813.1| fimbrial biogenesis outer membrane usher protein 1036672003336 Spore Coat Protein U domain; Region: SCPU; pfam05229 1036672003337 Spore Coat Protein U domain; Region: SCPU; pfam05229 1036672003338 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 1036672003339 DNA photolyase; Region: DNA_photolyase; pfam00875 1036672003340 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1036672003341 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1036672003342 potential frameshift: common BLAST hit: gi|311106112|ref|YP_003978965.1| glyoxalase/bleomycin resistance protein/dioxygenase superfamily 1036672003343 Peptide arylation enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntE; COG1021 1036672003344 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1036672003345 acyl-activating enzyme (AAE) consensus motif; other site 1036672003346 AMP binding site [chemical binding]; other site 1036672003347 active site 1036672003348 CoA binding site [chemical binding]; other site 1036672003349 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 1036672003350 active site 1036672003351 hypothetical protein; Provisional; Region: PRK07588 1036672003352 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1036672003353 hypothetical protein; Provisional; Region: PRK07236 1036672003354 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672003355 MarR family; Region: MarR_2; cl17246 1036672003356 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1036672003357 citrate-proton symporter; Provisional; Region: PRK15075 1036672003358 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1036672003359 putative substrate translocation pore; other site 1036672003360 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1036672003361 DmpA/OAT superfamily; composed of L-aminopeptidase D-amidase/D-esterase (DmpA), ornithine acetyltransferase (OAT) and similar proteins. DmpA is an aminopeptidase that releases N-terminal D and L amino acids from peptide substrates. This group represents...; Region: DmpA_OAT; cl00603 1036672003362 active site pocket [active] 1036672003363 cleavage site 1036672003364 DmpA/OAT superfamily; composed of L-aminopeptidase D-amidase/D-esterase (DmpA), ornithine acetyltransferase (OAT) and similar proteins. DmpA is an aminopeptidase that releases N-terminal D and L amino acids from peptide substrates. This group represents...; Region: DmpA_OAT; cl00603 1036672003365 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1036672003366 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 1036672003367 non-specific DNA binding site [nucleotide binding]; other site 1036672003368 salt bridge; other site 1036672003369 sequence-specific DNA binding site [nucleotide binding]; other site 1036672003370 Cupin domain; Region: Cupin_2; pfam07883 1036672003371 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 1036672003372 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1036672003373 substrate binding pocket [chemical binding]; other site 1036672003374 membrane-bound complex binding site; other site 1036672003375 hinge residues; other site 1036672003376 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1036672003377 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672003378 dimer interface [polypeptide binding]; other site 1036672003379 conserved gate region; other site 1036672003380 putative PBP binding loops; other site 1036672003381 ABC-ATPase subunit interface; other site 1036672003382 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1036672003383 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1036672003384 Walker A/P-loop; other site 1036672003385 ATP binding site [chemical binding]; other site 1036672003386 Q-loop/lid; other site 1036672003387 ABC transporter signature motif; other site 1036672003388 Walker B; other site 1036672003389 D-loop; other site 1036672003390 H-loop/switch region; other site 1036672003391 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1036672003392 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1036672003393 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1036672003394 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 1036672003395 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 1036672003396 putative ligand binding site [chemical binding]; other site 1036672003397 NAD binding site [chemical binding]; other site 1036672003398 dimerization interface [polypeptide binding]; other site 1036672003399 catalytic site [active] 1036672003400 Cupin domain; Region: Cupin_2; cl17218 1036672003401 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 1036672003402 putative active site [active] 1036672003403 dimerization interface [polypeptide binding]; other site 1036672003404 putative tRNAtyr binding site [nucleotide binding]; other site 1036672003405 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1036672003406 Apolipoprotein O; Region: ApoO; pfam09769 1036672003407 LrgB-like family; Region: LrgB; cl00596 1036672003408 LrgB-like family; Region: LrgB; cl00596 1036672003409 LrgA family; Region: LrgA; cl00608 1036672003410 succinic semialdehyde dehydrogenase; Region: PLN02278 1036672003411 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1036672003412 tetramerization interface [polypeptide binding]; other site 1036672003413 NAD(P) binding site [chemical binding]; other site 1036672003414 catalytic residues [active] 1036672003415 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 1036672003416 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 1036672003417 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 1036672003418 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 1036672003419 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1036672003420 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1036672003421 tetrameric interface [polypeptide binding]; other site 1036672003422 NAD binding site [chemical binding]; other site 1036672003423 catalytic residues [active] 1036672003424 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1036672003425 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 1036672003426 putative ligand binding site [chemical binding]; other site 1036672003427 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1036672003428 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672003429 The 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 1036672003430 dimerization interface [polypeptide binding]; other site 1036672003431 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1036672003432 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 1036672003433 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1036672003434 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1036672003435 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 1036672003436 Peptidase M15; Region: Peptidase_M15_3; cl01194 1036672003437 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1036672003438 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1036672003439 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1036672003440 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1036672003441 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1036672003442 Coenzyme A binding pocket [chemical binding]; other site 1036672003443 Putative rRNA methylase; Region: rRNA_methylase; pfam06962 1036672003444 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 1036672003445 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1036672003446 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 1036672003447 putative ligand binding site [chemical binding]; other site 1036672003448 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1036672003449 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1036672003450 Walker A/P-loop; other site 1036672003451 ATP binding site [chemical binding]; other site 1036672003452 Q-loop/lid; other site 1036672003453 ABC transporter signature motif; other site 1036672003454 Walker B; other site 1036672003455 D-loop; other site 1036672003456 H-loop/switch region; other site 1036672003457 potential frameshift: common BLAST hit: gi|73541026|ref|YP_295546.1| ABC transporter 1036672003458 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1036672003459 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 1036672003460 TM-ABC transporter signature motif; other site 1036672003461 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1036672003462 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 1036672003463 TM-ABC transporter signature motif; other site 1036672003464 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1036672003465 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1036672003466 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1036672003467 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1036672003468 benzoate-CoA ligase family; Region: benz_CoA_lig; TIGR02262 1036672003469 Benzoate CoA ligase (BCL) and 4-Hydroxybenzoate-Coenzyme A Ligase (4-HBA-CoA ligase); Region: BCL_4HBCL; cd05959 1036672003470 dimer interface [polypeptide binding]; other site 1036672003471 acyl-activating enzyme (AAE) consensus motif; other site 1036672003472 putative active site [active] 1036672003473 putative AMP binding site [chemical binding]; other site 1036672003474 putative CoA binding site [chemical binding]; other site 1036672003475 chemical substrate binding site [chemical binding]; other site 1036672003476 anaerobic benzoate catabolism transcriptional regulator; Reviewed; Region: PRK08154 1036672003477 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 1036672003478 non-specific DNA binding site [nucleotide binding]; other site 1036672003479 salt bridge; other site 1036672003480 sequence-specific DNA binding site [nucleotide binding]; other site 1036672003481 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 1036672003482 ADP binding site [chemical binding]; other site 1036672003483 magnesium binding site [ion binding]; other site 1036672003484 putative shikimate binding site; other site 1036672003485 benzoyl-CoA-dihydrodiol lyase; Provisional; Region: PRK08184 1036672003486 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 1036672003487 substrate binding site [chemical binding]; other site 1036672003488 oxyanion hole (OAH) forming residues; other site 1036672003489 trimer interface [polypeptide binding]; other site 1036672003490 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 1036672003491 substrate binding site [chemical binding]; other site 1036672003492 oxyanion hole (OAH) forming residues; other site 1036672003493 trimer interface [polypeptide binding]; other site 1036672003494 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 1036672003495 benzoyl-CoA oxygenase/reductase, BoxA protein; Region: benzo_boxA; TIGR03224 1036672003496 4Fe-4S binding domain; Region: Fer4; pfam00037 1036672003497 4Fe-4S binding domain; Region: Fer4_6; pfam12837 1036672003498 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 1036672003499 dimerization interface [polypeptide binding]; other site 1036672003500 FAD binding pocket [chemical binding]; other site 1036672003501 FAD binding motif [chemical binding]; other site 1036672003502 catalytic residues [active] 1036672003503 NAD binding pocket [chemical binding]; other site 1036672003504 phosphate binding motif [ion binding]; other site 1036672003505 beta-alpha-beta structure motif; other site 1036672003506 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1036672003507 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 1036672003508 substrate binding pocket [chemical binding]; other site 1036672003509 membrane-bound complex binding site; other site 1036672003510 hinge residues; other site 1036672003511 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672003512 dimer interface [polypeptide binding]; other site 1036672003513 conserved gate region; other site 1036672003514 putative PBP binding loops; other site 1036672003515 ABC-ATPase subunit interface; other site 1036672003516 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672003517 dimer interface [polypeptide binding]; other site 1036672003518 conserved gate region; other site 1036672003519 putative PBP binding loops; other site 1036672003520 ABC-ATPase subunit interface; other site 1036672003521 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1036672003522 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1036672003523 Walker A/P-loop; other site 1036672003524 ATP binding site [chemical binding]; other site 1036672003525 Q-loop/lid; other site 1036672003526 ABC transporter signature motif; other site 1036672003527 Walker B; other site 1036672003528 D-loop; other site 1036672003529 H-loop/switch region; other site 1036672003530 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 1036672003531 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 1036672003532 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 1036672003533 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1036672003534 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1036672003535 DNA-binding site [nucleotide binding]; DNA binding site 1036672003536 FCD domain; Region: FCD; pfam07729 1036672003537 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK06111 1036672003538 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1036672003539 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1036672003540 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1036672003541 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 1036672003542 carboxyltransferase (CT) interaction site; other site 1036672003543 biotinylation site [posttranslational modification]; other site 1036672003544 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1036672003545 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1036672003546 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1036672003547 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 1036672003548 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1036672003549 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1036672003550 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1036672003551 Domain of unknown function DUF108; Region: DUF108; pfam01958 1036672003552 potential frameshift: common BLAST hit: gi|386844749|ref|YP_006249807.1| putative drug/metabolite transporter (DMT) superfamily permease 1036672003553 CsbD-like; Region: CsbD; cl17424 1036672003554 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 1036672003555 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1036672003556 dinuclear metal binding motif [ion binding]; other site 1036672003557 D-inositol-3-phosphate glycosyltransferase; Region: mycothiol_MshA; TIGR03449 1036672003558 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 1036672003559 putative ADP-binding pocket [chemical binding]; other site 1036672003560 short chain dehydrogenase; Provisional; Region: PRK08219 1036672003561 classical (c) SDRs; Region: SDR_c; cd05233 1036672003562 NAD(P) binding site [chemical binding]; other site 1036672003563 active site 1036672003564 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 1036672003565 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 1036672003566 active site 1036672003567 motif I; other site 1036672003568 motif II; other site 1036672003569 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1036672003570 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 1036672003571 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 1036672003572 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1036672003573 putative active site [active] 1036672003574 potential frameshift: common BLAST hit: gi|163856699|ref|YP_001630997.1| carboxyl-/carbamoyltransferase 1036672003575 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 1036672003576 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1036672003577 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 1036672003578 active site 1036672003579 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 1036672003580 potential frameshift: common BLAST hit: gi|186474031|ref|YP_001861373.1| glycosyl transferase family protein 1036672003581 potential frameshift: common BLAST hit: gi|163856702|ref|YP_001631000.1| glycosyltransferase 1036672003582 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1036672003583 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1036672003584 NAD(P) binding site [chemical binding]; other site 1036672003585 active site 1036672003586 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 1036672003587 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1036672003588 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1036672003589 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 1036672003590 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1036672003591 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 1036672003592 active site 1036672003593 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 1036672003594 short chain dehydrogenase; Provisional; Region: PRK06701 1036672003595 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 1036672003596 NAD binding site [chemical binding]; other site 1036672003597 metal binding site [ion binding]; metal-binding site 1036672003598 active site 1036672003599 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1036672003600 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1036672003601 catalytic site [active] 1036672003602 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 1036672003603 putative active site [active] 1036672003604 putative catalytic site [active] 1036672003605 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 1036672003606 alpha-gamma subunit interface [polypeptide binding]; other site 1036672003607 beta-gamma subunit interface [polypeptide binding]; other site 1036672003608 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; cl00533 1036672003609 urease subunit alpha; Reviewed; Region: ureC; PRK13206 1036672003610 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 1036672003611 subunit interactions [polypeptide binding]; other site 1036672003612 active site 1036672003613 flap region; other site 1036672003614 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 1036672003615 UreF; Region: UreF; pfam01730 1036672003616 UreD urease accessory protein; Region: UreD; pfam01774 1036672003617 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 1036672003618 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 1036672003619 potential frameshift: common BLAST hit: gi|33600412|ref|NP_887972.1| glutaryl-CoA dehydrogenase 1036672003620 potential frameshift: common BLAST hit: gi|384203931|ref|YP_005589670.1| glutaryl-CoA dehydrogenase 1036672003621 potential frameshift: common BLAST hit: gi|163857877|ref|YP_001632175.1| LysR family transcriptional regulator 1036672003622 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1036672003623 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1036672003624 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1036672003625 PapC C-terminal domain; Region: PapC_C; pfam13953 1036672003626 PapC N-terminal domain; Region: PapC_N; pfam13954 1036672003627 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1036672003628 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1036672003629 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1036672003630 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1036672003631 Domain of unknown function (DUF4180); Region: DUF4180; pfam13788 1036672003632 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 1036672003633 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1036672003634 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1036672003635 putative active site [active] 1036672003636 putative substrate binding site [chemical binding]; other site 1036672003637 putative cosubstrate binding site; other site 1036672003638 catalytic site [active] 1036672003639 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1036672003640 Predicted dehydrogenase [General function prediction only]; Region: COG0579 1036672003641 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 1036672003642 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1036672003643 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl15777 1036672003644 dimerization interface [polypeptide binding]; other site 1036672003645 putative active site pocket [active] 1036672003646 putative catalytic residue [active] 1036672003647 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 1036672003648 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 1036672003649 putative ATP binding site [chemical binding]; other site 1036672003650 putative substrate interface [chemical binding]; other site 1036672003651 Uncharacterized protein conserved in bacteria (DUF2239); Region: DUF2239; cl01461 1036672003652 Uncharacterized protein conserved in bacteria (DUF2239); Region: DUF2239; pfam09998 1036672003653 potential frameshift: common BLAST hit: gi|187479281|ref|YP_787306.1| excinuclease ABC subunit 1036672003654 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 1036672003655 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1036672003656 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1036672003657 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 1036672003658 active site 1036672003659 potential frameshift: common BLAST hit: gi|311104183|ref|YP_003977036.1| ABC transporter 1036672003660 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 1036672003661 potential frameshift: common BLAST hit: gi|319778513|ref|YP_004129426.1| ABC transport ATP-binding subunit 1036672003662 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1036672003663 H-loop/switch region; other site 1036672003664 cell division topological specificity factor MinE; Provisional; Region: PRK13989 1036672003665 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 1036672003666 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 1036672003667 Switch I; other site 1036672003668 Switch II; other site 1036672003669 potential frameshift: common BLAST hit: gi|187479261|ref|YP_787286.1| septum formation inhibitor 1036672003670 potential frameshift: common BLAST hit: gi|33598094|ref|NP_885737.1| glutaminyl-tRNA synthetase 1036672003671 potential frameshift: common BLAST hit: gi|33602987|ref|NP_890547.1| glutaminyl-tRNA synthetase 1036672003672 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 1036672003673 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1036672003674 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1036672003675 potential frameshift: common BLAST hit: gi|384205430|ref|YP_005591169.1| two-component sensor kinase 1036672003676 osmolarity response regulator; Provisional; Region: ompR; PRK09468 1036672003677 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1036672003678 active site 1036672003679 phosphorylation site [posttranslational modification] 1036672003680 intermolecular recognition site; other site 1036672003681 dimerization interface [polypeptide binding]; other site 1036672003682 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 1036672003683 DNA binding site [nucleotide binding] 1036672003684 TATA element modulatory factor 1 TATA binding; Region: TMF_TATA_bd; pfam12325 1036672003685 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 1036672003686 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 1036672003687 Substrate binding site; other site 1036672003688 metal-binding site 1036672003689 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 1036672003690 Phosphotransferase enzyme family; Region: APH; pfam01636 1036672003691 potential frameshift: common BLAST hit: gi|332283294|ref|YP_004415205.1| LPS-export associated outer membrane porin 1036672003692 potential frameshift: common BLAST hit: gi|348590603|ref|YP_004875065.1| peptidyl-prolyl cis-trans isomerase SurA 1036672003693 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1036672003694 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 1036672003695 S-adenosylmethionine binding site [chemical binding]; other site 1036672003696 Glycerate kinase family; Region: Gly_kinase; cl00841 1036672003697 Glycerate kinase family; Region: Gly_kinase; cl00841 1036672003698 Glycerate kinase family; Region: Gly_kinase; cl00841 1036672003699 potential frameshift: common BLAST hit: gi|311104082|ref|YP_003976935.1| pyruvate kinase 1036672003700 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 1036672003701 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1036672003702 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1036672003703 dimer interface [polypeptide binding]; other site 1036672003704 active site 1036672003705 metal binding site [ion binding]; metal-binding site 1036672003706 glutathione binding site [chemical binding]; other site 1036672003707 Protein of unknown function DUF45; Region: DUF45; pfam01863 1036672003708 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1036672003709 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1036672003710 putative acyl-acceptor binding pocket; other site 1036672003711 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 1036672003712 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 1036672003713 active site 1036672003714 motif I; other site 1036672003715 motif II; other site 1036672003716 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1036672003717 DALR anticodon binding domain; Region: DALR_1; pfam05746 1036672003718 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 1036672003719 dimer interface [polypeptide binding]; other site 1036672003720 motif 1; other site 1036672003721 active site 1036672003722 motif 2; other site 1036672003723 motif 3; other site 1036672003724 potential frameshift: common BLAST hit: gi|33603056|ref|NP_890616.1| enoyl-CoA hydratase 1036672003725 potential frameshift: common BLAST hit: gi|187477220|ref|YP_785244.1| fumarate hydratase 1036672003726 Uncharacterized enzymes similar to novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like-1; cd12808 1036672003727 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1036672003728 catalytic site [active] 1036672003729 potential frameshift: common BLAST hit: gi|226939596|ref|YP_002794669.1| binding protein component of ABC dipeptide transporter 1036672003730 potential frameshift: common BLAST hit: gi|319779186|ref|YP_004130099.1| Dipeptide transport system permease DppB 1036672003731 dipeptide transporter; Provisional; Region: PRK10913 1036672003732 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672003733 dimer interface [polypeptide binding]; other site 1036672003734 conserved gate region; other site 1036672003735 putative PBP binding loops; other site 1036672003736 ABC-ATPase subunit interface; other site 1036672003737 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 1036672003738 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1036672003739 Walker A/P-loop; other site 1036672003740 ATP binding site [chemical binding]; other site 1036672003741 Q-loop/lid; other site 1036672003742 ABC transporter signature motif; other site 1036672003743 Walker B; other site 1036672003744 D-loop; other site 1036672003745 H-loop/switch region; other site 1036672003746 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1036672003747 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 1036672003748 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1036672003749 Walker A/P-loop; other site 1036672003750 ATP binding site [chemical binding]; other site 1036672003751 Q-loop/lid; other site 1036672003752 ABC transporter signature motif; other site 1036672003753 Walker B; other site 1036672003754 D-loop; other site 1036672003755 H-loop/switch region; other site 1036672003756 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1036672003757 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 1036672003758 catalytic center binding site [active] 1036672003759 ATP binding site [chemical binding]; other site 1036672003760 poly(A) polymerase; Region: pcnB; TIGR01942 1036672003761 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1036672003762 active site 1036672003763 NTP binding site [chemical binding]; other site 1036672003764 metal binding triad [ion binding]; metal-binding site 1036672003765 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1036672003766 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 1036672003767 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1036672003768 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1036672003769 potential frameshift: common BLAST hit: gi|33603035|ref|NP_890595.1| DnaA regulatory inactivator Hda 1036672003770 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1036672003771 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1036672003772 potential frameshift: common BLAST hit: gi|187477232|ref|YP_785256.1| phosphoribosylaminoimidazole synthetase 1036672003773 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1036672003774 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1036672003775 potential frameshift: common BLAST hit: gi|33598139|ref|NP_885782.1| DNA mismatch repair protein 1036672003776 N-acetylmuramoyl-l-alanine amidase II; Provisional; Region: PRK10431 1036672003777 AMIN domain; Region: AMIN; pfam11741 1036672003778 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 1036672003779 active site 1036672003780 metal binding site [ion binding]; metal-binding site 1036672003781 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 1036672003782 Predicted permeases [General function prediction only]; Region: COG0679 1036672003783 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 1036672003784 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 1036672003785 active site 1036672003786 Int/Topo IB signature motif; other site 1036672003787 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 1036672003788 putative deacylase active site [active] 1036672003789 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1036672003790 Protein of unknown function (DUF1634); Region: DUF1634; pfam07843 1036672003791 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1036672003792 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1036672003793 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1036672003794 DNA-binding site [nucleotide binding]; DNA binding site 1036672003795 UTRA domain; Region: UTRA; pfam07702 1036672003796 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1036672003797 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 1036672003798 putative DNA binding site [nucleotide binding]; other site 1036672003799 putative Zn2+ binding site [ion binding]; other site 1036672003800 AsnC family; Region: AsnC_trans_reg; pfam01037 1036672003801 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 1036672003802 potential frameshift: common BLAST hit: gi|311108181|ref|YP_003981034.1| UvrD/Rep helicase family protein 2 1036672003803 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 1036672003804 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 1036672003805 Walker A motif; other site 1036672003806 ATP binding site [chemical binding]; other site 1036672003807 Walker B motif; other site 1036672003808 arginine finger; other site 1036672003809 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1036672003810 hypothetical protein; Validated; Region: PRK00153 1036672003811 recombination protein RecR; Reviewed; Region: recR; PRK00076 1036672003812 RecR protein; Region: RecR; pfam02132 1036672003813 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 1036672003814 putative active site [active] 1036672003815 putative metal-binding site [ion binding]; other site 1036672003816 tetramer interface [polypeptide binding]; other site 1036672003817 Class I aldolases; Region: Aldolase_Class_I; cl17187 1036672003818 potential frameshift: common BLAST hit: gi|311108163|ref|YP_003981016.1| transaldolase 1036672003819 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1036672003820 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1036672003821 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1036672003822 catalytic site [active] 1036672003823 subunit interface [polypeptide binding]; other site 1036672003824 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1036672003825 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1036672003826 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1036672003827 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1036672003828 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1036672003829 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1036672003830 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 1036672003831 IMP binding site; other site 1036672003832 dimer interface [polypeptide binding]; other site 1036672003833 interdomain contacts; other site 1036672003834 partial ornithine binding site; other site 1036672003835 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 1036672003836 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 1036672003837 heme binding site [chemical binding]; other site 1036672003838 ferroxidase pore; other site 1036672003839 ferroxidase diiron center [ion binding]; other site 1036672003840 short chain dehydrogenase; Provisional; Region: PRK07024 1036672003841 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1036672003842 NAD(P) binding site [chemical binding]; other site 1036672003843 active site 1036672003844 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 1036672003845 catalytic core [active] 1036672003846 potential frameshift: common BLAST hit: gi|33596676|ref|NP_884319.1| xanthine/uracil family permease 1036672003847 potential frameshift: common BLAST hit: gi|348590529|ref|YP_004874991.1| Uracil permease 1036672003848 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1036672003849 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1036672003850 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1036672003851 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 1036672003852 FtsJ-like methyltransferase; Region: FtsJ; cl17430 1036672003853 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 1036672003854 FtsH Extracellular; Region: FtsH_ext; pfam06480 1036672003855 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1036672003856 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 1036672003857 Walker A motif; other site 1036672003858 ATP binding site [chemical binding]; other site 1036672003859 Walker B motif; other site 1036672003860 arginine finger; other site 1036672003861 Peptidase family M41; Region: Peptidase_M41; pfam01434 1036672003862 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 1036672003863 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 1036672003864 substrate binding pocket [chemical binding]; other site 1036672003865 dimer interface [polypeptide binding]; other site 1036672003866 inhibitor binding site; inhibition site 1036672003867 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 1036672003868 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 1036672003869 active site 1036672003870 substrate binding site [chemical binding]; other site 1036672003871 metal binding site [ion binding]; metal-binding site 1036672003872 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 1036672003873 guanosine pentaphosphate phosphohydrolase; Provisional; Region: PRK11031 1036672003874 exopolyphosphatase; Region: exo_poly_only; TIGR03706 1036672003875 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1036672003876 potential frameshift: common BLAST hit: gi|332283369|ref|YP_004415280.1| polyphosphate kinase 1036672003877 PBP superfamily domain; Region: PBP_like_2; cl17296 1036672003878 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672003879 dimer interface [polypeptide binding]; other site 1036672003880 conserved gate region; other site 1036672003881 putative PBP binding loops; other site 1036672003882 ABC-ATPase subunit interface; other site 1036672003883 potential frameshift: common BLAST hit: gi|33600453|ref|NP_888013.1| phosphate ABC transporter permease 1036672003884 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 1036672003885 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1036672003886 Walker A/P-loop; other site 1036672003887 ATP binding site [chemical binding]; other site 1036672003888 Q-loop/lid; other site 1036672003889 ABC transporter signature motif; other site 1036672003890 Walker B; other site 1036672003891 D-loop; other site 1036672003892 H-loop/switch region; other site 1036672003893 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 1036672003894 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 1036672003895 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 1036672003896 DNA binding residues [nucleotide binding] 1036672003897 dimer interface [polypeptide binding]; other site 1036672003898 putative metal binding site [ion binding]; other site 1036672003899 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 1036672003900 metal-binding site [ion binding] 1036672003901 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1036672003902 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1036672003903 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1036672003904 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1036672003905 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1036672003906 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 1036672003907 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 1036672003908 N-terminal plug; other site 1036672003909 ligand-binding site [chemical binding]; other site 1036672003910 Lysine/ornithine N-monooxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: IucD; COG3486 1036672003911 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1036672003912 potential frameshift: common BLAST hit: gi|295701149|ref|YP_003610150.1| major facilitator superfamily MFS_1 1036672003913 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 1036672003914 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 1036672003915 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 1036672003916 IucA / IucC family; Region: IucA_IucC; pfam04183 1036672003917 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 1036672003918 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1036672003919 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 1036672003920 iron-sulfur cluster [ion binding]; other site 1036672003921 [2Fe-2S] cluster binding site [ion binding]; other site 1036672003922 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 1036672003923 alpha subunit interface [polypeptide binding]; other site 1036672003924 active site 1036672003925 substrate binding site [chemical binding]; other site 1036672003926 Fe binding site [ion binding]; other site 1036672003927 potential frameshift: common BLAST hit: gi|163857648|ref|YP_001631946.1| LysR family transcriptional regulator 1036672003928 potential frameshift: common BLAST hit: gi|89898940|ref|YP_521411.1| LysR family transcriptional regulator 1036672003929 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 1036672003930 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 1036672003931 catalytic residues [active] 1036672003932 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 1036672003933 catalytic residues [active] 1036672003934 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 1036672003935 intersubunit interface [polypeptide binding]; other site 1036672003936 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 1036672003937 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 1036672003938 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1036672003939 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1036672003940 Walker A/P-loop; other site 1036672003941 ATP binding site [chemical binding]; other site 1036672003942 Q-loop/lid; other site 1036672003943 ABC transporter signature motif; other site 1036672003944 Walker B; other site 1036672003945 D-loop; other site 1036672003946 H-loop/switch region; other site 1036672003947 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1036672003948 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 1036672003949 putative PBP binding regions; other site 1036672003950 ABC-ATPase subunit interface; other site 1036672003951 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 1036672003952 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 1036672003953 potential frameshift: common BLAST hit: gi|333900011|ref|YP_004473884.1| propeptide PepSY amd peptidase M4 1036672003954 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 1036672003955 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 1036672003956 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 1036672003957 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1036672003958 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1036672003959 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 1036672003960 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1036672003961 active site 1036672003962 Inhibitor of vertebrate lysozyme (Ivy); Region: Ivy; cl07428 1036672003963 Beta-lactamase; Region: Beta-lactamase; cl17358 1036672003964 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1036672003965 Beta-lactamase; Region: Beta-lactamase; cl17358 1036672003966 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1036672003967 Hint domain; Region: Hint_2; pfam13403 1036672003968 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 1036672003969 potential frameshift: common BLAST hit: gi|170740889|ref|YP_001769544.1| molybdopterin binding aldehyde oxidase and xanthine dehydrogenase 1036672003970 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 1036672003971 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 1036672003972 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1036672003973 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 1036672003974 catalytic loop [active] 1036672003975 iron binding site [ion binding]; other site 1036672003976 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1036672003977 Low affinity iron permease; Region: Iron_permease; pfam04120 1036672003978 potential frameshift: common BLAST hit: gi|311108639|ref|YP_003981492.1| 2-nitropropane dioxygenase 1036672003979 Bacterial transcriptional regulator; Region: IclR; pfam01614 1036672003980 potential frameshift: common BLAST hit: gi|311108637|ref|YP_003981490.1| alcohol dehydrogenase 1036672003981 potential frameshift: common BLAST hit: gi|311108636|ref|YP_003981489.1| aldehyde dehydrogenase 1036672003982 potential frameshift: common BLAST hit: gi|311108635|ref|YP_003981488.1| extra-cytoplasmic solute receptor family protein 147 1036672003983 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 1036672003984 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1036672003985 NAD(P) binding site [chemical binding]; other site 1036672003986 active site 1036672003987 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 1036672003988 active site 2 [active] 1036672003989 active site 1 [active] 1036672003990 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 1036672003991 CoA binding domain; Region: CoA_binding_2; pfam13380 1036672003992 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 1036672003993 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 1036672003994 Citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CCL cleaves citryl-CoA (CiCoA) to acetyl-CoA (AcCoA) and oxaloacetate (OAA); Region: CCL_ACL-C; cd06100 1036672003995 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1036672003996 active site 1036672003997 oxalacetate binding site [chemical binding]; other site 1036672003998 citrylCoA binding site [chemical binding]; other site 1036672003999 coenzyme A binding site [chemical binding]; other site 1036672004000 catalytic triad [active] 1036672004001 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1036672004002 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1036672004003 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1036672004004 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1036672004005 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1036672004006 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1036672004007 active site 1036672004008 phosphorylation site [posttranslational modification] 1036672004009 intermolecular recognition site; other site 1036672004010 dimerization interface [polypeptide binding]; other site 1036672004011 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 1036672004012 DNA binding site [nucleotide binding] 1036672004013 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 1036672004014 dimerization interface [polypeptide binding]; other site 1036672004015 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 1036672004016 dimer interface [polypeptide binding]; other site 1036672004017 phosphorylation site [posttranslational modification] 1036672004018 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1036672004019 ATP binding site [chemical binding]; other site 1036672004020 Mg2+ binding site [ion binding]; other site 1036672004021 G-X-G motif; other site 1036672004022 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1036672004023 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1036672004024 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1036672004025 Walker A/P-loop; other site 1036672004026 ATP binding site [chemical binding]; other site 1036672004027 Q-loop/lid; other site 1036672004028 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 1036672004029 Enolase C-terminal domain-like; Region: MR_MLE_C; pfam13378 1036672004030 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 1036672004031 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672004032 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1036672004033 potential frameshift: common BLAST hit: gi|121604572|ref|YP_981901.1| FAD-dependent pyridine nucleotide-disulfide oxidoreductase 1036672004034 Cytochrome c; Region: Cytochrom_C; cl11414 1036672004035 HAMP domain; Region: HAMP; pfam00672 1036672004036 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 1036672004037 dimer interface [polypeptide binding]; other site 1036672004038 phosphorylation site [posttranslational modification] 1036672004039 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1036672004040 ATP binding site [chemical binding]; other site 1036672004041 Mg2+ binding site [ion binding]; other site 1036672004042 G-X-G motif; other site 1036672004043 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 1036672004044 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1036672004045 active site 1036672004046 phosphorylation site [posttranslational modification] 1036672004047 intermolecular recognition site; other site 1036672004048 dimerization interface [polypeptide binding]; other site 1036672004049 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 1036672004050 DNA binding site [nucleotide binding] 1036672004051 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 1036672004052 Moco binding site; other site 1036672004053 metal coordination site [ion binding]; other site 1036672004054 Cytochrome c; Region: Cytochrom_C; pfam00034 1036672004055 Cytochrome c; Region: Cytochrom_C; cl11414 1036672004056 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 1036672004057 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 1036672004058 Cytochrome c [Energy production and conversion]; Region: COG3258 1036672004059 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 1036672004060 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1036672004061 catalytic residues [active] 1036672004062 Thermus thermophilus SoxB and related proteins, N-terminal metallophosphatase domain; Region: MPP_SoxB_N; cd07411 1036672004063 active site 1036672004064 metal binding site [ion binding]; metal-binding site 1036672004065 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 1036672004066 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1036672004067 DsrE/DsrF-like family; Region: DrsE; cl00672 1036672004068 Protein of unknown function (DUF3455); Region: DUF3455; pfam11937 1036672004069 RNA polymerase sigma factor; Provisional; Region: PRK12537 1036672004070 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1036672004071 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 1036672004072 DNA binding residues [nucleotide binding] 1036672004073 Anti-sigma-K factor rskA; Region: RskA; pfam10099 1036672004074 potential frameshift: common BLAST hit: gi|332285138|ref|YP_004417049.1| outer membrane protein 1036672004075 potential frameshift: common BLAST hit: gi|332285137|ref|YP_004417048.1| cobaltochelatase subunit CobN 1036672004076 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1036672004077 Uncharacterized conserved protein (DUF2149); Region: DUF2149; cl01960 1036672004078 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 1036672004079 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1036672004080 DNA-binding site [nucleotide binding]; DNA binding site 1036672004081 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 1036672004082 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1036672004083 homodimer interface [polypeptide binding]; other site 1036672004084 catalytic residue [active] 1036672004085 potential frameshift: common BLAST hit: gi|332285077|ref|YP_004416988.1| cytochrome C oxidase subunit transmembrane protein 1036672004086 potential frameshift: common BLAST hit: gi|330824247|ref|YP_004387550.1| cytochrome C oxidase mono-heme subunit/FixO 1036672004087 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1036672004088 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 1036672004089 Cu(I) binding site [ion binding]; other site 1036672004090 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1036672004091 MarR family; Region: MarR; pfam01047 1036672004092 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1036672004093 hypothetical protein; Provisional; Region: PRK06184 1036672004094 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 1036672004095 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 1036672004096 metal binding triad [ion binding]; metal-binding site 1036672004097 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1036672004098 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1036672004099 putative substrate translocation pore; other site 1036672004100 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 1036672004101 dimerization interface [polypeptide binding]; other site 1036672004102 putative DNA binding site [nucleotide binding]; other site 1036672004103 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1036672004104 putative Zn2+ binding site [ion binding]; other site 1036672004105 potential frameshift: common BLAST hit: gi|264679890|ref|YP_003279799.1| Twin-arginine translocation pathway signal 1036672004106 enoyl-CoA hydratase; Provisional; Region: PRK06210 1036672004107 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 1036672004108 substrate binding site [chemical binding]; other site 1036672004109 oxyanion hole (OAH) forming residues; other site 1036672004110 trimer interface [polypeptide binding]; other site 1036672004111 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 1036672004112 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1036672004113 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1036672004114 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1036672004115 NAD(P) binding site [chemical binding]; other site 1036672004116 catalytic residues [active] 1036672004117 potential frameshift: common BLAST hit: gi|333913381|ref|YP_004487113.1| enoyl-CoA hydratase/isomerase 1036672004118 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 1036672004119 CoA binding domain; Region: CoA_binding_2; pfam13380 1036672004120 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 1036672004121 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 1036672004122 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672004123 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1036672004124 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672004125 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 1036672004126 putative dimerization interface [polypeptide binding]; other site 1036672004127 potential frameshift: common BLAST hit: gi|311105743|ref|YP_003978596.1| ABC transporter CydDC cysteine exporter family permease/ATP-binding 1036672004128 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1036672004129 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 1036672004130 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1036672004131 PYR/PP interface [polypeptide binding]; other site 1036672004132 dimer interface [polypeptide binding]; other site 1036672004133 TPP binding site [chemical binding]; other site 1036672004134 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1036672004135 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 1036672004136 TPP-binding site; other site 1036672004137 dimer interface [polypeptide binding]; other site 1036672004138 Sulfatase; Region: Sulfatase; cl17466 1036672004139 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1036672004140 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1036672004141 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672004142 The 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 1036672004143 dimerization interface [polypeptide binding]; other site 1036672004144 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 1036672004145 Predicted transcriptional regulators [Transcription]; Region: COG1733 1036672004146 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1036672004147 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672004148 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 1036672004149 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 1036672004150 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 1036672004151 substrate binding site [chemical binding]; other site 1036672004152 oxyanion hole (OAH) forming residues; other site 1036672004153 trimer interface [polypeptide binding]; other site 1036672004154 Bacterial transcriptional regulator; Region: IclR; pfam01614 1036672004155 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1036672004156 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1036672004157 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1036672004158 active site 1036672004159 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 1036672004160 acetate--CoA ligase; Region: Ac_CoA_lig_AcsA; TIGR02188 1036672004161 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 1036672004162 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1036672004163 acyl-activating enzyme (AAE) consensus motif; other site 1036672004164 AMP binding site [chemical binding]; other site 1036672004165 active site 1036672004166 CoA binding site [chemical binding]; other site 1036672004167 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1036672004168 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1036672004169 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1036672004170 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 1036672004171 FMN-binding pocket [chemical binding]; other site 1036672004172 flavin binding motif; other site 1036672004173 phosphate binding motif [ion binding]; other site 1036672004174 beta-alpha-beta structure motif; other site 1036672004175 NAD binding pocket [chemical binding]; other site 1036672004176 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 1036672004177 catalytic loop [active] 1036672004178 iron binding site [ion binding]; other site 1036672004179 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1036672004180 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1036672004181 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1036672004182 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1036672004183 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1036672004184 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1036672004185 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1036672004186 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672004187 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1036672004188 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 1036672004189 trimer interface [polypeptide binding]; other site 1036672004190 eyelet of channel; other site 1036672004191 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1036672004192 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1036672004193 putative substrate translocation pore; other site 1036672004194 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1036672004195 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1036672004196 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1036672004197 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 1036672004198 Universal stress protein family; Region: Usp; pfam00582 1036672004199 Ligand Binding Site [chemical binding]; other site 1036672004200 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 1036672004201 Ligand Binding Site [chemical binding]; other site 1036672004202 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1036672004203 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 1036672004204 DNA binding site [nucleotide binding] 1036672004205 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 1036672004206 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 1036672004207 NAD(P) binding site [chemical binding]; other site 1036672004208 triosephosphate isomerase; Provisional; Region: PRK14567 1036672004209 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 1036672004210 substrate binding site [chemical binding]; other site 1036672004211 dimer interface [polypeptide binding]; other site 1036672004212 catalytic triad [active] 1036672004213 Preprotein translocase SecG subunit; Region: SecG; pfam03840 1036672004214 azurin; Region: azurin; TIGR02695 1036672004215 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1036672004216 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 1036672004217 trimer interface [polypeptide binding]; other site 1036672004218 eyelet of channel; other site 1036672004219 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 1036672004220 NADH dehydrogenase subunit B; Validated; Region: PRK06411 1036672004221 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 1036672004222 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 1036672004223 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 1036672004224 NADH dehydrogenase subunit D; Validated; Region: PRK06075 1036672004225 NADH dehydrogenase subunit E; Validated; Region: PRK07539 1036672004226 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 1036672004227 putative dimer interface [polypeptide binding]; other site 1036672004228 [2Fe-2S] cluster binding site [ion binding]; other site 1036672004229 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 1036672004230 SLBB domain; Region: SLBB; pfam10531 1036672004231 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 1036672004232 NADH dehydrogenase subunit G; Validated; Region: PRK09129 1036672004233 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 1036672004234 catalytic loop [active] 1036672004235 iron binding site [ion binding]; other site 1036672004236 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1036672004237 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 1036672004238 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cd02775 1036672004239 potential frameshift: common BLAST hit: gi|187477548|ref|YP_785572.1| NADH dehydrogenase subunit H 1036672004240 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 1036672004241 4Fe-4S binding domain; Region: Fer4; pfam00037 1036672004242 4Fe-4S binding domain; Region: Fer4; pfam00037 1036672004243 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 1036672004244 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 1036672004245 potential frameshift: common BLAST hit: gi|311104669|ref|YP_003977522.1| NADH-quinone oxidoreductase chain 12 1036672004246 potential frameshift: common BLAST hit: gi|163855999|ref|YP_001630297.1| NADH dehydrogenase subunit M 1036672004247 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 1036672004248 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1036672004249 Protein of unknown function (DUF2818); Region: DUF2818; pfam10993 1036672004250 Protein of unknown function (DUF2818); Region: DUF2818; pfam10993 1036672004251 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1036672004252 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1036672004253 active site 1036672004254 catalytic site [active] 1036672004255 substrate binding site [chemical binding]; other site 1036672004256 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 1036672004257 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 1036672004258 ligand binding site [chemical binding]; other site 1036672004259 flexible hinge region; other site 1036672004260 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 1036672004261 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1036672004262 metal binding triad; other site 1036672004263 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_5; cd07238 1036672004264 dimer interface [polypeptide binding]; other site 1036672004265 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1036672004266 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 1036672004267 putative C-terminal domain interface [polypeptide binding]; other site 1036672004268 putative GSH binding site (G-site) [chemical binding]; other site 1036672004269 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1036672004270 putative dimer interface [polypeptide binding]; other site 1036672004271 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 1036672004272 dimer interface [polypeptide binding]; other site 1036672004273 N-terminal domain interface [polypeptide binding]; other site 1036672004274 putative substrate binding pocket (H-site) [chemical binding]; other site 1036672004275 phosphoserine phosphatase SerB; Region: serB; TIGR00338 1036672004276 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 1036672004277 motif II; other site 1036672004278 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1036672004279 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1036672004280 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 1036672004281 ATP binding site [chemical binding]; other site 1036672004282 putative Mg++ binding site [ion binding]; other site 1036672004283 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 1036672004284 nucleotide binding region [chemical binding]; other site 1036672004285 ATP-binding site [chemical binding]; other site 1036672004286 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1036672004287 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1036672004288 substrate binding site; other site 1036672004289 dimer interface; other site 1036672004290 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 1036672004291 homotrimer interaction site [polypeptide binding]; other site 1036672004292 zinc binding site [ion binding]; other site 1036672004293 CDP-binding sites; other site 1036672004294 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1036672004295 alkylhydroperoxidase, AhpD family; Region: ahpD; TIGR00777 1036672004296 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1036672004297 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 1036672004298 dimer interface [polypeptide binding]; other site 1036672004299 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1036672004300 catalytic triad [active] 1036672004301 peroxidatic and resolving cysteines [active] 1036672004302 potential frameshift: common BLAST hit: gi|311104681|ref|YP_003977534.1| RisS protein 1036672004303 osmolarity response regulator; Provisional; Region: ompR; PRK09468 1036672004304 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1036672004305 active site 1036672004306 phosphorylation site [posttranslational modification] 1036672004307 intermolecular recognition site; other site 1036672004308 dimerization interface [polypeptide binding]; other site 1036672004309 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 1036672004310 DNA binding site [nucleotide binding] 1036672004311 potential frameshift: common BLAST hit: gi|311104683|ref|YP_003977536.1| ribosomal-protein-alanine acetyltransferase 1036672004312 potential frameshift: common BLAST hit: gi|311104683|ref|YP_003977536.1| ribosomal-protein-alanine acetyltransferase 1036672004313 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 1036672004314 Fe-S cluster binding site [ion binding]; other site 1036672004315 active site 1036672004316 lysophospholipid transporter LplT; Provisional; Region: PRK11195 1036672004317 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1036672004318 putative substrate translocation pore; other site 1036672004319 potential frameshift: common BLAST hit: gi|33602781|ref|NP_890341.1| chromosome partition protein 1036672004320 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 1036672004321 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1036672004322 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 1036672004323 nucleotide binding pocket [chemical binding]; other site 1036672004324 K-X-D-G motif; other site 1036672004325 catalytic site [active] 1036672004326 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1036672004327 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1036672004328 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 1036672004329 Dimer interface [polypeptide binding]; other site 1036672004330 SurA N-terminal domain; Region: SurA_N_3; cl07813 1036672004331 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1036672004332 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 1036672004333 intracellular septation protein A; Reviewed; Region: PRK00259 1036672004334 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1036672004335 SelR domain; Region: SelR; pfam01641 1036672004336 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1036672004337 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 1036672004338 putative ligand binding site [chemical binding]; other site 1036672004339 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1036672004340 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 1036672004341 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1036672004342 TM-ABC transporter signature motif; other site 1036672004343 potential frameshift: common BLAST hit: gi|187477581|ref|YP_785605.1| branched-chain amino acid ABC transporter ATP-binding/permease 1036672004344 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1036672004345 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1036672004346 Walker A/P-loop; other site 1036672004347 ATP binding site [chemical binding]; other site 1036672004348 Q-loop/lid; other site 1036672004349 ABC transporter signature motif; other site 1036672004350 Walker B; other site 1036672004351 D-loop; other site 1036672004352 H-loop/switch region; other site 1036672004353 potential frameshift: common BLAST hit: gi|330502629|ref|YP_004379498.1| major facilitator superfamily transporter 1036672004354 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 1036672004355 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg6; cd04781 1036672004356 DNA binding residues [nucleotide binding] 1036672004357 putative dimer interface [polypeptide binding]; other site 1036672004358 putative metal binding residues [ion binding]; other site 1036672004359 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1036672004360 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1036672004361 minor groove reading motif; other site 1036672004362 helix-hairpin-helix signature motif; other site 1036672004363 substrate binding pocket [chemical binding]; other site 1036672004364 active site 1036672004365 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 1036672004366 ferredoxin; Provisional; Region: PRK08764 1036672004367 Putative Fe-S cluster; Region: FeS; cl17515 1036672004368 4Fe-4S binding domain; Region: Fer4; pfam00037 1036672004369 potential frameshift: common BLAST hit: gi|384205746|ref|YP_005591485.1| intracellular PHB depolymerase 1036672004370 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 1036672004371 ferredoxin-NADP reductase; Provisional; Region: PRK10926 1036672004372 FAD binding pocket [chemical binding]; other site 1036672004373 FAD binding motif [chemical binding]; other site 1036672004374 phosphate binding motif [ion binding]; other site 1036672004375 beta-alpha-beta structure motif; other site 1036672004376 NAD binding pocket [chemical binding]; other site 1036672004377 Ferredoxin [Energy production and conversion]; Region: COG1146 1036672004378 4Fe-4S binding domain; Region: Fer4; cl02805 1036672004379 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 1036672004380 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 1036672004381 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 1036672004382 active site 1036672004383 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 1036672004384 homotrimer interaction site [polypeptide binding]; other site 1036672004385 putative active site [active] 1036672004386 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 1036672004387 HD domain; Region: HD_4; pfam13328 1036672004388 (p)ppGpp synthetase, RelA/SpoT family; Region: spoT_relA; TIGR00691 1036672004389 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1036672004390 synthetase active site [active] 1036672004391 NTP binding site [chemical binding]; other site 1036672004392 metal binding site [ion binding]; metal-binding site 1036672004393 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 1036672004394 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1036672004395 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1036672004396 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 1036672004397 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1036672004398 catalytic residue [active] 1036672004399 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 1036672004400 active site 1036672004401 catalytic residues [active] 1036672004402 heterodimer interface [polypeptide binding]; other site 1036672004403 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1036672004404 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1036672004405 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1036672004406 MarR family; Region: MarR_2; pfam12802 1036672004407 potential frameshift: common BLAST hit: gi|264678496|ref|YP_003278403.1| monooxygenase, FAD-binding protein 1036672004408 potential frameshift: common BLAST hit: gi|311109275|ref|YP_003982128.1| extra-cytoplasmic solute receptor family protein 174 1036672004409 potential frameshift: common BLAST hit: gi|311109275|ref|YP_003982128.1| extra-cytoplasmic solute receptor family protein 174 1036672004410 potential frameshift: common BLAST hit: gi|332284962|ref|YP_004416873.1| ribonuclease E 1036672004411 potential frameshift: common BLAST hit: gi|33602744|ref|NP_890304.1| ribonuclease E 1036672004412 potential frameshift: common BLAST hit: gi|187477608|ref|YP_785632.1| ribosomal large subunit pseudouridine synthase C 1036672004413 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1036672004414 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 1036672004415 motif II; other site 1036672004416 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 1036672004417 Moco binding site; other site 1036672004418 metal coordination site [ion binding]; other site 1036672004419 TMAO/DMSO reductase; Reviewed; Region: PRK05363 1036672004420 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 1036672004421 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1036672004422 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 1036672004423 amidase catalytic site [active] 1036672004424 Zn binding residues [ion binding]; other site 1036672004425 substrate binding site [chemical binding]; other site 1036672004426 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1036672004427 Maf-like protein; Region: Maf; pfam02545 1036672004428 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 1036672004429 active site 1036672004430 dimer interface [polypeptide binding]; other site 1036672004431 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 1036672004432 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 1036672004433 putative phosphate acyltransferase; Provisional; Region: PRK05331 1036672004434 potential frameshift: common BLAST hit: gi|163856063|ref|YP_001630361.1| 3-oxoacyl-ACP synthase 1036672004435 potential frameshift: common BLAST hit: gi|332284947|ref|YP_004416858.1| malonyl CoA-acyl carrier protein transacylase 1036672004436 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1036672004437 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 1036672004438 NAD(P) binding site [chemical binding]; other site 1036672004439 active site 1036672004440 acyl carrier protein; Provisional; Region: acpP; PRK00982 1036672004441 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 1036672004442 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 1036672004443 dimer interface [polypeptide binding]; other site 1036672004444 active site 1036672004445 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 1036672004446 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1036672004447 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 1036672004448 DNA binding residues [nucleotide binding] 1036672004449 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 1036672004450 anti-sigma E factor; Provisional; Region: rseB; PRK09455 1036672004451 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 1036672004452 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1036672004453 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1036672004454 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 1036672004455 protein binding site [polypeptide binding]; other site 1036672004456 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 1036672004457 protein binding site [polypeptide binding]; other site 1036672004458 GTP-binding protein LepA; Provisional; Region: PRK05433 1036672004459 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1036672004460 G1 box; other site 1036672004461 putative GEF interaction site [polypeptide binding]; other site 1036672004462 GTP/Mg2+ binding site [chemical binding]; other site 1036672004463 Switch I region; other site 1036672004464 G2 box; other site 1036672004465 G3 box; other site 1036672004466 Switch II region; other site 1036672004467 G4 box; other site 1036672004468 G5 box; other site 1036672004469 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 1036672004470 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 1036672004471 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1036672004472 signal peptidase I; Provisional; Region: PRK10861 1036672004473 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 1036672004474 Catalytic site [active] 1036672004475 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 1036672004476 ribonuclease III; Reviewed; Region: rnc; PRK00102 1036672004477 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 1036672004478 dimerization interface [polypeptide binding]; other site 1036672004479 active site 1036672004480 metal binding site [ion binding]; metal-binding site 1036672004481 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 1036672004482 potential frameshift: common BLAST hit: gi|332284935|ref|YP_004416846.1| GTP-binding protein 1036672004483 potential frameshift: common BLAST hit: gi|163856076|ref|YP_001630374.1| DNA repair protein RecO 1036672004484 conserved hypothetical protein; Region: TIGR02231 1036672004485 N-terminal domain of unknown function (DUF4140); Region: DUF4140; pfam13600 1036672004486 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 1036672004487 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672004488 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1036672004489 YccA-like proteins; Region: YccA_like; cd10433 1036672004490 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 1036672004491 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1036672004492 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 1036672004493 interface (dimer of trimers) [polypeptide binding]; other site 1036672004494 Substrate-binding/catalytic site; other site 1036672004495 Zn-binding sites [ion binding]; other site 1036672004496 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12684 1036672004497 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672004498 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 1036672004499 substrate binding site [chemical binding]; other site 1036672004500 dimerization interface [polypeptide binding]; other site 1036672004501 AMP-binding enzyme; Region: AMP-binding; pfam00501 1036672004502 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1036672004503 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1036672004504 acyl-activating enzyme (AAE) consensus motif; other site 1036672004505 putative AMP binding site [chemical binding]; other site 1036672004506 putative active site [active] 1036672004507 putative CoA binding site [chemical binding]; other site 1036672004508 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1036672004509 Chalcone-flavanone isomerase; Region: Chalcone; cl03589 1036672004510 potential frameshift: common BLAST hit: gi|163857725|ref|YP_001632023.1| long-chain fatty acid transport protein 1036672004511 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 1036672004512 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1036672004513 trimer interface [polypeptide binding]; other site 1036672004514 oxyanion hole (OAH) forming residues; other site 1036672004515 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1036672004516 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 1036672004517 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1036672004518 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 1036672004519 acetyl-CoA acetyltransferase; Provisional; Region: PRK08170 1036672004520 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 1036672004521 dimer interface [polypeptide binding]; other site 1036672004522 active site 1036672004523 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 1036672004524 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1036672004525 active site 1036672004526 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 1036672004527 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 1036672004528 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1036672004529 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; cl01811 1036672004530 NlpC/P60 family; Region: NLPC_P60; pfam00877 1036672004531 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1036672004532 acetyl-CoA synthetase; Provisional; Region: PRK00174 1036672004533 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1036672004534 AMP-binding enzyme; Region: AMP-binding; pfam00501 1036672004535 acyl-activating enzyme (AAE) consensus motif; other site 1036672004536 active site 1036672004537 AMP binding site [chemical binding]; other site 1036672004538 CoA binding site [chemical binding]; other site 1036672004539 acetyl-CoA synthetase; Provisional; Region: PRK00174 1036672004540 potential frameshift: common BLAST hit: gi|332284916|ref|YP_004416827.1| electron transfer flavoprotein-ubiquinone oxidoreductase 1036672004541 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 1036672004542 active site 1036672004543 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 1036672004544 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 1036672004545 Predicted transcriptional regulators [Transcription]; Region: COG1733 1036672004546 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1036672004547 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 1036672004548 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1036672004549 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1036672004550 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1036672004551 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 1036672004552 active site 1036672004553 Predicted membrane protein [Function unknown]; Region: COG2855 1036672004554 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1036672004555 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672004556 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 1036672004557 putative dimerization interface [polypeptide binding]; other site 1036672004558 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1036672004559 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1036672004560 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1036672004561 putative substrate translocation pore; other site 1036672004562 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 1036672004563 cation binding site [ion binding]; other site 1036672004564 potential frameshift: common BLAST hit: gi|332284884|ref|YP_004416795.1| PMT family glycosyltransferase 1036672004565 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 1036672004566 tryptophan 2,3-dioxygenase; Region: trp_2_3_diox; TIGR03036 1036672004567 Kynureninase [Amino acid transport and metabolism]; Region: COG3844 1036672004568 kynureninase; Region: kynureninase; TIGR01814 1036672004569 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1036672004570 catalytic residue [active] 1036672004571 Putative cyclase; Region: Cyclase; cl00814 1036672004572 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1036672004573 MPN+ (JAMM) motif; other site 1036672004574 Zinc-binding site [ion binding]; other site 1036672004575 hypothetical protein; Reviewed; Region: PRK00024 1036672004576 potential frameshift: common BLAST hit: gi|311104976|ref|YP_003977829.1| FKBP-type peptidyl-prolyl cis-trans isomerase family protein 1036672004577 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 1036672004578 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 1036672004579 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 1036672004580 maleylacetoacetate isomerase; Region: maiA; TIGR01262 1036672004581 C-terminal domain interface [polypeptide binding]; other site 1036672004582 GSH binding site (G-site) [chemical binding]; other site 1036672004583 putative dimer interface [polypeptide binding]; other site 1036672004584 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 1036672004585 dimer interface [polypeptide binding]; other site 1036672004586 N-terminal domain interface [polypeptide binding]; other site 1036672004587 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 1036672004588 Maf-like protein; Region: Maf; pfam02545 1036672004589 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 1036672004590 active site 1036672004591 dimer interface [polypeptide binding]; other site 1036672004592 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 1036672004593 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 1036672004594 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1036672004595 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1036672004596 active site 1036672004597 (T/H)XGH motif; other site 1036672004598 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1036672004599 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1036672004600 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1036672004601 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1036672004602 hypothetical protein; Validated; Region: PRK00110 1036672004603 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 1036672004604 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 1036672004605 Walker A motif; other site 1036672004606 ATP binding site [chemical binding]; other site 1036672004607 MarR family; Region: MarR_2; cl17246 1036672004608 potential frameshift: common BLAST hit: gi|163857382|ref|YP_001631680.1| quinone oxidoreductase 1036672004609 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672004610 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 1036672004611 The 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 1036672004612 dimerization interface [polypeptide binding]; other site 1036672004613 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 1036672004614 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1036672004615 active site 1036672004616 catalytic tetrad [active] 1036672004617 fructose-1,6-bisphosphatase; Provisional; Region: PRK09293 1036672004618 potential frameshift: common BLAST hit: gi|311105099|ref|YP_003977952.1| fructose-1,6-bisphosphatase, chromosomal 1036672004619 potential frameshift: common BLAST hit: gi|311105100|ref|YP_003977953.1| aminopeptidase N 1036672004620 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 1036672004621 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 1036672004622 potential frameshift: common BLAST hit: gi|187478646|ref|YP_786670.1| protease, modulator of DNA gyrase 1036672004623 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 1036672004624 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1036672004625 potential frameshift: common BLAST hit: gi|311105106|ref|YP_003977959.1| glycolate oxidase subunit GlcD 1036672004626 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 1036672004627 FAD binding domain; Region: FAD_binding_4; pfam01565 1036672004628 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 1036672004629 Cysteine-rich domain; Region: CCG; pfam02754 1036672004630 Cysteine-rich domain; Region: CCG; pfam02754 1036672004631 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 1036672004632 tRNA-specific 2-thiouridylase MnmA; Provisional; Region: PRK14664 1036672004633 adenylosuccinate lyase; Provisional; Region: PRK09285 1036672004634 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 1036672004635 tetramer interface [polypeptide binding]; other site 1036672004636 active site 1036672004637 Cytochrome C' Region: Cytochrom_C_2; pfam01322 1036672004638 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 1036672004639 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 1036672004640 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 1036672004641 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 1036672004642 active site 1036672004643 FMN binding site [chemical binding]; other site 1036672004644 substrate binding site [chemical binding]; other site 1036672004645 3Fe-4S cluster binding site [ion binding]; other site 1036672004646 CDP-diacylglycerol pyrophosphatase; Region: CDH; cl00934 1036672004647 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1036672004648 putative substrate translocation pore; other site 1036672004649 microbial_RNases. Ribonucleases (RNAses) cleave phosphodiester bonds in RNA and are essential for both non-specific RNA degradation and for numerous forms of RNA processing. The alignment contains fungal RNases (U2, T1, F1, Th, Pb, N1, and Ms) and...; Region: microbial_RNases; cl00212 1036672004650 active site 1036672004651 Barstar is an intracellular inhibitor of barnase, an extracellular ribonuclease of Bacillus amyloliquefaciens. Barstar binds tightly to the barnase active site and sterically blocks it, thus inhibiting its potentially lethal RNase activity inside the...; Region: Barstar_like; cl01048 1036672004652 RNAase interaction site [polypeptide binding]; other site 1036672004653 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 1036672004654 serine/threonine transporter SstT; Provisional; Region: PRK13628 1036672004655 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1036672004656 Predicted membrane protein [Function unknown]; Region: COG2323 1036672004657 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 1036672004658 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1036672004659 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1036672004660 active site 1036672004661 phosphorylation site [posttranslational modification] 1036672004662 intermolecular recognition site; other site 1036672004663 dimerization interface [polypeptide binding]; other site 1036672004664 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 1036672004665 DNA binding site [nucleotide binding] 1036672004666 potential frameshift: common BLAST hit: gi|33599367|ref|NP_886927.1| sensor kinase 1036672004667 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1036672004668 Coenzyme A binding pocket [chemical binding]; other site 1036672004669 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1036672004670 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 1036672004671 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1036672004672 catalytic residue [active] 1036672004673 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1036672004674 potential frameshift: common BLAST hit: gi|348589934|ref|YP_004874396.1| Tail-specific protease 1036672004675 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1036672004676 HlyD family secretion protein; Region: HlyD_3; pfam13437 1036672004677 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1036672004678 potential frameshift: common BLAST hit: gi|121606790|ref|YP_984119.1| acriflavin resistance protein 1036672004679 dTDP-4-dehydrorhamnose reductase; Provisional; Region: PRK09987 1036672004680 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1036672004681 NADP binding site [chemical binding]; other site 1036672004682 active site 1036672004683 putative substrate binding site [chemical binding]; other site 1036672004684 Protein of unknown function (DUF1415); Region: DUF1415; pfam07209 1036672004685 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1036672004686 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1036672004687 ligand binding site [chemical binding]; other site 1036672004688 phosphoglycolate phosphatase; Provisional; Region: PRK13226 1036672004689 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 1036672004690 motif II; other site 1036672004691 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 1036672004692 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 1036672004693 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 1036672004694 S-adenosylmethionine binding site [chemical binding]; other site 1036672004695 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1036672004696 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1036672004697 ligand binding site [chemical binding]; other site 1036672004698 DNA gyrase subunit A; Validated; Region: PRK05560 1036672004699 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 1036672004700 CAP-like domain; other site 1036672004701 active site 1036672004702 primary dimer interface [polypeptide binding]; other site 1036672004703 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1036672004704 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1036672004705 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1036672004706 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1036672004707 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1036672004708 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1036672004709 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 1036672004710 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1036672004711 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1036672004712 catalytic residue [active] 1036672004713 potential frameshift: common BLAST hit: gi|33592103|ref|NP_879747.1| p-protein [includes: chorismate mutase and prephenate 1036672004714 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 1036672004715 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 1036672004716 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1036672004717 homodimer interface [polypeptide binding]; other site 1036672004718 catalytic residue [active] 1036672004719 Prephenate dehydrogenase; Region: PDH; pfam02153 1036672004720 prephenate dehydrogenase; Validated; Region: PRK08507 1036672004721 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 1036672004722 active site 1036672004723 hinge; other site 1036672004724 cytidylate kinase; Provisional; Region: cmk; PRK00023 1036672004725 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 1036672004726 CMP-binding site; other site 1036672004727 The sites determining sugar specificity; other site 1036672004728 potential frameshift: common BLAST hit: gi|163856200|ref|YP_001630498.1| 30S ribosomal protein S1 1036672004729 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 1036672004730 IHF dimer interface [polypeptide binding]; other site 1036672004731 IHF - DNA interface [nucleotide binding]; other site 1036672004732 potential frameshift: common BLAST hit: gi|33602437|ref|NP_889997.1| tetratricopeptide repeat protein 1036672004733 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 1036672004734 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1036672004735 putative ribose interaction site [chemical binding]; other site 1036672004736 putative ADP binding site [chemical binding]; other site 1036672004737 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 1036672004738 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 1036672004739 NADP binding site [chemical binding]; other site 1036672004740 homopentamer interface [polypeptide binding]; other site 1036672004741 substrate binding site [chemical binding]; other site 1036672004742 active site 1036672004743 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 1036672004744 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 1036672004745 cysteine synthase B; Region: cysM; TIGR01138 1036672004746 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 1036672004747 dimer interface [polypeptide binding]; other site 1036672004748 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1036672004749 catalytic residue [active] 1036672004750 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1036672004751 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1036672004752 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 1036672004753 potential frameshift: common BLAST hit: gi|194289963|ref|YP_002005870.1| cbb3-type cytochrome C oxidase subunit i 1036672004754 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 1036672004755 potential frameshift: common BLAST hit: gi|319779324|ref|YP_004130237.1| Cytochrome c oxidase subunit CcoN 1036672004756 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 1036672004757 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 1036672004758 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 1036672004759 Cbb3-type cytochrome oxidase component FixQ; Region: FixQ; pfam05545 1036672004760 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 1036672004761 Cytochrome c; Region: Cytochrom_C; cl11414 1036672004762 Cytochrome c; Region: Cytochrom_C; pfam00034 1036672004763 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1036672004764 potential frameshift: common BLAST hit: gi|311107540|ref|YP_003980393.1| cytochrome C oxidase accessory protein CcoG 1036672004765 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 1036672004766 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 1036672004767 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 1036672004768 ligand binding site [chemical binding]; other site 1036672004769 flexible hinge region; other site 1036672004770 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 1036672004771 putative switch regulator; other site 1036672004772 non-specific DNA interactions [nucleotide binding]; other site 1036672004773 DNA binding site [nucleotide binding] 1036672004774 sequence specific DNA binding site [nucleotide binding]; other site 1036672004775 putative cAMP binding site [chemical binding]; other site 1036672004776 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1036672004777 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1036672004778 Walker A/P-loop; other site 1036672004779 ATP binding site [chemical binding]; other site 1036672004780 Q-loop/lid; other site 1036672004781 ABC transporter signature motif; other site 1036672004782 Walker B; other site 1036672004783 D-loop; other site 1036672004784 H-loop/switch region; other site 1036672004785 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1036672004786 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1036672004787 Walker A/P-loop; other site 1036672004788 ATP binding site [chemical binding]; other site 1036672004789 Q-loop/lid; other site 1036672004790 ABC transporter signature motif; other site 1036672004791 Walker B; other site 1036672004792 D-loop; other site 1036672004793 H-loop/switch region; other site 1036672004794 potential frameshift: common BLAST hit: gi|384204287|ref|YP_005590026.1| putative branched-chain amino acid transport system permease 1036672004795 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1036672004796 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_Arsenic_SBP_like; cd06330 1036672004797 putative ligand binding site [chemical binding]; other site 1036672004798 LysE type translocator; Region: LysE; cl00565 1036672004799 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672004800 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1036672004801 putative septicolysin, cholesterol-dependent cytolysin family and related proteins; Region: septicolysin_like; cd12208 1036672004802 oligomer interface [polypeptide binding]; other site 1036672004803 Protein of unknown function (DUF465); Region: DUF465; cl01070 1036672004804 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1036672004805 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1036672004806 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 1036672004807 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1036672004808 catalytic residue [active] 1036672004809 benzoate transporter; Region: benE; TIGR00843 1036672004810 benzoate transporter; Region: benE; TIGR00843 1036672004811 LexA repressor; Validated; Region: PRK00215 1036672004812 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 1036672004813 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 1036672004814 Catalytic site [active] 1036672004815 potential frameshift: common BLAST hit: gi|187478006|ref|YP_786030.1| aromatic amino acid aminotransferase 1036672004816 excinuclease ABC subunit B; Provisional; Region: PRK05298 1036672004817 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 1036672004818 ATP binding site [chemical binding]; other site 1036672004819 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 1036672004820 nucleotide binding region [chemical binding]; other site 1036672004821 ATP-binding site [chemical binding]; other site 1036672004822 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1036672004823 UvrB/uvrC motif; Region: UVR; pfam02151 1036672004824 recombination associated protein; Reviewed; Region: rdgC; PRK00321 1036672004825 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 1036672004826 RecA/RadA recombinase [DNA replication, recombination, and repair]; Region: RecA; COG0468 1036672004827 hexamer interface [polypeptide binding]; other site 1036672004828 Walker A motif; other site 1036672004829 ATP binding site [chemical binding]; other site 1036672004830 Walker B motif; other site 1036672004831 recombination regulator RecX; Reviewed; Region: recX; PRK00117 1036672004832 cyclopropane fatty acyl phospholipid synthase; Provisional; Region: PRK11705 1036672004833 Domain of unknown function (DUF4220); Region: DUF4220; pfam13968 1036672004834 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 1036672004835 S-adenosylmethionine binding site [chemical binding]; other site 1036672004836 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 1036672004837 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672004838 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 1036672004839 putative dimerization interface [polypeptide binding]; other site 1036672004840 potential frameshift: common BLAST hit: gi|33597216|ref|NP_884859.1| 5-methyltetrahydropteroyltriglutamate/homocysteine 1036672004841 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 1036672004842 potential frameshift: common BLAST hit: gi|384204818|ref|YP_005590557.1| succinyl-CoA synthetase subunit beta 1036672004843 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1036672004844 CoA binding domain; Region: CoA_binding; smart00881 1036672004845 CoA-ligase; Region: Ligase_CoA; pfam00549 1036672004846 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 1036672004847 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 1036672004848 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1036672004849 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 1036672004850 domain interfaces; other site 1036672004851 active site 1036672004852 potential frameshift: common BLAST hit: gi|33597223|ref|NP_884866.1| uroporphyrinogen-III synthase 1036672004853 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 1036672004854 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 1036672004855 HemY protein N-terminus; Region: HemY_N; pfam07219 1036672004856 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 1036672004857 binding surface 1036672004858 TPR motif; other site 1036672004859 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 1036672004860 dimer interface [polypeptide binding]; other site 1036672004861 substrate binding site [chemical binding]; other site 1036672004862 metal binding sites [ion binding]; metal-binding site 1036672004863 potential frameshift: common BLAST hit: gi|163856281|ref|YP_001630579.1| transcription termination factor Rho 1036672004864 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 1036672004865 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1036672004866 catalytic residues [active] 1036672004867 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 1036672004868 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 1036672004869 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 1036672004870 anchoring element; other site 1036672004871 dimer interface [polypeptide binding]; other site 1036672004872 ATP binding site [chemical binding]; other site 1036672004873 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 1036672004874 active site 1036672004875 metal binding site [ion binding]; metal-binding site 1036672004876 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1036672004877 potential frameshift: common BLAST hit: gi|33596502|ref|NP_884145.1| DNA topoisomerase IV subunit A 1036672004878 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 1036672004879 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 1036672004880 catalytic loop [active] 1036672004881 iron binding site [ion binding]; other site 1036672004882 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 1036672004883 FAD binding pocket [chemical binding]; other site 1036672004884 FAD binding motif [chemical binding]; other site 1036672004885 phosphate binding motif [ion binding]; other site 1036672004886 beta-alpha-beta structure motif; other site 1036672004887 NAD binding pocket [chemical binding]; other site 1036672004888 potential frameshift: common BLAST hit: gi|187478846|ref|YP_786870.1| alanyl-tRNA synthetase 1036672004889 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 1036672004890 CPxP motif; other site 1036672004891 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1036672004892 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1036672004893 RimM N-terminal domain; Region: RimM; pfam01782 1036672004894 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1036672004895 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1036672004896 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1036672004897 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 1036672004898 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1036672004899 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 1036672004900 active site 1036672004901 Predicted transcriptional regulator [Transcription]; Region: COG1959 1036672004902 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 1036672004903 cysteine desulfurase; Provisional; Region: PRK14012 1036672004904 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1036672004905 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1036672004906 catalytic residue [active] 1036672004907 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1036672004908 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1036672004909 trimerization site [polypeptide binding]; other site 1036672004910 active site 1036672004911 iron-sulfur cluster assembly protein IscA; Region: IscA; TIGR02011 1036672004912 co-chaperone HscB; Provisional; Region: hscB; PRK03578 1036672004913 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 1036672004914 HSP70 interaction site [polypeptide binding]; other site 1036672004915 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 1036672004916 chaperone protein HscA; Provisional; Region: hscA; PRK05183 1036672004917 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 1036672004918 nucleotide binding site [chemical binding]; other site 1036672004919 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1036672004920 SBD interface [polypeptide binding]; other site 1036672004921 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1036672004922 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 1036672004923 catalytic loop [active] 1036672004924 iron binding site [ion binding]; other site 1036672004925 potential frameshift: common BLAST hit: gi|311108997|ref|YP_003981850.1| pimeloyl-CoA synthetase 1036672004926 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 1036672004927 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 1036672004928 NADP binding site [chemical binding]; other site 1036672004929 dimer interface [polypeptide binding]; other site 1036672004930 potential frameshift: common BLAST hit: gi|94310752|ref|YP_583962.1| acyl-CoA dehydrogenase, short-chain specific 1036672004931 potential frameshift: common BLAST hit: gi|311108994|ref|YP_003981847.1| extra-cytoplasmic solute receptor family protein 162 1036672004932 potential frameshift: common BLAST hit: gi|94310753|ref|YP_583963.1| extra-cytoplasmic solute receptor protein 1036672004933 potential frameshift: common BLAST hit: gi|311108992|ref|YP_003981845.1| acyl-CoA dehydrogenase 1036672004934 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1036672004935 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1036672004936 Bacterial transcriptional regulator; Region: IclR; pfam01614 1036672004937 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1036672004938 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1036672004939 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 1036672004940 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 1036672004941 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1036672004942 metal binding site [ion binding]; metal-binding site 1036672004943 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1036672004944 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 1036672004945 motif 3; other site 1036672004946 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1036672004947 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 1036672004948 dimer interface [polypeptide binding]; other site 1036672004949 putative anticodon binding site; other site 1036672004950 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 1036672004951 motif 1; other site 1036672004952 dimer interface [polypeptide binding]; other site 1036672004953 active site 1036672004954 motif 2; other site 1036672004955 short chain dehydrogenase; Provisional; Region: PRK07023 1036672004956 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1036672004957 NAD(P) binding site [chemical binding]; other site 1036672004958 active site 1036672004959 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1036672004960 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 1036672004961 RF-1 domain; Region: RF-1; pfam00472 1036672004962 potential frameshift: common BLAST hit: gi|332284079|ref|YP_004415990.1| single-stranded-DNA-specific exonuclease 1036672004963 potential frameshift: common BLAST hit: gi|163857077|ref|YP_001631375.1| single-stranded-DNA-specific exonuclease 1036672004964 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4255 1036672004965 Cupin domain; Region: Cupin_2; cl17218 1036672004966 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1036672004967 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1036672004968 ligand binding site [chemical binding]; other site 1036672004969 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1036672004970 FtsX-like permease family; Region: FtsX; pfam02687 1036672004971 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1036672004972 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 1036672004973 Walker A/P-loop; other site 1036672004974 ATP binding site [chemical binding]; other site 1036672004975 Q-loop/lid; other site 1036672004976 ABC transporter signature motif; other site 1036672004977 Walker B; other site 1036672004978 D-loop; other site 1036672004979 H-loop/switch region; other site 1036672004980 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1036672004981 active site 1036672004982 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 1036672004983 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 1036672004984 Competence protein; Region: Competence; pfam03772 1036672004985 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 1036672004986 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1036672004987 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1036672004988 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 1036672004989 active site 1036672004990 potential frameshift: common BLAST hit: gi|332284095|ref|YP_004416006.1| transcription elongation factor GreB 1036672004991 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 1036672004992 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 1036672004993 active site 1036672004994 catalytic site [active] 1036672004995 SurA N-terminal domain; Region: SurA_N_3; cl07813 1036672004996 periplasmic folding chaperone; Provisional; Region: PRK10788 1036672004997 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1036672004998 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 1036672004999 active site 1036672005000 catalytic triad [active] 1036672005001 oxyanion hole [active] 1036672005002 switch loop; other site 1036672005003 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 1036672005004 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1036672005005 Walker A/P-loop; other site 1036672005006 ATP binding site [chemical binding]; other site 1036672005007 Q-loop/lid; other site 1036672005008 ABC transporter signature motif; other site 1036672005009 Walker B; other site 1036672005010 D-loop; other site 1036672005011 H-loop/switch region; other site 1036672005012 potential frameshift: common BLAST hit: gi|187478449|ref|YP_786473.1| guanosine-3',5'-bis(diphosphate) 3'-pyrophosphohydrolase 1036672005013 potential frameshift: common BLAST hit: gi|187478449|ref|YP_786473.1| guanosine-3',5'-bis(diphosphate) 3'-pyrophosphohydrolase 1036672005014 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 1036672005015 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1036672005016 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 1036672005017 catalytic site [active] 1036672005018 G-X2-G-X-G-K; other site 1036672005019 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1036672005020 classical (c) SDRs; Region: SDR_c; cd05233 1036672005021 NAD(P) binding site [chemical binding]; other site 1036672005022 active site 1036672005023 Pirin-related protein [General function prediction only]; Region: COG1741 1036672005024 Pirin; Region: Pirin; pfam02678 1036672005025 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1036672005026 hypothetical protein; Provisional; Region: PRK11820 1036672005027 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 1036672005028 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 1036672005029 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1036672005030 ribonuclease PH; Reviewed; Region: rph; PRK00173 1036672005031 hexamer interface [polypeptide binding]; other site 1036672005032 active site 1036672005033 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 1036672005034 active site 1036672005035 dimerization interface [polypeptide binding]; other site 1036672005036 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 1036672005037 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 1036672005038 FeS/SAM binding site; other site 1036672005039 HemN C-terminal domain; Region: HemN_C; pfam06969 1036672005040 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1036672005041 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1036672005042 glutamine synthetase; Provisional; Region: glnA; PRK09469 1036672005043 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1036672005044 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 1036672005045 dimer interface [polypeptide binding]; other site 1036672005046 phosphorylation site [posttranslational modification] 1036672005047 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1036672005048 ATP binding site [chemical binding]; other site 1036672005049 G-X-G motif; other site 1036672005050 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 1036672005051 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1036672005052 active site 1036672005053 phosphorylation site [posttranslational modification] 1036672005054 intermolecular recognition site; other site 1036672005055 dimerization interface [polypeptide binding]; other site 1036672005056 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 1036672005057 Walker A motif; other site 1036672005058 ATP binding site [chemical binding]; other site 1036672005059 Walker B motif; other site 1036672005060 arginine finger; other site 1036672005061 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1036672005062 potential frameshift: common BLAST hit: gi|170732531|ref|YP_001764478.1| ABC transporter-like protein 1036672005063 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1036672005064 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672005065 dimer interface [polypeptide binding]; other site 1036672005066 conserved gate region; other site 1036672005067 putative PBP binding loops; other site 1036672005068 ABC-ATPase subunit interface; other site 1036672005069 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672005070 dimer interface [polypeptide binding]; other site 1036672005071 conserved gate region; other site 1036672005072 putative PBP binding loops; other site 1036672005073 ABC-ATPase subunit interface; other site 1036672005074 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 1036672005075 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1036672005076 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 1036672005077 homotrimer interaction site [polypeptide binding]; other site 1036672005078 putative active site [active] 1036672005079 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1036672005080 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 1036672005081 generic binding surface II; other site 1036672005082 ssDNA binding site; other site 1036672005083 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 1036672005084 ATP binding site [chemical binding]; other site 1036672005085 putative Mg++ binding site [ion binding]; other site 1036672005086 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 1036672005087 nucleotide binding region [chemical binding]; other site 1036672005088 ATP-binding site [chemical binding]; other site 1036672005089 potential frameshift: common BLAST hit: gi|311106510|ref|YP_003979363.1| hydrogen peroxide-inducible genes activator 1036672005090 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1036672005091 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 1036672005092 dimerization interface [polypeptide binding]; other site 1036672005093 ligand binding site [chemical binding]; other site 1036672005094 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1036672005095 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1036672005096 Walker A/P-loop; other site 1036672005097 ATP binding site [chemical binding]; other site 1036672005098 Q-loop/lid; other site 1036672005099 ABC transporter signature motif; other site 1036672005100 Walker B; other site 1036672005101 D-loop; other site 1036672005102 H-loop/switch region; other site 1036672005103 TOBE domain; Region: TOBE_2; pfam08402 1036672005104 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1036672005105 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672005106 dimer interface [polypeptide binding]; other site 1036672005107 conserved gate region; other site 1036672005108 putative PBP binding loops; other site 1036672005109 ABC-ATPase subunit interface; other site 1036672005110 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672005111 dimer interface [polypeptide binding]; other site 1036672005112 conserved gate region; other site 1036672005113 putative PBP binding loops; other site 1036672005114 ABC-ATPase subunit interface; other site 1036672005115 potential frameshift: common BLAST hit: gi|311106499|ref|YP_003979352.1| sn-glycerol-3-phosphate-binding periplasmic protein UgpB 1036672005116 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1036672005117 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1036672005118 Uncharacterized member of the PurR regulon [General function prediction only]; Region: yhhQ; COG1738 1036672005119 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1036672005120 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 1036672005121 TM-ABC transporter signature motif; other site 1036672005122 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 1036672005123 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 1036672005124 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 1036672005125 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 1036672005126 TM-ABC transporter signature motif; other site 1036672005127 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 1036672005128 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1036672005129 Walker A/P-loop; other site 1036672005130 ATP binding site [chemical binding]; other site 1036672005131 Q-loop/lid; other site 1036672005132 ABC transporter signature motif; other site 1036672005133 Walker B; other site 1036672005134 D-loop; other site 1036672005135 H-loop/switch region; other site 1036672005136 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1036672005137 Q-loop/lid; other site 1036672005138 ABC transporter signature motif; other site 1036672005139 Walker B; other site 1036672005140 D-loop; other site 1036672005141 H-loop/switch region; other site 1036672005142 potential frameshift: common BLAST hit: gi|330821245|ref|YP_004350107.1| putative glutathione S-transferase 1036672005143 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1036672005144 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 1036672005145 Cu(I) binding site [ion binding]; other site 1036672005146 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 1036672005147 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1036672005148 active site 1036672005149 Zn binding site [ion binding]; other site 1036672005150 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14189 1036672005151 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1036672005152 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1036672005153 homodimer interface [polypeptide binding]; other site 1036672005154 NADP binding site [chemical binding]; other site 1036672005155 substrate binding site [chemical binding]; other site 1036672005156 potential frameshift: common BLAST hit: gi|163857333|ref|YP_001631631.1| two-component response regulator 1036672005157 PAS domain S-box; Region: sensory_box; TIGR00229 1036672005158 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 1036672005159 putative active site [active] 1036672005160 heme pocket [chemical binding]; other site 1036672005161 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1036672005162 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 1036672005163 dimer interface [polypeptide binding]; other site 1036672005164 phosphorylation site [posttranslational modification] 1036672005165 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1036672005166 ATP binding site [chemical binding]; other site 1036672005167 Mg2+ binding site [ion binding]; other site 1036672005168 G-X-G motif; other site 1036672005169 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 1036672005170 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 1036672005171 dimer interface [polypeptide binding]; other site 1036672005172 TPP-binding site [chemical binding]; other site 1036672005173 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 1036672005174 E3 interaction surface; other site 1036672005175 lipoyl attachment site [posttranslational modification]; other site 1036672005176 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 1036672005177 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 1036672005178 E3 interaction surface; other site 1036672005179 lipoyl attachment site [posttranslational modification]; other site 1036672005180 e3 binding domain; Region: E3_binding; pfam02817 1036672005181 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1036672005182 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1036672005183 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 1036672005184 E3 interaction surface; other site 1036672005185 lipoyl attachment site [posttranslational modification]; other site 1036672005186 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1036672005187 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1036672005188 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1036672005189 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1036672005190 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 1036672005191 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1036672005192 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1036672005193 Sporulation related domain; Region: SPOR; pfam05036 1036672005194 Colicin V production protein; Region: Colicin_V; pfam02674 1036672005195 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1036672005196 amidophosphoribosyltransferase; Provisional; Region: PRK09246 1036672005197 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 1036672005198 active site 1036672005199 tetramer interface [polypeptide binding]; other site 1036672005200 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1036672005201 active site 1036672005202 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1036672005203 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 1036672005204 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1036672005205 putative substrate translocation pore; other site 1036672005206 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 1036672005207 MarC family integral membrane protein; Region: MarC; cl00919 1036672005208 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1036672005209 Zn2+ binding site [ion binding]; other site 1036672005210 Mg2+ binding site [ion binding]; other site 1036672005211 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 1036672005212 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 1036672005213 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1036672005214 metal binding triad; other site 1036672005215 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1036672005216 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 1036672005217 active site 1036672005218 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 1036672005219 rRNA interaction site [nucleotide binding]; other site 1036672005220 S8 interaction site; other site 1036672005221 putative laminin-1 binding site; other site 1036672005222 elongation factor Ts; Provisional; Region: tsf; PRK09377 1036672005223 UBA/TS-N domain; Region: UBA; pfam00627 1036672005224 Elongation factor TS; Region: EF_TS; pfam00889 1036672005225 Elongation factor TS; Region: EF_TS; pfam00889 1036672005226 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 1036672005227 putative nucleotide binding site [chemical binding]; other site 1036672005228 uridine monophosphate binding site [chemical binding]; other site 1036672005229 homohexameric interface [polypeptide binding]; other site 1036672005230 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1036672005231 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 1036672005232 hinge region; other site 1036672005233 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 1036672005234 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 1036672005235 catalytic residue [active] 1036672005236 putative FPP diphosphate binding site; other site 1036672005237 putative FPP binding hydrophobic cleft; other site 1036672005238 dimer interface [polypeptide binding]; other site 1036672005239 putative IPP diphosphate binding site; other site 1036672005240 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1036672005241 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 1036672005242 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 1036672005243 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 1036672005244 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 1036672005245 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 1036672005246 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 1036672005247 active site 1036672005248 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 1036672005249 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 1036672005250 protein binding site [polypeptide binding]; other site 1036672005251 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 1036672005252 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 1036672005253 putative substrate binding region [chemical binding]; other site 1036672005254 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 1036672005255 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1036672005256 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1036672005257 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1036672005258 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1036672005259 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1036672005260 Surface antigen; Region: Bac_surface_Ag; pfam01103 1036672005261 periplasmic chaperone; Provisional; Region: PRK10780 1036672005262 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 1036672005263 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 1036672005264 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 1036672005265 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 1036672005266 trimer interface [polypeptide binding]; other site 1036672005267 active site 1036672005268 UDP-GlcNAc binding site [chemical binding]; other site 1036672005269 lipid binding site [chemical binding]; lipid-binding site 1036672005270 potential frameshift: common BLAST hit: gi|187478239|ref|YP_786263.1| (3R)-hydroxymyristoyl-ACP dehydratase 1036672005271 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 1036672005272 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 1036672005273 active site 1036672005274 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 1036672005275 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1036672005276 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1036672005277 RNA/DNA hybrid binding site [nucleotide binding]; other site 1036672005278 active site 1036672005279 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1036672005280 The Delta12 Fatty Acid Desaturase (Delta12-FADS)-like CD includes the integral-membrane enzymes, delta-12 acyl-lipid desaturases, oleate 12-hydroxylases, omega3 and omega6 fatty acid desaturases, and other related proteins, found in a wide range of...; Region: Delta12-FADS-like; cd03507 1036672005281 putative di-iron ligands [ion binding]; other site 1036672005282 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1036672005283 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 1036672005284 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1036672005285 PEP synthetase regulatory protein; Provisional; Region: PRK05339 1036672005286 phosphoenolpyruvate synthase; Validated; Region: PRK06464 1036672005287 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1036672005288 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1036672005289 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1036672005290 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 1036672005291 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1036672005292 Rice dwarf virus p3; Region: RDV-p3; pfam09231 1036672005293 potential frameshift: common BLAST hit: gi|311106007|ref|YP_003978860.1| SPFH domain/Band 7 family protein 1 1036672005294 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 1036672005295 SmpB-tmRNA interface; other site 1036672005296 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 1036672005297 putative coenzyme Q binding site [chemical binding]; other site 1036672005298 RnfH family Ubiquitin; Region: Ub-RnfH; cl17382 1036672005299 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 1036672005300 substrate binding site [chemical binding]; other site 1036672005301 oxyanion hole (OAH) forming residues; other site 1036672005302 trimer interface [polypeptide binding]; other site 1036672005303 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 1036672005304 potential frameshift: common BLAST hit: gi|187478257|ref|YP_786281.1| aminomethyl transferase 1036672005305 YceG-like family; Region: YceG; pfam02618 1036672005306 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1036672005307 dimerization interface [polypeptide binding]; other site 1036672005308 thymidylate kinase; Validated; Region: tmk; PRK00698 1036672005309 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 1036672005310 TMP-binding site; other site 1036672005311 ATP-binding site [chemical binding]; other site 1036672005312 DNA polymerase III subunit delta'; Validated; Region: PRK06964 1036672005313 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 1036672005314 Walker A motif; other site 1036672005315 ATP binding site [chemical binding]; other site 1036672005316 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1036672005317 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 1036672005318 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1036672005319 active site 1036672005320 FOG: Ankyrin repeat [General function prediction only]; Region: Arp; COG0666 1036672005321 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 1036672005322 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1036672005323 potential frameshift: common BLAST hit: gi|311106039|ref|YP_003978892.1| glutamate dehydrogenase 1036672005324 chromosome condensation membrane protein; Provisional; Region: PRK14196 1036672005325 CrcB-like protein; Region: CRCB; cl09114 1036672005326 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 1036672005327 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 1036672005328 C-terminal domain interface [polypeptide binding]; other site 1036672005329 GSH binding site (G-site) [chemical binding]; other site 1036672005330 dimer interface [polypeptide binding]; other site 1036672005331 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 1036672005332 N-terminal domain interface [polypeptide binding]; other site 1036672005333 putative dimer interface [polypeptide binding]; other site 1036672005334 active site 1036672005335 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 1036672005336 catalytic residues [active] 1036672005337 dimer interface [polypeptide binding]; other site 1036672005338 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 1036672005339 EamA-like transporter family; Region: EamA; pfam00892 1036672005340 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1036672005341 EamA-like transporter family; Region: EamA; pfam00892 1036672005342 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1036672005343 EamA-like transporter family; Region: EamA; pfam00892 1036672005344 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1036672005345 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672005346 The 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 1036672005347 dimerization interface [polypeptide binding]; other site 1036672005348 hypothetical protein; Validated; Region: PRK06201 1036672005349 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 1036672005350 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 1036672005351 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1036672005352 ligand binding site [chemical binding]; other site 1036672005353 NAD binding site [chemical binding]; other site 1036672005354 dimerization interface [polypeptide binding]; other site 1036672005355 catalytic site [active] 1036672005356 potential frameshift: common BLAST hit: gi|337279798|ref|YP_004619270.1| extracytoplasmic binding receptor 1036672005357 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 1036672005358 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 1036672005359 potential frameshift: common BLAST hit: gi|120611335|ref|YP_971013.1| peptidase M20 1036672005360 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 1036672005361 potential frameshift: common BLAST hit: gi|319784973|ref|YP_004144449.1| inner-membrane translocator 1036672005362 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1036672005363 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1036672005364 Walker A/P-loop; other site 1036672005365 ATP binding site [chemical binding]; other site 1036672005366 Q-loop/lid; other site 1036672005367 ABC transporter signature motif; other site 1036672005368 Walker B; other site 1036672005369 D-loop; other site 1036672005370 H-loop/switch region; other site 1036672005371 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1036672005372 potential frameshift: common BLAST hit: gi|337268485|ref|YP_004612540.1| sugar ABC transporter substrate-binding protein 1036672005373 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1036672005374 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1036672005375 DNA-binding site [nucleotide binding]; DNA binding site 1036672005376 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1036672005377 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 1036672005378 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1036672005379 minor groove reading motif; other site 1036672005380 helix-hairpin-helix signature motif; other site 1036672005381 substrate binding pocket [chemical binding]; other site 1036672005382 active site 1036672005383 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 1036672005384 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1036672005385 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 1036672005386 ligand binding site [chemical binding]; other site 1036672005387 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1036672005388 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1036672005389 DNA binding site [nucleotide binding] 1036672005390 domain linker motif; other site 1036672005391 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1036672005392 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 1036672005393 arsenical pump membrane protein; Provisional; Region: PRK15445 1036672005394 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 1036672005395 transmembrane helices; other site 1036672005396 potential frameshift: common BLAST hit: gi|311109481|ref|YP_003982334.1| 3-oxoacyl-[acyl-carrier-protein] synthase III family protein 1036672005397 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1036672005398 potential frameshift: common BLAST hit: gi|163859178|ref|YP_001633476.1| sterol desaturase 1036672005399 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1036672005400 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1036672005401 Coenzyme A binding pocket [chemical binding]; other site 1036672005402 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1036672005403 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 1036672005404 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1036672005405 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 1036672005406 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 1036672005407 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1036672005408 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672005409 The 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 1036672005410 dimerization interface [polypeptide binding]; other site 1036672005411 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1036672005412 Peptidase family M23; Region: Peptidase_M23; pfam01551 1036672005413 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672005414 gluconate 5-dehydrogenase; Provisional; Region: PRK06124 1036672005415 classical (c) SDRs; Region: SDR_c; cd05233 1036672005416 NAD(P) binding site [chemical binding]; other site 1036672005417 active site 1036672005418 RNA polymerase sigma factor; Provisional; Region: PRK12537 1036672005419 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1036672005420 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1036672005421 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5343 1036672005422 Anti-sigma-K factor rskA; Region: RskA; pfam10099 1036672005423 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1036672005424 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1036672005425 Domain of unknown function (DUF4040); Region: DUF4040; pfam13244 1036672005426 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 1036672005427 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 1036672005428 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 1036672005429 potential frameshift: common BLAST hit: gi|332283875|ref|YP_004415786.1| K(+)/H(+) antiporter subunit D 1036672005430 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 1036672005431 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 1036672005432 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 1036672005433 potential frameshift: common BLAST hit: gi|380083420|ref|YP_005351435.1| chromate ion transport protein 1036672005434 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 1036672005435 putative FMN binding site [chemical binding]; other site 1036672005436 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 1036672005437 active site 1036672005438 hydrophilic channel; other site 1036672005439 dimerization interface [polypeptide binding]; other site 1036672005440 catalytic residues [active] 1036672005441 active site lid [active] 1036672005442 potential frameshift: common BLAST hit: gi|332284259|ref|YP_004416170.1| outer membrane efflux protein 1036672005443 potential frameshift: common BLAST hit: gi|384204393|ref|YP_005590132.1| putative efflux system transmembrane protein 1036672005444 potential frameshift: common BLAST hit: gi|187478949|ref|YP_786973.1| multidrug efflux system transmembrane protein 1036672005445 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 1036672005446 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1036672005447 HlyD family secretion protein; Region: HlyD_3; pfam13437 1036672005448 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 1036672005449 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1036672005450 Walker A/P-loop; other site 1036672005451 ATP binding site [chemical binding]; other site 1036672005452 Q-loop/lid; other site 1036672005453 ABC transporter signature motif; other site 1036672005454 Walker B; other site 1036672005455 D-loop; other site 1036672005456 H-loop/switch region; other site 1036672005457 potential frameshift: common BLAST hit: gi|222110942|ref|YP_002553206.1| inner-membrane translocator 1036672005458 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 1036672005459 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1036672005460 zinc binding site [ion binding]; other site 1036672005461 putative ligand binding site [chemical binding]; other site 1036672005462 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 1036672005463 beta-ketothiolase; Provisional; Region: PRK09051 1036672005464 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 1036672005465 dimer interface [polypeptide binding]; other site 1036672005466 active site 1036672005467 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 1036672005468 putative catalytic site [active] 1036672005469 putative phosphate binding site [ion binding]; other site 1036672005470 active site 1036672005471 metal binding site A [ion binding]; metal-binding site 1036672005472 DNA binding site [nucleotide binding] 1036672005473 putative AP binding site [nucleotide binding]; other site 1036672005474 putative metal binding site B [ion binding]; other site 1036672005475 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 1036672005476 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1036672005477 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 1036672005478 RNA binding surface [nucleotide binding]; other site 1036672005479 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1036672005480 active site 1036672005481 Chorismate lyase; Region: Chor_lyase; cl01230 1036672005482 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1036672005483 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1036672005484 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 1036672005485 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 1036672005486 multimer interface [polypeptide binding]; other site 1036672005487 active site 1036672005488 catalytic triad [active] 1036672005489 protein interface 1 [polypeptide binding]; other site 1036672005490 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 1036672005491 homodimer interface [polypeptide binding]; other site 1036672005492 NAD binding pocket [chemical binding]; other site 1036672005493 ATP binding pocket [chemical binding]; other site 1036672005494 Mg binding site [ion binding]; other site 1036672005495 potential frameshift: common BLAST hit: gi|187478131|ref|YP_786155.1| argininosuccinate lyase 1036672005496 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 1036672005497 TRAM domain; Region: TRAM; cl01282 1036672005498 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 1036672005499 S-adenosylmethionine binding site [chemical binding]; other site 1036672005500 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 1036672005501 dimer interface [polypeptide binding]; other site 1036672005502 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 1036672005503 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 1036672005504 active site 1036672005505 substrate binding site [chemical binding]; other site 1036672005506 catalytic site [active] 1036672005507 Peptidase family M23; Region: Peptidase_M23; pfam01551 1036672005508 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 1036672005509 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 1036672005510 S-adenosylmethionine binding site [chemical binding]; other site 1036672005511 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 1036672005512 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 1036672005513 UGMP family protein; Validated; Region: PRK09604 1036672005514 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 1036672005515 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1036672005516 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 1036672005517 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1036672005518 catalytic residues [active] 1036672005519 Uncharacterized conserved protein [Function unknown]; Region: COG1739 1036672005520 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1036672005521 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 1036672005522 potential frameshift: common BLAST hit: gi|33602007|ref|NP_889567.1| ABC transporter ATP-binding protein 1036672005523 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 1036672005524 dimer interface [polypeptide binding]; other site 1036672005525 catalytic triad [active] 1036672005526 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 1036672005527 nucleoside/Zn binding site; other site 1036672005528 dimer interface [polypeptide binding]; other site 1036672005529 catalytic motif [active] 1036672005530 Secretin and TonB N terminus short domain; Region: STN; smart00965 1036672005531 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 1036672005532 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1036672005533 N-terminal plug; other site 1036672005534 ligand-binding site [chemical binding]; other site 1036672005535 fec operon regulator FecR; Reviewed; Region: PRK09774 1036672005536 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1036672005537 FecR protein; Region: FecR; pfam04773 1036672005538 RNA polymerase sigma factor FecI; Provisional; Region: PRK09651 1036672005539 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1036672005540 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 1036672005541 DNA binding residues [nucleotide binding] 1036672005542 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1036672005543 potential frameshift: common BLAST hit: gi|264679085|ref|YP_003278992.1| major facilitator superfamily protein 1036672005544 potential frameshift: common BLAST hit: gi|264679085|ref|YP_003278992.1| major facilitator superfamily protein 1036672005545 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1036672005546 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 1036672005547 putative NAD(P) binding site [chemical binding]; other site 1036672005548 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 1036672005549 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672005550 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 1036672005551 substrate binding pocket [chemical binding]; other site 1036672005552 dimerization interface [polypeptide binding]; other site 1036672005553 GMP synthase; Reviewed; Region: guaA; PRK00074 1036672005554 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1036672005555 AMP/PPi binding site [chemical binding]; other site 1036672005556 candidate oxyanion hole; other site 1036672005557 catalytic triad [active] 1036672005558 potential glutamine specificity residues [chemical binding]; other site 1036672005559 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 1036672005560 ATP Binding subdomain [chemical binding]; other site 1036672005561 Ligand Binding sites [chemical binding]; other site 1036672005562 Dimerization subdomain; other site 1036672005563 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1036672005564 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 1036672005565 potential frameshift: common BLAST hit: gi|187478067|ref|YP_786091.1| inosine-5'-monophosphate dehydrogenase 1036672005566 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1036672005567 potential frameshift: common BLAST hit: gi|33601294|ref|NP_888854.1| phosphoribosylformylglycinamidine synthase 1036672005568 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1036672005569 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1036672005570 putative hydrolase; Provisional; Region: PRK11460 1036672005571 Yqey-like protein; Region: YqeY; pfam09424 1036672005572 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1036672005573 active site 1036672005574 DNA polymerase IV; Validated; Region: PRK02406 1036672005575 DNA binding site [nucleotide binding] 1036672005576 Part of AAA domain; Region: AAA_19; pfam13245 1036672005577 Family description; Region: UvrD_C_2; pfam13538 1036672005578 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 1036672005579 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 1036672005580 S-adenosylmethionine binding site [chemical binding]; other site 1036672005581 Uncharacterized conserved protein [Function unknown]; Region: COG2353 1036672005582 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1036672005583 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1036672005584 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 1036672005585 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1036672005586 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1036672005587 Walker A/P-loop; other site 1036672005588 ATP binding site [chemical binding]; other site 1036672005589 Q-loop/lid; other site 1036672005590 ABC transporter signature motif; other site 1036672005591 Walker B; other site 1036672005592 D-loop; other site 1036672005593 H-loop/switch region; other site 1036672005594 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1036672005595 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1036672005596 Walker A/P-loop; other site 1036672005597 ATP binding site [chemical binding]; other site 1036672005598 Q-loop/lid; other site 1036672005599 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 1036672005600 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1036672005601 Walker B; other site 1036672005602 D-loop; other site 1036672005603 H-loop/switch region; other site 1036672005604 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1036672005605 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1036672005606 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672005607 dimer interface [polypeptide binding]; other site 1036672005608 conserved gate region; other site 1036672005609 putative PBP binding loops; other site 1036672005610 ABC-ATPase subunit interface; other site 1036672005611 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1036672005612 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1036672005613 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672005614 dimer interface [polypeptide binding]; other site 1036672005615 conserved gate region; other site 1036672005616 ABC-ATPase subunit interface; other site 1036672005617 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1036672005618 Sulfatase; Region: Sulfatase; cl17466 1036672005619 phosphoglycolate phosphatase; Provisional; Region: PRK13222 1036672005620 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 1036672005621 motif II; other site 1036672005622 potential frameshift: common BLAST hit: gi|311108025|ref|YP_003980878.1| alcohol dehydrogenase 1036672005623 potential frameshift: common BLAST hit: gi|311108026|ref|YP_003980879.1| shikimate/quinate 5-dehydrogenase family protein 1 1036672005624 potential frameshift: common BLAST hit: gi|311108027|ref|YP_003980880.1| transketolase, C-terminal domain-containing protein 2 1036672005625 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 1036672005626 TPP-binding site [chemical binding]; other site 1036672005627 dimer interface [polypeptide binding]; other site 1036672005628 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1036672005629 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1036672005630 DNA-binding site [nucleotide binding]; DNA binding site 1036672005631 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1036672005632 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1036672005633 active site 1036672005634 NAD binding site [chemical binding]; other site 1036672005635 metal binding site [ion binding]; metal-binding site 1036672005636 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1036672005637 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1036672005638 NAD(P) binding site [chemical binding]; other site 1036672005639 active site 1036672005640 potential frameshift: common BLAST hit: gi|332286062|ref|YP_004417973.1| NADPH quinone oxidoreductase 1036672005641 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1036672005642 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1036672005643 Walker A/P-loop; other site 1036672005644 ATP binding site [chemical binding]; other site 1036672005645 Q-loop/lid; other site 1036672005646 ABC transporter signature motif; other site 1036672005647 Walker B; other site 1036672005648 D-loop; other site 1036672005649 H-loop/switch region; other site 1036672005650 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1036672005651 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 1036672005652 TM-ABC transporter signature motif; other site 1036672005653 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1036672005654 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1036672005655 Walker A/P-loop; other site 1036672005656 ATP binding site [chemical binding]; other site 1036672005657 Q-loop/lid; other site 1036672005658 ABC transporter signature motif; other site 1036672005659 Walker B; other site 1036672005660 D-loop; other site 1036672005661 H-loop/switch region; other site 1036672005662 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 1036672005663 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1036672005664 TM-ABC transporter signature motif; other site 1036672005665 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1036672005666 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1036672005667 potential frameshift: common BLAST hit: gi|311109092|ref|YP_003981945.1| pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase 1036672005668 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 1036672005669 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1036672005670 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 1036672005671 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 1036672005672 tetramer interface [polypeptide binding]; other site 1036672005673 TPP-binding site [chemical binding]; other site 1036672005674 heterodimer interface [polypeptide binding]; other site 1036672005675 phosphorylation loop region [posttranslational modification] 1036672005676 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 1036672005677 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1036672005678 classical (c) SDRs; Region: SDR_c; cd05233 1036672005679 NAD(P) binding site [chemical binding]; other site 1036672005680 active site 1036672005681 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1036672005682 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1036672005683 NAD(P) binding site [chemical binding]; other site 1036672005684 active site 1036672005685 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1036672005686 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1036672005687 DNA-binding site [nucleotide binding]; DNA binding site 1036672005688 FCD domain; Region: FCD; pfam07729 1036672005689 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 1036672005690 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 1036672005691 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 1036672005692 DNA-binding transcriptional activator CaiF; Provisional; Region: PRK11476 1036672005693 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 1036672005694 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 1036672005695 FMN binding site [chemical binding]; other site 1036672005696 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 1036672005697 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1036672005698 DNA binding residues [nucleotide binding] 1036672005699 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 1036672005700 IHF - DNA interface [nucleotide binding]; other site 1036672005701 IHF dimer interface [polypeptide binding]; other site 1036672005702 potential frameshift: common BLAST hit: gi|332284514|ref|YP_004416425.1| phenylalanyl-tRNA synthetase subunit beta 1036672005703 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1036672005704 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1036672005705 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 1036672005706 dimer interface [polypeptide binding]; other site 1036672005707 motif 1; other site 1036672005708 active site 1036672005709 motif 2; other site 1036672005710 motif 3; other site 1036672005711 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1036672005712 23S rRNA binding site [nucleotide binding]; other site 1036672005713 L21 binding site [polypeptide binding]; other site 1036672005714 L13 binding site [polypeptide binding]; other site 1036672005715 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1036672005716 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 1036672005717 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1036672005718 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 1036672005719 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1036672005720 Membrane fusogenic activity; Region: BMFP; pfam04380 1036672005721 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1036672005722 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1036672005723 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 1036672005724 potential frameshift: common BLAST hit: gi|332284524|ref|YP_004416435.1| ammonium transporter 1036672005725 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 1036672005726 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1036672005727 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1036672005728 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1036672005729 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 1036672005730 dimerization domain swap beta strand [polypeptide binding]; other site 1036672005731 regulatory protein interface [polypeptide binding]; other site 1036672005732 active site 1036672005733 regulatory phosphorylation site [posttranslational modification]; other site 1036672005734 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; cl00025 1036672005735 active site 1036672005736 active pocket/dimerization site; other site 1036672005737 phosphorylation site [posttranslational modification] 1036672005738 glutathione synthetase; Provisional; Region: PRK05246 1036672005739 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 1036672005740 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 1036672005741 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1036672005742 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1036672005743 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1036672005744 potential frameshift: common BLAST hit: gi|332284530|ref|YP_004416441.1| threonyl-tRNA synthetase 1036672005745 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1036672005746 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1036672005747 ligand binding site [chemical binding]; other site 1036672005748 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1036672005749 potential frameshift: common BLAST hit: gi|33601239|ref|NP_888799.1| ATP-dependent protease La 1036672005750 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1036672005751 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1036672005752 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 1036672005753 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 1036672005754 Walker A motif; other site 1036672005755 ATP binding site [chemical binding]; other site 1036672005756 Walker B motif; other site 1036672005757 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1036672005758 potential frameshift: common BLAST hit: gi|332283982|ref|YP_004415893.1| ATP-dependent Clp protease proteolytic subunit 1036672005759 trigger factor; Provisional; Region: tig; PRK01490 1036672005760 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1036672005761 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1036672005762 Cytochrome c [Energy production and conversion]; Region: COG3258 1036672005763 Cytochrome c; Region: Cytochrom_C; pfam00034 1036672005764 Cytochrome c; Region: Cytochrom_C; cl11414 1036672005765 Cytochrome c; Region: Cytochrom_C; cl11414 1036672005766 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1036672005767 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 1036672005768 putative ligand binding site [chemical binding]; other site 1036672005769 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 1036672005770 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1036672005771 TM-ABC transporter signature motif; other site 1036672005772 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1036672005773 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 1036672005774 TM-ABC transporter signature motif; other site 1036672005775 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1036672005776 Walker A/P-loop; other site 1036672005777 ATP binding site [chemical binding]; other site 1036672005778 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1036672005779 ABC transporter signature motif; other site 1036672005780 Walker B; other site 1036672005781 D-loop; other site 1036672005782 H-loop/switch region; other site 1036672005783 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1036672005784 Q-loop/lid; other site 1036672005785 ABC transporter signature motif; other site 1036672005786 Walker B; other site 1036672005787 D-loop; other site 1036672005788 H-loop/switch region; other site 1036672005789 UreD urease accessory protein; Region: UreD; pfam01774 1036672005790 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 1036672005791 alpha-gamma subunit interface [polypeptide binding]; other site 1036672005792 beta-gamma subunit interface [polypeptide binding]; other site 1036672005793 Hydrogenase/urease accessory protein [Posttranslational modification, protein turnover, chaperones]; Region: HupE; COG2370 1036672005794 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 1036672005795 gamma-beta subunit interface [polypeptide binding]; other site 1036672005796 alpha-beta subunit interface [polypeptide binding]; other site 1036672005797 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 1036672005798 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 1036672005799 urease accessory protein UreE; Provisional; Region: ureE; PRK13263 1036672005800 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 1036672005801 dimer interface [polypeptide binding]; other site 1036672005802 catalytic residues [active] 1036672005803 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 1036672005804 UreF; Region: UreF; pfam01730 1036672005805 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 1036672005806 G1 box; other site 1036672005807 GTP/Mg2+ binding site [chemical binding]; other site 1036672005808 G2 box; other site 1036672005809 Switch I region; other site 1036672005810 G3 box; other site 1036672005811 Switch II region; other site 1036672005812 G4 box; other site 1036672005813 G5 box; other site 1036672005814 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 1036672005815 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1036672005816 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1036672005817 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 1036672005818 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1036672005819 Protein of unknown function; Region: DUF3971; pfam13116 1036672005820 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1036672005821 potential frameshift: common BLAST hit: gi|33602209|ref|NP_889769.1| bifunctional glutamine-synthetase 1036672005822 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 1036672005823 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1036672005824 TolR protein; Region: tolR; TIGR02801 1036672005825 potential frameshift: common BLAST hit: gi|33597122|ref|NP_884765.1| MotA/TolQ/ExbB proton channel family protein 1036672005826 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1036672005827 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1036672005828 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 1036672005829 DNA-binding site [nucleotide binding]; DNA binding site 1036672005830 RNA-binding motif; other site 1036672005831 potential frameshift: common BLAST hit: gi|332284688|ref|YP_004416599.1| ATP-dependent protease, ATPase subunit 1036672005832 potential frameshift: common BLAST hit: gi|332284688|ref|YP_004416599.1| ATP-dependent protease, ATPase subunit 1036672005833 potential frameshift: common BLAST hit: gi|332284688|ref|YP_004416599.1| ATP-dependent protease, ATPase subunit 1036672005834 PIN domain; Region: PIN_3; pfam13470 1036672005835 NRDE protein; Region: NRDE; cl01315 1036672005836 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1036672005837 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672005838 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 1036672005839 putative effector binding pocket; other site 1036672005840 dimerization interface [polypeptide binding]; other site 1036672005841 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1036672005842 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 1036672005843 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1036672005844 substrate binding pocket [chemical binding]; other site 1036672005845 membrane-bound complex binding site; other site 1036672005846 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1036672005847 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1036672005848 Walker A/P-loop; other site 1036672005849 ATP binding site [chemical binding]; other site 1036672005850 Q-loop/lid; other site 1036672005851 ABC transporter signature motif; other site 1036672005852 Walker B; other site 1036672005853 D-loop; other site 1036672005854 H-loop/switch region; other site 1036672005855 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672005856 dimer interface [polypeptide binding]; other site 1036672005857 conserved gate region; other site 1036672005858 putative PBP binding loops; other site 1036672005859 ABC-ATPase subunit interface; other site 1036672005860 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1036672005861 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672005862 dimer interface [polypeptide binding]; other site 1036672005863 conserved gate region; other site 1036672005864 putative PBP binding loops; other site 1036672005865 ABC-ATPase subunit interface; other site 1036672005866 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1036672005867 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1036672005868 DNA-binding site [nucleotide binding]; DNA binding site 1036672005869 FCD domain; Region: FCD; pfam07729 1036672005870 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 1036672005871 galactarate dehydratase; Region: galactar-dH20; TIGR03248 1036672005872 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 1036672005873 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cl00720 1036672005874 trimer interface [polypeptide binding]; other site 1036672005875 putative Zn binding site [ion binding]; other site 1036672005876 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cl00720 1036672005877 trimer interface [polypeptide binding]; other site 1036672005878 putative Zn binding site [ion binding]; other site 1036672005879 acyl-CoA synthetase; Validated; Region: PRK07470 1036672005880 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1036672005881 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 1036672005882 acyl-activating enzyme (AAE) consensus motif; other site 1036672005883 acyl-activating enzyme (AAE) consensus motif; other site 1036672005884 putative AMP binding site [chemical binding]; other site 1036672005885 putative active site [active] 1036672005886 putative CoA binding site [chemical binding]; other site 1036672005887 acetyl-CoA acetyltransferase; Provisional; Region: PRK07516 1036672005888 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 1036672005889 active site 1036672005890 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1036672005891 classical (c) SDRs; Region: SDR_c; cd05233 1036672005892 NAD(P) binding site [chemical binding]; other site 1036672005893 active site 1036672005894 potential frameshift: common BLAST hit: gi|307727930|ref|YP_003911143.1| TRAP C4-dicarboxylate transport system permease DctM subunit 1036672005895 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1036672005896 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1036672005897 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1036672005898 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1036672005899 potential frameshift: common BLAST hit: gi|163854335|ref|YP_001628633.1| LysR family transcriptional regulator 1036672005900 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1036672005901 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 1036672005902 substrate binding site [chemical binding]; other site 1036672005903 oxyanion hole (OAH) forming residues; other site 1036672005904 trimer interface [polypeptide binding]; other site 1036672005905 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1036672005906 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1036672005907 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1036672005908 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 1036672005909 amphipathic channel; other site 1036672005910 Asn-Pro-Ala signature motifs; other site 1036672005911 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 1036672005912 hypothetical protein; Provisional; Region: PRK10040 1036672005913 Peptidase inhibitor I78 family; Region: Inhibitor_I78; pfam11720 1036672005914 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 1036672005915 S-adenosylmethionine binding site [chemical binding]; other site 1036672005916 lumazine synthase and riboflavin synthase; involved in the riboflavin (vitamin B2) biosynthetic pathway; Region: Lumazine_synthase-like; cl00317 1036672005917 active site 1036672005918 homopentamer interface [polypeptide binding]; other site 1036672005919 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1036672005920 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 1036672005921 C-terminal domain interface [polypeptide binding]; other site 1036672005922 GSH binding site (G-site) [chemical binding]; other site 1036672005923 dimer interface [polypeptide binding]; other site 1036672005924 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 1036672005925 dimer interface [polypeptide binding]; other site 1036672005926 N-terminal domain interface [polypeptide binding]; other site 1036672005927 substrate binding pocket (H-site) [chemical binding]; other site 1036672005928 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 1036672005929 YCII-related domain; Region: YCII; cl00999 1036672005930 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 1036672005931 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 1036672005932 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 1036672005933 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 1036672005934 non-specific DNA binding site [nucleotide binding]; other site 1036672005935 salt bridge; other site 1036672005936 sequence-specific DNA binding site [nucleotide binding]; other site 1036672005937 Plasmid maintenance system killer protein; Region: Plasmid_killer; pfam05015 1036672005938 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 1036672005939 classical (c) SDRs; Region: SDR_c; cd05233 1036672005940 NAD(P) binding site [chemical binding]; other site 1036672005941 active site 1036672005942 potential frameshift: common BLAST hit: gi|158521484|ref|YP_001529354.1| AMP-dependent synthetase and ligase 1036672005943 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1036672005944 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 1036672005945 active site 1036672005946 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1036672005947 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1036672005948 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 1036672005949 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_3; cd10035 1036672005950 putative uracil binding site [chemical binding]; other site 1036672005951 putative active site [active] 1036672005952 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 1036672005953 DNA binding site [nucleotide binding] 1036672005954 active site 1036672005955 Int/Topo IB signature motif; other site 1036672005956 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 1036672005957 active site 1036672005958 DNA binding site [nucleotide binding] 1036672005959 Int/Topo IB signature motif; other site 1036672005960 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 1036672005961 Helix-turn-helix domain; Region: HTH_39; pfam14090 1036672005962 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 1036672005963 potential frameshift: common BLAST hit: gi|170732634|ref|YP_001764581.1| major capsid protein HK97 1036672005964 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 1036672005965 potential frameshift: common BLAST hit: gi|170732636|ref|YP_001764583.1| HK97 family phage portal protein 1036672005966 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 1036672005967 active site 1036672005968 Elongation factor G C-terminus. This domain includes the carboxyl terminal regions of elongation factors (EFs) bacterial EF-G, eukaryotic and archeal EF-2 and eukaryotic mitochondrial mtEFG1s and mtEFG2s. This group also includes proteins similar to the...; Region: Elongation_Factor_C; cl02785 1036672005969 potential frameshift: common BLAST hit: gi|319762143|ref|YP_004126080.1| terminase 1036672005970 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 1036672005971 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 1036672005972 oligomerization interface [polypeptide binding]; other site 1036672005973 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 1036672005974 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1036672005975 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1036672005976 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 1036672005977 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1036672005978 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1036672005979 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 1036672005980 DNA binding residues [nucleotide binding] 1036672005981 potential frameshift: common BLAST hit: gi|332284640|ref|YP_004416551.1| DNA primase 1036672005982 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1036672005983 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1036672005984 active site 1036672005985 potential frameshift: common BLAST hit: gi|332284643|ref|YP_004416554.1| adenylosuccinate synthetase 1036672005986 potential frameshift: common BLAST hit: gi|384204490|ref|YP_005590229.1| ATP phosphoribosyltransferase regulatory subunit 1036672005987 FtsH protease regulator HflC; Provisional; Region: PRK11029 1036672005988 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 1036672005989 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 1036672005990 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 1036672005991 HflK protein; Region: hflK; TIGR01933 1036672005992 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 1036672005993 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1036672005994 HflX GTPase family; Region: HflX; cd01878 1036672005995 G1 box; other site 1036672005996 GTP/Mg2+ binding site [chemical binding]; other site 1036672005997 Switch I region; other site 1036672005998 G2 box; other site 1036672005999 G3 box; other site 1036672006000 Switch II region; other site 1036672006001 G4 box; other site 1036672006002 G5 box; other site 1036672006003 bacterial Hfq-like; Region: Hfq; cd01716 1036672006004 hexamer interface [polypeptide binding]; other site 1036672006005 Sm1 motif; other site 1036672006006 RNA binding site [nucleotide binding]; other site 1036672006007 Sm2 motif; other site 1036672006008 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 1036672006009 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 1036672006010 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1036672006011 homodimer interface [polypeptide binding]; other site 1036672006012 catalytic residue [active] 1036672006013 potential frameshift: common BLAST hit: gi|384204496|ref|YP_005590235.1| GTP-binding protein EngA 1036672006014 potential frameshift: common BLAST hit: gi|332284651|ref|YP_004416562.1| quinoprotein 1036672006015 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 1036672006016 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 1036672006017 ATP phosphoribosyltransferase, regulatory subunit; Region: hisZ_biosyn_reg; TIGR00443 1036672006018 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 1036672006019 dimer interface [polypeptide binding]; other site 1036672006020 motif 1; other site 1036672006021 active site 1036672006022 motif 2; other site 1036672006023 motif 3; other site 1036672006024 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 1036672006025 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1036672006026 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1036672006027 Helix-turn-helix domain; Region: HTH_25; pfam13413 1036672006028 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 1036672006029 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 1036672006030 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 1036672006031 active site 1036672006032 multimer interface [polypeptide binding]; other site 1036672006033 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1036672006034 active site 1036672006035 HIGH motif; other site 1036672006036 nucleotide binding site [chemical binding]; other site 1036672006037 potential frameshift: common BLAST hit: gi|319779679|ref|YP_004130592.1| valyl-tRNA synthetase 1036672006038 potential frameshift: common BLAST hit: gi|33602156|ref|NP_889716.1| valyl-tRNA synthetase 1036672006039 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 1036672006040 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1036672006041 active site 1036672006042 catalytic tetrad [active] 1036672006043 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672006044 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1036672006045 Cytochrome P450; Region: p450; cl12078 1036672006046 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1036672006047 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 1036672006048 FMN-binding pocket [chemical binding]; other site 1036672006049 flavin binding motif; other site 1036672006050 phosphate binding motif [ion binding]; other site 1036672006051 beta-alpha-beta structure motif; other site 1036672006052 NAD binding pocket [chemical binding]; other site 1036672006053 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 1036672006054 catalytic loop [active] 1036672006055 iron binding site [ion binding]; other site 1036672006056 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1036672006057 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1036672006058 Bacterial transcriptional regulator; Region: IclR; pfam01614 1036672006059 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4185 1036672006060 Zeta toxin; Region: Zeta_toxin; pfam06414 1036672006061 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 1036672006062 Ectoine synthase; Region: Ectoine_synth; pfam06339 1036672006063 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 1036672006064 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 1036672006065 inhibitor-cofactor binding pocket; inhibition site 1036672006066 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1036672006067 catalytic residue [active] 1036672006068 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1036672006069 Coenzyme A binding pocket [chemical binding]; other site 1036672006070 potential frameshift: common BLAST hit: gi|332284797|ref|YP_004416708.1| MarR family transcriptional regulator 1036672006071 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1036672006072 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1036672006073 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1036672006074 potential frameshift: common BLAST hit: gi|83593287|ref|YP_427039.1| fusaric acid resistance protein region 1036672006075 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 1036672006076 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1036672006077 HlyD family secretion protein; Region: HlyD_3; pfam13437 1036672006078 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1036672006079 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672006080 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 1036672006081 dimerization interface [polypeptide binding]; other site 1036672006082 substrate binding pocket [chemical binding]; other site 1036672006083 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 1036672006084 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 1036672006085 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1036672006086 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 1036672006087 catalytic loop [active] 1036672006088 iron binding site [ion binding]; other site 1036672006089 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1036672006090 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1036672006091 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1036672006092 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1036672006093 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 1036672006094 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1036672006095 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 1036672006096 substrate binding site [chemical binding]; other site 1036672006097 oxyanion hole (OAH) forming residues; other site 1036672006098 trimer interface [polypeptide binding]; other site 1036672006099 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 1036672006100 putative hydrophobic ligand binding site [chemical binding]; other site 1036672006101 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672006102 Putative cyclase; Region: Cyclase; pfam04199 1036672006103 TAP-like protein; Region: Abhydrolase_4; pfam08386 1036672006104 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672006105 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1036672006106 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1036672006107 Sulfatase; Region: Sulfatase; pfam00884 1036672006108 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1036672006109 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672006110 The 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 1036672006111 dimerization interface [polypeptide binding]; other site 1036672006112 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 1036672006113 alkylhydroperoxidase AhpD family core domain; Region: ahpD_dom; TIGR00778 1036672006114 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 1036672006115 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 1036672006116 Predicted transporter component [General function prediction only]; Region: COG2391 1036672006117 Sulphur transport; Region: Sulf_transp; pfam04143 1036672006118 Predicted transporter component [General function prediction only]; Region: COG2391 1036672006119 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 1036672006120 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1036672006121 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 1036672006122 metal-binding site [ion binding] 1036672006123 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1036672006124 potential frameshift: common BLAST hit: gi|339494945|ref|YP_004715238.1| cytochrome c family protein 1036672006125 Domain of unknown function (DUF1924); Region: DUF1924; pfam09086 1036672006126 Cytochrome c; Region: Cytochrom_C; cl11414 1036672006127 Cytochrome c; Region: Cytochrom_C; cl11414 1036672006128 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 1036672006129 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 1036672006130 Low-spin heme binding site [chemical binding]; other site 1036672006131 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1036672006132 D-pathway; other site 1036672006133 Putative water exit pathway; other site 1036672006134 Binuclear center (active site) [active] 1036672006135 K-pathway; other site 1036672006136 Putative proton exit pathway; other site 1036672006137 DsrE/DsrF-like family; Region: DrsE; cl00672 1036672006138 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1036672006139 disulfide isomerase/thiol-disulfide oxidase; Provisional; Region: dsbG; PRK11657 1036672006140 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 1036672006141 dimerization domain [polypeptide binding]; other site 1036672006142 dimer interface [polypeptide binding]; other site 1036672006143 catalytic residues [active] 1036672006144 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 1036672006145 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 1036672006146 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1036672006147 catalytic residues [active] 1036672006148 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 1036672006149 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 1036672006150 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 1036672006151 DsbD alpha interface [polypeptide binding]; other site 1036672006152 catalytic residues [active] 1036672006153 potential frameshift: common BLAST hit: gi|311106334|ref|YP_003979187.1| transcriptional regulator QseB 2 1036672006154 potential frameshift: common BLAST hit: gi|121593756|ref|YP_985652.1| integral membrane sensor signal transduction histidine kinase 1036672006155 potential frameshift: common BLAST hit: gi|330822663|ref|YP_004385966.1| formyl-CoA transferase 1036672006156 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1036672006157 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 1036672006158 substrate binding site [chemical binding]; other site 1036672006159 oxyanion hole (OAH) forming residues; other site 1036672006160 trimer interface [polypeptide binding]; other site 1036672006161 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1036672006162 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1036672006163 potential frameshift: common BLAST hit: gi|113868115|ref|YP_726604.1| LysR family transcriptional regulator 1036672006164 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672006165 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 1036672006166 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1036672006167 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1036672006168 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1036672006169 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 1036672006170 carboxyltransferase (CT) interaction site; other site 1036672006171 biotinylation site [posttranslational modification]; other site 1036672006172 potential frameshift: common BLAST hit: gi|330822669|ref|YP_004385972.1| Isovaleryl-CoA dehydrogenase 1036672006173 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 1036672006174 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1036672006175 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1036672006176 potential frameshift: common BLAST hit: gi|332286854|ref|YP_004418765.1| thiamine pyrophosphate protein 1036672006177 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1036672006178 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672006179 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 1036672006180 putative dimerization interface [polypeptide binding]; other site 1036672006181 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1036672006182 NAD(P) binding site [chemical binding]; other site 1036672006183 active site 1036672006184 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 1036672006185 active site 1036672006186 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 1036672006187 benzoate transport; Region: 2A0115; TIGR00895 1036672006188 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1036672006189 putative substrate translocation pore; other site 1036672006190 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 1036672006191 rRNA binding site [nucleotide binding]; other site 1036672006192 predicted 30S ribosome binding site; other site 1036672006193 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1036672006194 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 1036672006195 substrate binding pocket [chemical binding]; other site 1036672006196 active site 1036672006197 iron coordination sites [ion binding]; other site 1036672006198 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1036672006199 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672006200 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 1036672006201 putative dimerization interface [polypeptide binding]; other site 1036672006202 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1036672006203 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1036672006204 putative substrate translocation pore; other site 1036672006205 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1036672006206 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1036672006207 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1036672006208 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1036672006209 potential frameshift: common BLAST hit: gi|338740829|ref|YP_004677791.1| monooxygenase with ATPase activity, luciferase 1036672006210 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 1036672006211 Isochorismatase family; Region: Isochorismatase; pfam00857 1036672006212 catalytic triad [active] 1036672006213 conserved cis-peptide bond; other site 1036672006214 PrpA and PrpB, metallophosphatase domain; Region: MPP_PrpA_PrpB; cd07424 1036672006215 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1036672006216 active site 1036672006217 metal binding site [ion binding]; metal-binding site 1036672006218 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1036672006219 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1036672006220 Coenzyme A binding pocket [chemical binding]; other site 1036672006221 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1036672006222 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 1036672006223 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1036672006224 catalytic residue [active] 1036672006225 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 1036672006226 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672006227 The 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 1036672006228 dimerization interface [polypeptide binding]; other site 1036672006229 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672006230 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1036672006231 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1036672006232 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 1036672006233 Ligand Binding Site [chemical binding]; other site 1036672006234 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 1036672006235 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 1036672006236 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1036672006237 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 1036672006238 putative C-terminal domain interface [polypeptide binding]; other site 1036672006239 putative GSH binding site (G-site) [chemical binding]; other site 1036672006240 putative dimer interface [polypeptide binding]; other site 1036672006241 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 1036672006242 putative N-terminal domain interface [polypeptide binding]; other site 1036672006243 putative dimer interface [polypeptide binding]; other site 1036672006244 putative substrate binding pocket (H-site) [chemical binding]; other site 1036672006245 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1036672006246 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1036672006247 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672006248 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 1036672006249 putative effector binding pocket; other site 1036672006250 putative dimerization interface [polypeptide binding]; other site 1036672006251 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 1036672006252 Prostaglandin dehydrogenases; Region: PGDH; cd05288 1036672006253 NAD(P) binding site [chemical binding]; other site 1036672006254 substrate binding site [chemical binding]; other site 1036672006255 dimer interface [polypeptide binding]; other site 1036672006256 Serpentine type 7TM GPCR receptor class ab chemoreceptor; Region: 7TM_GPCR_Srab; cl11607 1036672006257 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1036672006258 active site 1036672006259 metal binding site [ion binding]; metal-binding site 1036672006260 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 1036672006261 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1036672006262 putative glutathione S-transferase; Provisional; Region: PRK10357 1036672006263 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 1036672006264 putative C-terminal domain interface [polypeptide binding]; other site 1036672006265 putative GSH binding site (G-site) [chemical binding]; other site 1036672006266 putative dimer interface [polypeptide binding]; other site 1036672006267 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 1036672006268 dimer interface [polypeptide binding]; other site 1036672006269 N-terminal domain interface [polypeptide binding]; other site 1036672006270 putative substrate binding pocket (H-site) [chemical binding]; other site 1036672006271 potential frameshift: common BLAST hit: gi|152982828|ref|YP_001354323.1| major facilitator transporter 1036672006272 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 1036672006273 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672006274 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1036672006275 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 1036672006276 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 1036672006277 active site 1036672006278 catalytic residues [active] 1036672006279 metal binding site [ion binding]; metal-binding site 1036672006280 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1036672006281 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1036672006282 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1036672006283 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672006284 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 1036672006285 putative dimerization interface [polypeptide binding]; other site 1036672006286 potential frameshift: common BLAST hit: gi|94310372|ref|YP_583582.1| putative MFS transporter 1036672006287 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1036672006288 MgtC family; Region: MgtC; pfam02308 1036672006289 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1036672006290 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 1036672006291 dimer interface [polypeptide binding]; other site 1036672006292 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1036672006293 catalytic residue [active] 1036672006294 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 1036672006295 tetramer interface [polypeptide binding]; other site 1036672006296 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1036672006297 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 1036672006298 trimer interface [polypeptide binding]; other site 1036672006299 eyelet of channel; other site 1036672006300 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1036672006301 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 1036672006302 trimer interface [polypeptide binding]; other site 1036672006303 eyelet of channel; other site 1036672006304 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 1036672006305 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1036672006306 metal binding site [ion binding]; metal-binding site 1036672006307 substrate binding pocket [chemical binding]; other site 1036672006308 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672006309 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 1036672006310 Domain of unknown function (DUF333); Region: DUF333; pfam03891 1036672006311 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1036672006312 DNA binding residues [nucleotide binding] 1036672006313 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 1036672006314 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 1036672006315 Bacteriophage lysis protein; Region: Phage_lysis; pfam03245 1036672006316 Hint domain; Region: Hint_2; pfam13403 1036672006317 Hint domain; Region: Hint_2; pfam13403 1036672006318 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 1036672006319 protein-splicing catalytic site; other site 1036672006320 thioester formation/cholesterol transfer; other site 1036672006321 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 1036672006322 The 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 1036672006323 dimerization interface [polypeptide binding]; other site 1036672006324 LysE type translocator; Region: LysE; cl00565 1036672006325 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 1036672006326 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1036672006327 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 1036672006328 active site 1036672006329 Int/Topo IB signature motif; other site 1036672006330 DNA binding site [nucleotide binding] 1036672006331 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 1036672006332 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 1036672006333 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1036672006334 homodimer interface [polypeptide binding]; other site 1036672006335 catalytic residue [active] 1036672006336 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 1036672006337 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 1036672006338 trimer interface [polypeptide binding]; other site 1036672006339 active site 1036672006340 substrate binding site [chemical binding]; other site 1036672006341 CoA binding site [chemical binding]; other site 1036672006342 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 1036672006343 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 1036672006344 metal binding site [ion binding]; metal-binding site 1036672006345 dimer interface [polypeptide binding]; other site 1036672006346 HemK family putative methylases; Region: hemK_fam; TIGR00536 1036672006347 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 1036672006348 S-adenosylmethionine binding site [chemical binding]; other site 1036672006349 potential frameshift: common BLAST hit: gi|332283975|ref|YP_004415886.1| ABC transporter ATP-binding protein 1036672006350 potential frameshift: common BLAST hit: gi|332283975|ref|YP_004415886.1| ABC transporter ATP-binding protein 1036672006351 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 1036672006352 active site 1036672006353 TRAP-type mannitol/chloroaromatic compound transport system, small permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT2; COG4665 1036672006354 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 1036672006355 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1036672006356 potential frameshift: common BLAST hit: gi|348590140|ref|YP_004874602.1| tRNA pseudouridine synthase A 1036672006357 potential frameshift: common BLAST hit: gi|33596563|ref|NP_884206.1| aspartate-semialdehyde dehydrogenase 1036672006358 potential frameshift: common BLAST hit: gi|163857347|ref|YP_001631645.1| 3-isopropylmalate dehydrogenase 1036672006359 potential frameshift: common BLAST hit: gi|163857347|ref|YP_001631645.1| 3-isopropylmalate dehydrogenase 1036672006360 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 1036672006361 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 1036672006362 substrate binding site [chemical binding]; other site 1036672006363 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1036672006364 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1036672006365 substrate binding site [chemical binding]; other site 1036672006366 ligand binding site [chemical binding]; other site 1036672006367 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 1036672006368 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 1036672006369 inhibitor-cofactor binding pocket; inhibition site 1036672006370 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1036672006371 catalytic residue [active] 1036672006372 potential frameshift: common BLAST hit: gi|163858335|ref|YP_001632633.1| fumarylacetoacetase 1036672006373 potential frameshift: common BLAST hit: gi|332286394|ref|YP_004418305.1| glutathione S-transferase 1036672006374 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1036672006375 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1036672006376 Tetramer interface [polypeptide binding]; other site 1036672006377 active site 1036672006378 FMN-binding site [chemical binding]; other site 1036672006379 hypothetical protein; Validated; Region: PRK00029 1036672006380 Uncharacterized conserved protein [Function unknown]; Region: COG0397 1036672006381 Predicted membrane protein (DUF2069); Region: DUF2069; pfam09842 1036672006382 potential frameshift: common BLAST hit: gi|163857354|ref|YP_001631652.1| ribonuclease 1036672006383 FOG: CBS domain [General function prediction only]; Region: COG0517 1036672006384 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 1036672006385 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1036672006386 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1036672006387 active site 1036672006388 metal binding site [ion binding]; metal-binding site 1036672006389 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 1036672006390 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1036672006391 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1036672006392 6-hydroxyhexanoate dehydrogenase; Region: 6_hydroxyhexanoate_dh_like; cd08240 1036672006393 putative NAD(P) binding site [chemical binding]; other site 1036672006394 catalytic Zn binding site [ion binding]; other site 1036672006395 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1036672006396 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 1036672006397 catalytic loop [active] 1036672006398 iron binding site [ion binding]; other site 1036672006399 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1036672006400 diiron center [ion binding]; other site 1036672006401 putative radical transfer pathway; other site 1036672006402 dimer interface [polypeptide binding]; other site 1036672006403 tyrosyl radical; other site 1036672006404 Ribonucleotide reductase, barrel domain; Region: Ribonuc_red_lgC; pfam02867 1036672006405 ATP cone domain; Region: ATP-cone; pfam03477 1036672006406 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1036672006407 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 1036672006408 phosphate binding site [ion binding]; other site 1036672006409 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 1036672006410 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1036672006411 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 1036672006412 dimer interface [polypeptide binding]; other site 1036672006413 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 1036672006414 FOG: CBS domain [General function prediction only]; Region: COG0517 1036672006415 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; cl02915 1036672006416 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 1036672006417 Cl- selectivity filter; other site 1036672006418 Cl- binding residues [ion binding]; other site 1036672006419 pore gating glutamate residue; other site 1036672006420 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 1036672006421 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 1036672006422 putative active site [active] 1036672006423 putative substrate binding site [chemical binding]; other site 1036672006424 ATP binding site [chemical binding]; other site 1036672006425 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 1036672006426 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 1036672006427 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672006428 The 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 1036672006429 dimerization interface [polypeptide binding]; other site 1036672006430 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672006431 Sulfatase; Region: Sulfatase; cl17466 1036672006432 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1036672006433 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672006434 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1036672006435 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 1036672006436 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1036672006437 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 1036672006438 Ligand binding site [chemical binding]; other site 1036672006439 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1036672006440 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1036672006441 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 1036672006442 putative active site [active] 1036672006443 Zn binding site [ion binding]; other site 1036672006444 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1036672006445 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 1036672006446 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1036672006447 potential frameshift: common BLAST hit: gi|311107553|ref|YP_003980406.1| isocitrate lyase 1036672006448 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1036672006449 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1036672006450 putative substrate translocation pore; other site 1036672006451 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1036672006452 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1036672006453 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 1036672006454 potential frameshift: common BLAST hit: gi|384204397|ref|YP_005590136.1| excinuclease ABC subunit C 1036672006455 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1036672006456 beta-hexosaminidase; Provisional; Region: PRK05337 1036672006457 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 1036672006458 potential frameshift: common BLAST hit: gi|384204945|ref|YP_005590684.1| oligoribonuclease 1036672006459 Peptidase family M48; Region: Peptidase_M48; pfam01435 1036672006460 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 1036672006461 RNA binding site [nucleotide binding]; other site 1036672006462 homodimer interface [polypeptide binding]; other site 1036672006463 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1036672006464 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1036672006465 GTP/Mg2+ binding site [chemical binding]; other site 1036672006466 G4 box; other site 1036672006467 G5 box; other site 1036672006468 G1 box; other site 1036672006469 Switch I region; other site 1036672006470 G2 box; other site 1036672006471 G3 box; other site 1036672006472 Switch II region; other site 1036672006473 AAA domain; Region: AAA_33; pfam13671 1036672006474 AAA domain; Region: AAA_17; pfam13207 1036672006475 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 1036672006476 putative active site [active] 1036672006477 putative CoA binding site [chemical binding]; other site 1036672006478 nudix motif; other site 1036672006479 metal binding site [ion binding]; metal-binding site 1036672006480 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1036672006481 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1036672006482 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 1036672006483 dimer interface [polypeptide binding]; other site 1036672006484 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1036672006485 catalytic triad [active] 1036672006486 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1036672006487 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1036672006488 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1036672006489 active site 1036672006490 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1036672006491 potential frameshift: common BLAST hit: gi|311104130|ref|YP_003976983.1| acyl-CoA dehydrogenase 1036672006492 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1036672006493 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1036672006494 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 1036672006495 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672006496 The 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 1036672006497 dimerization interface [polypeptide binding]; other site 1036672006498 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 1036672006499 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 1036672006500 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1036672006501 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 1036672006502 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 1036672006503 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1036672006504 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 1036672006505 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 1036672006506 phosphopeptide binding site; other site 1036672006507 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 1036672006508 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 1036672006509 ATP binding site [chemical binding]; other site 1036672006510 Walker A motif; other site 1036672006511 hexamer interface [polypeptide binding]; other site 1036672006512 Walker B motif; other site 1036672006513 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 1036672006514 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 1036672006515 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 1036672006516 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 1036672006517 active site 1036672006518 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; cl01497 1036672006519 DNA binding site [nucleotide binding] 1036672006520 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1036672006521 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1036672006522 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 1036672006523 ligand binding site [chemical binding]; other site 1036672006524 flexible hinge region; other site 1036672006525 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 1036672006526 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1036672006527 ligand binding site [chemical binding]; other site 1036672006528 active site 1036672006529 UGI interface [polypeptide binding]; other site 1036672006530 catalytic site [active] 1036672006531 potential frameshift: common BLAST hit: gi|163854835|ref|YP_001629133.1| lipoprotein 1036672006532 drug efflux system protein MdtG; Provisional; Region: PRK09874 1036672006533 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1036672006534 putative substrate translocation pore; other site 1036672006535 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1036672006536 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 1036672006537 FMN binding site [chemical binding]; other site 1036672006538 substrate binding site [chemical binding]; other site 1036672006539 putative catalytic residue [active] 1036672006540 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 1036672006541 potential frameshift: common BLAST hit: gi|71907536|ref|YP_285123.1| DNA polymerase III subunit epsilon 1036672006542 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 1036672006543 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1036672006544 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1036672006545 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672006546 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 1036672006547 putative dimerization interface [polypeptide binding]; other site 1036672006548 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 1036672006549 CoenzymeA binding site [chemical binding]; other site 1036672006550 subunit interaction site [polypeptide binding]; other site 1036672006551 PHB binding site; other site 1036672006552 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 1036672006553 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1036672006554 short chain dehydrogenase; Provisional; Region: PRK06523 1036672006555 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1036672006556 NAD(P) binding site [chemical binding]; other site 1036672006557 active site 1036672006558 SnoaL-like domain; Region: SnoaL_2; pfam12680 1036672006559 Predicted transcriptional regulators [Transcription]; Region: COG1733 1036672006560 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1036672006561 potential frameshift: common BLAST hit: gi|384204126|ref|YP_005589865.1| DNA helicase II 1036672006562 potential frameshift: common BLAST hit: gi|187477915|ref|YP_785939.1| DNA helicase II 1036672006563 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1036672006564 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 1036672006565 Di-iron ligands [ion binding]; other site 1036672006566 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1036672006567 potential frameshift: common BLAST hit: gi|163857123|ref|YP_001631421.1| methyltransferase 1036672006568 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 1036672006569 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 1036672006570 active site 1036672006571 cosubstrate binding site; other site 1036672006572 substrate binding site [chemical binding]; other site 1036672006573 catalytic site [active] 1036672006574 riboflavin kinase/FMN adenylyltransferase; Region: ribF; TIGR00083 1036672006575 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1036672006576 Riboflavin kinase; Region: Flavokinase; smart00904 1036672006577 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 1036672006578 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1036672006579 active site 1036672006580 HIGH motif; other site 1036672006581 nucleotide binding site [chemical binding]; other site 1036672006582 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1036672006583 active site 1036672006584 KMSKS motif; other site 1036672006585 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1036672006586 tRNA binding surface [nucleotide binding]; other site 1036672006587 anticodon binding site; other site 1036672006588 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1036672006589 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 1036672006590 lipoprotein signal peptidase; Provisional; Region: PRK14787 1036672006591 potential frameshift: common BLAST hit: gi|33596598|ref|NP_884241.1| bifunctional phosphopantothenoylcysteine 1036672006592 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1036672006593 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1036672006594 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1036672006595 trimer interface [polypeptide binding]; other site 1036672006596 active site 1036672006597 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 1036672006598 Protein of unknown function (DUF330); Region: DUF330; pfam03886 1036672006599 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1036672006600 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 1036672006601 putative ligand binding site [chemical binding]; other site 1036672006602 potential frameshift: common BLAST hit: gi|311107309|ref|YP_003980162.1| Mce related family protein 3 1036672006603 Paraquat-inducible protein A; Region: PqiA; pfam04403 1036672006604 Paraquat-inducible protein A; Region: PqiA; pfam04403 1036672006605 Paraquat-inducible protein A; Region: PqiA; pfam04403 1036672006606 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1036672006607 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 1036672006608 Clp amino terminal domain; Region: Clp_N; pfam02861 1036672006609 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 1036672006610 Walker A motif; other site 1036672006611 ATP binding site [chemical binding]; other site 1036672006612 Walker B motif; other site 1036672006613 arginine finger; other site 1036672006614 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 1036672006615 Walker A motif; other site 1036672006616 ATP binding site [chemical binding]; other site 1036672006617 Walker B motif; other site 1036672006618 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1036672006619 Uncharacterized conserved protein [Function unknown]; Region: COG2127 1036672006620 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 1036672006621 DNA-binding site [nucleotide binding]; DNA binding site 1036672006622 RNA-binding motif; other site 1036672006623 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 1036672006624 superoxide dismutase; Provisional; Region: PRK10543 1036672006625 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1036672006626 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1036672006627 potential frameshift: common BLAST hit: gi|163856980|ref|YP_001631278.1| exodeoxyribonuclease VII large subunit 1036672006628 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 1036672006629 Uncharacterized conserved protein [Function unknown]; Region: COG2835 1036672006630 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 1036672006631 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1036672006632 active site 1036672006633 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 1036672006634 adenylate kinase; Reviewed; Region: adk; PRK00279 1036672006635 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 1036672006636 AMP-binding site [chemical binding]; other site 1036672006637 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1036672006638 potential frameshift: common BLAST hit: gi|332283941|ref|YP_004415852.1| short-chain dehydrogenase 1036672006639 potential frameshift: common BLAST hit: gi|332283940|ref|YP_004415851.1| membrane protein 1036672006640 potential frameshift: common BLAST hit: gi|33600988|ref|NP_888548.1| integral membrane protein 1036672006641 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1036672006642 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1036672006643 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 1036672006644 ornithine carbamoyltransferase; Provisional; Region: PRK00779 1036672006645 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1036672006646 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1036672006647 argininosuccinate synthase; Provisional; Region: PRK13820 1036672006648 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 1036672006649 ANP binding site [chemical binding]; other site 1036672006650 Substrate Binding Site II [chemical binding]; other site 1036672006651 Substrate Binding Site I [chemical binding]; other site 1036672006652 potential frameshift: common BLAST hit: gi|332284632|ref|YP_004416543.1| potassium uptake protein 1036672006653 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 1036672006654 dimer interface [polypeptide binding]; other site 1036672006655 phosphorylation site [posttranslational modification] 1036672006656 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1036672006657 ATP binding site [chemical binding]; other site 1036672006658 G-X-G motif; other site 1036672006659 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1036672006660 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1036672006661 active site 1036672006662 phosphorylation site [posttranslational modification] 1036672006663 intermolecular recognition site; other site 1036672006664 dimerization interface [polypeptide binding]; other site 1036672006665 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 1036672006666 DNA binding site [nucleotide binding] 1036672006667 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 1036672006668 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 1036672006669 ABC transporter signature motif; other site 1036672006670 Walker B; other site 1036672006671 D-loop; other site 1036672006672 H-loop/switch region; other site 1036672006673 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 1036672006674 AAA domain; Region: AAA_23; pfam13476 1036672006675 Walker A/P-loop; other site 1036672006676 ATP binding site [chemical binding]; other site 1036672006677 Q-loop/lid; other site 1036672006678 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1036672006679 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 1036672006680 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1036672006681 exonuclease SbcD; Region: sbcd; TIGR00619 1036672006682 Protein of unknown function (DUF808); Region: DUF808; pfam05661 1036672006683 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 1036672006684 IHF dimer interface [polypeptide binding]; other site 1036672006685 IHF - DNA interface [nucleotide binding]; other site 1036672006686 potential frameshift: common BLAST hit: gi|311105149|ref|YP_003978002.1| cystathionine gamma-lyase 1036672006687 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 1036672006688 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1036672006689 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1036672006690 potential frameshift: common BLAST hit: gi|311105147|ref|YP_003978000.1| ribonuclease R 1036672006691 exoribonuclease R; Provisional; Region: PRK11642 1036672006692 potential frameshift: common BLAST hit: gi|319779500|ref|YP_004130413.1| membrane protein YfcA 1036672006693 Invasion gene expression up-regulator, SirB; Region: SirB; pfam04247 1036672006694 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 1036672006695 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1036672006696 Coenzyme A binding pocket [chemical binding]; other site 1036672006697 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 1036672006698 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 1036672006699 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 1036672006700 Integral membrane protein TerC family; Region: TerC; cl10468 1036672006701 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1036672006702 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1036672006703 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 1036672006704 Transporter associated domain; Region: CorC_HlyC; pfam03471 1036672006705 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 1036672006706 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1036672006707 sulfate transport protein; Provisional; Region: cysT; CHL00187 1036672006708 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672006709 dimer interface [polypeptide binding]; other site 1036672006710 conserved gate region; other site 1036672006711 putative PBP binding loops; other site 1036672006712 ABC-ATPase subunit interface; other site 1036672006713 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1036672006714 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672006715 dimer interface [polypeptide binding]; other site 1036672006716 conserved gate region; other site 1036672006717 putative PBP binding loops; other site 1036672006718 ABC-ATPase subunit interface; other site 1036672006719 potential frameshift: common BLAST hit: gi|226942075|ref|YP_002797149.1| ABC-type sulfate/molybdate transport systems, ATPase component 1036672006720 Domain III of Elongation factor (EF) Tu (EF-TU) and EF-G. Elongation factors (EF) EF-Tu and EF-G participate in the elongation phase during protein biosynthesis on the ribosome. Their functional cycles depend on GTP binding and its hydrolysis. The EF-Tu...; Region: Translation_factor_III; cl02786 1036672006721 sulfate adenylyltransferase, large subunit; Region: CysN; TIGR02034 1036672006722 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 1036672006723 CysD dimerization site [polypeptide binding]; other site 1036672006724 G1 box; other site 1036672006725 putative GEF interaction site [polypeptide binding]; other site 1036672006726 GTP/Mg2+ binding site [chemical binding]; other site 1036672006727 Switch I region; other site 1036672006728 G2 box; other site 1036672006729 G3 box; other site 1036672006730 Switch II region; other site 1036672006731 G4 box; other site 1036672006732 G5 box; other site 1036672006733 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 1036672006734 Domain III of Elongation factor (EF) Tu (EF-TU) and EF-G. Elongation factors (EF) EF-Tu and EF-G participate in the elongation phase during protein biosynthesis on the ribosome. Their functional cycles depend on GTP binding and its hydrolysis. The EF-Tu...; Region: Translation_factor_III; cl02786 1036672006735 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 1036672006736 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 1036672006737 Active Sites [active] 1036672006738 potential frameshift: common BLAST hit: gi|300690712|ref|YP_003751707.1| phosphoadenosine phosphosulfate reductase 1036672006739 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1036672006740 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1036672006741 lycopene cyclase; Region: lycopene_cycl; TIGR01789 1036672006742 glycerate dehydrogenase; Provisional; Region: PRK06932 1036672006743 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 1036672006744 putative ligand binding site [chemical binding]; other site 1036672006745 putative NAD binding site [chemical binding]; other site 1036672006746 catalytic site [active] 1036672006747 potential frameshift: common BLAST hit: gi|319779496|ref|YP_004130409.1| ferritin 1036672006748 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1036672006749 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1036672006750 TM2 domain; Region: TM2; pfam05154 1036672006751 potential frameshift: common BLAST hit: gi|91786566|ref|YP_547518.1| D-serine deaminase 1036672006752 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 1036672006753 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1036672006754 potential protein location (hypothetical protein TKWG_15370 [Advenella kashmirensis WT001]) that overlaps RNA (5S ribosomal RNA) 1036672006755 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1036672006756 GTP cyclohydrolase I [Coenzyme metabolism]; Region: FolE; COG0302 1036672006757 active site 1036672006758 potential frameshift: common BLAST hit: gi|33602360|ref|NP_889920.1| ribonuclease 1036672006759 potential frameshift: common BLAST hit: gi|311105209|ref|YP_003978062.1| lipid A export permease/ATP-binding protein MsbA 1036672006760 potential frameshift: common BLAST hit: gi|311105209|ref|YP_003978062.1| lipid A export permease/ATP-binding protein MsbA 1036672006761 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 1036672006762 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1036672006763 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 1036672006764 putative active site [active] 1036672006765 Predicted transcriptional regulators [Transcription]; Region: COG1733 1036672006766 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 1036672006767 dimerization interface [polypeptide binding]; other site 1036672006768 putative DNA binding site [nucleotide binding]; other site 1036672006769 putative Zn2+ binding site [ion binding]; other site 1036672006770 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 1036672006771 conserved cis-peptide bond; other site 1036672006772 Putative catalytic NodB homology domain of a hypothetical protein Ecf1 from Escherichia coli and similar proteins; Region: CE4_Ecf1_like_5s; cd10969 1036672006773 putative active site [active] 1036672006774 putative metal binding site [ion binding]; other site 1036672006775 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1036672006776 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 1036672006777 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1036672006778 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 1036672006779 putative active site [active] 1036672006780 putative PHP Thumb interface [polypeptide binding]; other site 1036672006781 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 1036672006782 generic binding surface I; other site 1036672006783 generic binding surface II; other site 1036672006784 potential frameshift: common BLAST hit: gi|33596337|ref|NP_883980.1| ATP-dependent helicase 1036672006785 potential frameshift: common BLAST hit: gi|33596337|ref|NP_883980.1| ATP-dependent helicase 1036672006786 potential frameshift: common BLAST hit: gi|33596336|ref|NP_883979.1| N-acetylglutamate synthase 1036672006787 oxidative damage protection protein; Provisional; Region: PRK05408 1036672006788 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 1036672006789 PhoU domain; Region: PhoU; pfam01895 1036672006790 PhoU domain; Region: PhoU; pfam01895 1036672006791 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 1036672006792 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1036672006793 active site 1036672006794 dimer interface [polypeptide binding]; other site 1036672006795 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1036672006796 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1036672006797 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1036672006798 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672006799 dimer interface [polypeptide binding]; other site 1036672006800 conserved gate region; other site 1036672006801 putative PBP binding loops; other site 1036672006802 ABC-ATPase subunit interface; other site 1036672006803 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1036672006804 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672006805 dimer interface [polypeptide binding]; other site 1036672006806 conserved gate region; other site 1036672006807 ABC-ATPase subunit interface; other site 1036672006808 potential frameshift: common BLAST hit: gi|384204636|ref|YP_005590375.1| putative polyamine transport ATP-binding protein 1036672006809 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1036672006810 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1036672006811 3-deoxy-D-manno-octulosonic-acid kinase; Reviewed; Region: PRK01723 1036672006812 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 1036672006813 active site 1036672006814 substrate binding site [chemical binding]; other site 1036672006815 ATP binding site [chemical binding]; other site 1036672006816 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 1036672006817 apolar tunnel; other site 1036672006818 heme binding site [chemical binding]; other site 1036672006819 dimerization interface [polypeptide binding]; other site 1036672006820 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 1036672006821 FtsX-like permease family; Region: FtsX; pfam02687 1036672006822 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 1036672006823 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1036672006824 potential frameshift: common BLAST hit: gi|311107349|ref|YP_003980202.1| DNA repair protein RadA 1036672006825 short chain dehydrogenase; Provisional; Region: PRK07577 1036672006826 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1036672006827 NAD(P) binding site [chemical binding]; other site 1036672006828 active site 1036672006829 alanine racemase; Reviewed; Region: alr; PRK00053 1036672006830 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 1036672006831 active site 1036672006832 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1036672006833 substrate binding site [chemical binding]; other site 1036672006834 catalytic residues [active] 1036672006835 dimer interface [polypeptide binding]; other site 1036672006836 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 1036672006837 active site lid residues [active] 1036672006838 substrate binding pocket [chemical binding]; other site 1036672006839 catalytic residues [active] 1036672006840 substrate-Mg2+ binding site; other site 1036672006841 aspartate-rich region 1; other site 1036672006842 aspartate-rich region 2; other site 1036672006843 potential frameshift: common BLAST hit: gi|163857476|ref|YP_001631774.1| phytoene synthase 1036672006844 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1036672006845 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 1036672006846 NnrS protein; Region: NnrS; cl01258 1036672006847 NnrS protein; Region: NnrS; pfam05940 1036672006848 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1036672006849 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 1036672006850 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1036672006851 catalytic residue [active] 1036672006852 homoserine dehydrogenase; Provisional; Region: PRK06349 1036672006853 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1036672006854 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1036672006855 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 1036672006856 potential frameshift: common BLAST hit: gi|311105095|ref|YP_003977948.1| aminotransferase class I and II family protein 2 1036672006857 Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a...; Region: Mth938-like; cl00182 1036672006858 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1036672006859 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 1036672006860 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 1036672006861 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 1036672006862 putative active site [active] 1036672006863 PhoH-like protein; Region: PhoH; pfam02562 1036672006864 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1036672006865 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 1036672006866 replicative DNA helicase; Provisional; Region: PRK07004 1036672006867 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1036672006868 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 1036672006869 Walker A motif; other site 1036672006870 ATP binding site [chemical binding]; other site 1036672006871 Walker B motif; other site 1036672006872 DNA binding loops [nucleotide binding] 1036672006873 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1036672006874 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1036672006875 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1036672006876 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1036672006877 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 1036672006878 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1036672006879 potential frameshift: common BLAST hit: gi|311105031|ref|YP_003977884.1| GTP cyclohydrolase 1 1036672006880 potential frameshift: common BLAST hit: gi|332283716|ref|YP_004415627.1| 1-deoxy-D-xylulose-5-phosphate synthase 1036672006881 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1036672006882 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1036672006883 substrate binding pocket [chemical binding]; other site 1036672006884 chain length determination region; other site 1036672006885 substrate-Mg2+ binding site; other site 1036672006886 catalytic residues [active] 1036672006887 aspartate-rich region 1; other site 1036672006888 active site lid residues [active] 1036672006889 aspartate-rich region 2; other site 1036672006890 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1036672006891 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1036672006892 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 1036672006893 [2Fe-2S] cluster binding site [ion binding]; other site 1036672006894 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 1036672006895 alpha subunit interface [polypeptide binding]; other site 1036672006896 active site 1036672006897 substrate binding site [chemical binding]; other site 1036672006898 Fe binding site [ion binding]; other site 1036672006899 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1036672006900 potential frameshift: common BLAST hit: gi|384204573|ref|YP_005590312.1| heat shock protein HtpX 1036672006901 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 1036672006902 active site 1036672006903 iron coordination sites [ion binding]; other site 1036672006904 substrate binding pocket [chemical binding]; other site 1036672006905 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1036672006906 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672006907 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 1036672006908 putative dimerization interface [polypeptide binding]; other site 1036672006909 potential frameshift: common BLAST hit: gi|308186857|ref|YP_003930988.1| RhtB family transporter 1036672006910 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 1036672006911 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672006912 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 1036672006913 dimerization interface [polypeptide binding]; other site 1036672006914 substrate binding pocket [chemical binding]; other site 1036672006915 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672006916 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 1036672006917 DNA polymerase I; Provisional; Region: PRK05755 1036672006918 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1036672006919 active site 1036672006920 putative 5' ssDNA interaction site; other site 1036672006921 metal binding site 3; metal-binding site 1036672006922 metal binding site 1 [ion binding]; metal-binding site 1036672006923 metal binding site 2 [ion binding]; metal-binding site 1036672006924 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1036672006925 putative DNA binding site [nucleotide binding]; other site 1036672006926 putative metal binding site [ion binding]; other site 1036672006927 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 1036672006928 active site 1036672006929 catalytic site [active] 1036672006930 substrate binding site [chemical binding]; other site 1036672006931 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1036672006932 active site 1036672006933 DNA binding site [nucleotide binding] 1036672006934 catalytic site [active] 1036672006935 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1036672006936 Autoinducer binding domain; Region: Autoind_bind; pfam03472 1036672006937 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 1036672006938 DNA binding residues [nucleotide binding] 1036672006939 dimerization interface [polypeptide binding]; other site 1036672006940 potential frameshift: common BLAST hit: gi|384204365|ref|YP_005590104.1| leucyl-tRNA synthetase 1036672006941 Lipopolysaccharide-assembly; Region: LptE; cl01125 1036672006942 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 1036672006943 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1036672006944 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1036672006945 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1036672006946 putative catalytic cysteine [active] 1036672006947 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 1036672006948 potential frameshift: common BLAST hit: gi|311104822|ref|YP_003977675.1| N-6 adenine-specific DNA methylase 1 1036672006949 RDD family; Region: RDD; pfam06271 1036672006950 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 1036672006951 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1036672006952 acyl-activating enzyme (AAE) consensus motif; other site 1036672006953 active site 1036672006954 AMP binding site [chemical binding]; other site 1036672006955 CoA binding site [chemical binding]; other site 1036672006956 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1036672006957 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 1036672006958 trimer interface [polypeptide binding]; other site 1036672006959 putative metal binding site [ion binding]; other site 1036672006960 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1036672006961 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 1036672006962 dimerization interface [polypeptide binding]; other site 1036672006963 domain crossover interface; other site 1036672006964 redox-dependent activation switch; other site 1036672006965 HMP-P synthase; Region: PLN02444 1036672006966 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 1036672006967 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1036672006968 enolase; Provisional; Region: eno; PRK00077 1036672006969 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 1036672006970 dimer interface [polypeptide binding]; other site 1036672006971 metal binding site [ion binding]; metal-binding site 1036672006972 substrate binding pocket [chemical binding]; other site 1036672006973 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1036672006974 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1036672006975 putative substrate translocation pore; other site 1036672006976 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 1036672006977 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 1036672006978 CTP synthetase; Validated; Region: pyrG; PRK05380 1036672006979 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 1036672006980 Catalytic site [active] 1036672006981 active site 1036672006982 UTP binding site [chemical binding]; other site 1036672006983 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1036672006984 active site 1036672006985 putative oxyanion hole; other site 1036672006986 catalytic triad [active] 1036672006987 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 1036672006988 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 1036672006989 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 1036672006990 Na binding site [ion binding]; other site 1036672006991 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1036672006992 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1036672006993 Protein of unknown function, DUF485; Region: DUF485; pfam04341 1036672006994 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1036672006995 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 1036672006996 Large subunit of methanol dehydrogenase (moxF); Region: PQQ_MDH; cd10278 1036672006997 Trp docking motif [polypeptide binding]; other site 1036672006998 dimer interface [polypeptide binding]; other site 1036672006999 active site 1036672007000 small subunit binding site [polypeptide binding]; other site 1036672007001 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1036672007002 quinoprotein dehydrogenase-associated probable ABC transporter substrate-binding protein; Region: ABC_peri_MoxJ_2; TIGR03871 1036672007003 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 1036672007004 substrate binding pocket [chemical binding]; other site 1036672007005 membrane-bound complex binding site; other site 1036672007006 hinge residues; other site 1036672007007 potential frameshift: common BLAST hit: gi|91776656|ref|YP_546412.1| YVTN beta-propeller repeat-containing protein 1036672007008 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1036672007009 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 1036672007010 substrate binding site [chemical binding]; other site 1036672007011 nucleotide binding site [chemical binding]; other site 1036672007012 potential frameshift: common BLAST hit: gi|89900187|ref|YP_522658.1| LysR family transcriptional regulator 1036672007013 Ribulose bisphosphate carboxylase large chain; Region: RuBisCO_large; cl08232 1036672007014 ribulose bisophosphate carboxylase; Reviewed; Region: rbcL; PRK04208 1036672007015 dimer interface [polypeptide binding]; other site 1036672007016 catalytic residue [active] 1036672007017 metal binding site [ion binding]; metal-binding site 1036672007018 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 1036672007019 multimerization interface [polypeptide binding]; other site 1036672007020 probable Rubsico expression protein CbbX; Region: cbbX_cfxQ; TIGR02880 1036672007021 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 1036672007022 Walker A motif; other site 1036672007023 ATP binding site [chemical binding]; other site 1036672007024 Walker B motif; other site 1036672007025 arginine finger; other site 1036672007026 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1036672007027 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 1036672007028 motif II; other site 1036672007029 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 1036672007030 metal binding site [ion binding]; metal-binding site 1036672007031 active site 1036672007032 phosphoribulokinase; Provisional; Region: PRK15453 1036672007033 potential frameshift: common BLAST hit: gi|116695331|ref|YP_840907.1| transketolase 1036672007034 Fructose/tagarose-bisphosphate aldolase class II. This family includes fructose-1,6-bisphosphate (FBP) and tagarose 1,6-bisphosphate (TBP) aldolases. FBP-aldolase is homodimeric and used in gluconeogenesis and glycolysis; the enzyme controls the...; Region: FTBP_aldolase_II; cl17181 1036672007035 Fructose/tagarose-bisphosphate aldolase class II. This family includes fructose-1,6-bisphosphate (FBP) and tagarose 1,6-bisphosphate (TBP) aldolases. FBP-aldolase is homodimeric and used in gluconeogenesis and glycolysis; the enzyme controls the...; Region: FTBP_aldolase_II; cl17181 1036672007036 active site 1036672007037 zinc binding site [ion binding]; other site 1036672007038 Na+ binding site [ion binding]; other site 1036672007039 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 1036672007040 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 1036672007041 substrate binding site [chemical binding]; other site 1036672007042 catalytic Zn binding site [ion binding]; other site 1036672007043 NAD binding site [chemical binding]; other site 1036672007044 structural Zn binding site [ion binding]; other site 1036672007045 dimer interface [polypeptide binding]; other site 1036672007046 glutathione-dependent formaldehyde-activating enzyme; Provisional; Region: PRK05417 1036672007047 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 1036672007048 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 1036672007049 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1036672007050 coenzyme PQQ synthesis protein PqqA; Provisional; Region: pqqA; PRK00284 1036672007051 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 1036672007052 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 1036672007053 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 1036672007054 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 1036672007055 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 1036672007056 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 1036672007057 FeS/SAM binding site; other site 1036672007058 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1036672007059 potential frameshift: common BLAST hit: gi|383759879|ref|YP_005438865.1| transcriptional regulator, TyrR family 1036672007060 potential frameshift: common BLAST hit: gi|332284077|ref|YP_004415988.1| transmembrane transport protein 1036672007061 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1036672007062 putative acetyltransferase; Provisional; Region: PRK03624 1036672007063 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1036672007064 Coenzyme A binding pocket [chemical binding]; other site 1036672007065 potential frameshift: common BLAST hit: gi|326318886|ref|YP_004236558.1| taurine dioxygenase 1036672007066 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1036672007067 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1036672007068 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672007069 dimer interface [polypeptide binding]; other site 1036672007070 conserved gate region; other site 1036672007071 putative PBP binding loops; other site 1036672007072 ABC-ATPase subunit interface; other site 1036672007073 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1036672007074 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672007075 dimer interface [polypeptide binding]; other site 1036672007076 conserved gate region; other site 1036672007077 putative PBP binding loops; other site 1036672007078 ABC-ATPase subunit interface; other site 1036672007079 potential frameshift: common BLAST hit: gi|326318890|ref|YP_004236562.1| glycerol-3-phosphate-transporting ATPase 1036672007080 TOBE domain; Region: TOBE; cl01440 1036672007081 polyphosphate:nucleotide phosphotransferase, PPK2 family; Region: PPK2_rel_1; TIGR03709 1036672007082 potential frameshift: common BLAST hit: gi|348590389|ref|YP_004874851.1| GTP-binding protein TypA/BipA 1036672007083 potential frameshift: common BLAST hit: gi|348590389|ref|YP_004874851.1| GTP-binding protein TypA/BipA 1036672007084 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1036672007085 G1 box; other site 1036672007086 GTP/Mg2+ binding site [chemical binding]; other site 1036672007087 G2 box; other site 1036672007088 Switch I region; other site 1036672007089 G3 box; other site 1036672007090 Switch II region; other site 1036672007091 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00020 1036672007092 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1036672007093 RNA binding site [nucleotide binding]; other site 1036672007094 active site 1036672007095 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1036672007096 potential frameshift: common BLAST hit: gi|311104988|ref|YP_003977841.1| translation initiation factor IF-2 1036672007097 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 1036672007098 NusA N-terminal domain; Region: NusA_N; pfam08529 1036672007099 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 1036672007100 RNA binding site [nucleotide binding]; other site 1036672007101 homodimer interface [polypeptide binding]; other site 1036672007102 NusA-like KH domain; Region: KH_5; pfam13184 1036672007103 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 1036672007104 G-X-X-G motif; other site 1036672007105 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1036672007106 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1036672007107 Sm and related proteins; Region: Sm_like; cl00259 1036672007108 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1036672007109 putative oligomer interface [polypeptide binding]; other site 1036672007110 putative RNA binding site [nucleotide binding]; other site 1036672007111 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1036672007112 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 1036672007113 RNA binding surface [nucleotide binding]; other site 1036672007114 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 1036672007115 probable active site [active] 1036672007116 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 1036672007117 Hint domain; Region: Hint_2; pfam13403 1036672007118 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1036672007119 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 1036672007120 putative DNA binding site [nucleotide binding]; other site 1036672007121 putative Zn2+ binding site [ion binding]; other site 1036672007122 AsnC family; Region: AsnC_trans_reg; pfam01037 1036672007123 potential frameshift: common BLAST hit: gi|337278140|ref|YP_004617611.1| pyruvate dehydrogenase 1036672007124 potential frameshift: common BLAST hit: gi|330809003|ref|YP_004353465.1| pyruvate dehydrogenase 1036672007125 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 1036672007126 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 1036672007127 active site 1036672007128 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672007129 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 1036672007130 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 1036672007131 active site 1036672007132 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 1036672007133 SnoaL-like domain; Region: SnoaL_4; cl17707 1036672007134 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1036672007135 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 1036672007136 DNA-binding transcriptional activator MhpR; Provisional; Region: PRK09834 1036672007137 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1036672007138 Bacterial transcriptional regulator; Region: IclR; pfam01614 1036672007139 potential frameshift: common BLAST hit: gi|153009213|ref|YP_001370428.1| major facilitator superfamily transporter 1036672007140 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 1036672007141 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1036672007142 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1036672007143 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 1036672007144 YadA-like C-terminal region; Region: YadA; pfam03895 1036672007145 potential frameshift: common BLAST hit: gi|124383310|ref|YP_001025401.1| haloacid dehalogenase 1036672007146 CsbD-like; Region: CsbD; cl17424 1036672007147 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 1036672007148 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 1036672007149 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 1036672007150 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 1036672007151 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 1036672007152 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 1036672007153 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 1036672007154 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 1036672007155 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 1036672007156 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1036672007157 NAD(P) binding site [chemical binding]; other site 1036672007158 homotetramer interface [polypeptide binding]; other site 1036672007159 homodimer interface [polypeptide binding]; other site 1036672007160 active site 1036672007161 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 1036672007162 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 1036672007163 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1036672007164 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 1036672007165 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1036672007166 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1036672007167 active site 1036672007168 Outer membrane lipoprotein; Region: YfiO; pfam13525 1036672007169 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 1036672007170 DEAD/DEAH box helicase; Region: DEAD; pfam00270 1036672007171 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 1036672007172 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1036672007173 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1036672007174 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1036672007175 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1036672007176 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 1036672007177 RNA binding site [nucleotide binding]; other site 1036672007178 potential frameshift: common BLAST hit: gi|311107735|ref|YP_003980588.1| extra-cytoplasmic solute receptor family protein 115 1036672007179 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1036672007180 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1036672007181 inhibitor site; inhibition site 1036672007182 active site 1036672007183 dimer interface [polypeptide binding]; other site 1036672007184 catalytic residue [active] 1036672007185 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672007186 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1036672007187 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 1036672007188 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 1036672007189 Walker A/P-loop; other site 1036672007190 ATP binding site [chemical binding]; other site 1036672007191 Q-loop/lid; other site 1036672007192 ABC transporter signature motif; other site 1036672007193 Walker B; other site 1036672007194 D-loop; other site 1036672007195 H-loop/switch region; other site 1036672007196 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1036672007197 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1036672007198 Walker A/P-loop; other site 1036672007199 ATP binding site [chemical binding]; other site 1036672007200 Q-loop/lid; other site 1036672007201 ABC transporter signature motif; other site 1036672007202 Walker B; other site 1036672007203 D-loop; other site 1036672007204 H-loop/switch region; other site 1036672007205 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1036672007206 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1036672007207 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1036672007208 Walker A/P-loop; other site 1036672007209 ATP binding site [chemical binding]; other site 1036672007210 Q-loop/lid; other site 1036672007211 ABC transporter signature motif; other site 1036672007212 Walker B; other site 1036672007213 D-loop; other site 1036672007214 H-loop/switch region; other site 1036672007215 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1036672007216 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1036672007217 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672007218 dimer interface [polypeptide binding]; other site 1036672007219 conserved gate region; other site 1036672007220 putative PBP binding loops; other site 1036672007221 ABC-ATPase subunit interface; other site 1036672007222 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1036672007223 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672007224 dimer interface [polypeptide binding]; other site 1036672007225 conserved gate region; other site 1036672007226 putative PBP binding loops; other site 1036672007227 ABC-ATPase subunit interface; other site 1036672007228 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1036672007229 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 1036672007230 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 1036672007231 tryptophanyl-tRNA synthetase; Reviewed; Region: PRK12284 1036672007232 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1036672007233 active site 1036672007234 HIGH motif; other site 1036672007235 dimer interface [polypeptide binding]; other site 1036672007236 KMSKS motif; other site 1036672007237 AFG1-like ATPase; Region: AFG1_ATPase; pfam03969 1036672007238 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 1036672007239 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1036672007240 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1036672007241 potential frameshift: common BLAST hit: gi|33602643|ref|NP_890203.1| dihydrolipoamide succinyltransferase 1036672007242 potential frameshift: common BLAST hit: gi|332283683|ref|YP_004415594.1| dihydrolipoamide acetyltransferase 1036672007243 potential frameshift: common BLAST hit: gi|384203562|ref|YP_005589301.1| 2-oxoglutarate dehydrogenase E1 component 1036672007244 potential frameshift: common BLAST hit: gi|33602648|ref|NP_890208.1| malic enzyme 1036672007245 Predicted membrane protein [Function unknown]; Region: COG2259 1036672007246 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 1036672007247 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1036672007248 dimer interface [polypeptide binding]; other site 1036672007249 active site 1036672007250 citrylCoA binding site [chemical binding]; other site 1036672007251 NADH binding [chemical binding]; other site 1036672007252 cationic pore residues; other site 1036672007253 oxalacetate/citrate binding site [chemical binding]; other site 1036672007254 coenzyme A binding site [chemical binding]; other site 1036672007255 catalytic triad [active] 1036672007256 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 1036672007257 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 1036672007258 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1036672007259 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 1036672007260 L-aspartate oxidase; Provisional; Region: PRK06175 1036672007261 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1036672007262 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 1036672007263 SdhC subunit interface [polypeptide binding]; other site 1036672007264 proximal heme binding site [chemical binding]; other site 1036672007265 cardiolipin binding site; other site 1036672007266 Iron-sulfur protein interface; other site 1036672007267 proximal quinone binding site [chemical binding]; other site 1036672007268 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 1036672007269 Iron-sulfur protein interface; other site 1036672007270 proximal quinone binding site [chemical binding]; other site 1036672007271 SdhD (CybS) interface [polypeptide binding]; other site 1036672007272 proximal heme binding site [chemical binding]; other site 1036672007273 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1036672007274 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1036672007275 DNA-binding site [nucleotide binding]; DNA binding site 1036672007276 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1036672007277 potential frameshift: common BLAST hit: gi|311104827|ref|YP_003977680.1| malate dehydrogenase 1036672007278 Members of the ICL/PEPM_KPHMT enzyme superfamily catalyze the formation and cleavage of either P-C or C-C bonds. Typical members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate...; Region: ICL_KPHMT; cl00435 1036672007279 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1036672007280 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 1036672007281 dimer interface [polypeptide binding]; other site 1036672007282 active site 1036672007283 citrylCoA binding site [chemical binding]; other site 1036672007284 oxalacetate/citrate binding site [chemical binding]; other site 1036672007285 coenzyme A binding site [chemical binding]; other site 1036672007286 catalytic triad [active] 1036672007287 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 1036672007288 2-methylcitrate dehydratase; Region: prpD; TIGR02330 1036672007289 Predicted acetyltransferase [General function prediction only]; Region: COG2388 1036672007290 Aconitate B N-terminal domain; Region: Aconitase_B_N; pfam11791 1036672007291 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 1036672007292 substrate binding site [chemical binding]; other site 1036672007293 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 1036672007294 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 1036672007295 substrate binding site [chemical binding]; other site 1036672007296 ligand binding site [chemical binding]; other site 1036672007297 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 1036672007298 dimer interface [polypeptide binding]; other site 1036672007299 ligand binding site [chemical binding]; other site 1036672007300 potential frameshift: common BLAST hit: gi|332286027|ref|YP_004417938.1| aminotransferase 1036672007301 aconitate hydratase; Validated; Region: PRK09277 1036672007302 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1036672007303 substrate binding site [chemical binding]; other site 1036672007304 ligand binding site [chemical binding]; other site 1036672007305 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 1036672007306 substrate binding site [chemical binding]; other site 1036672007307 Protein of unknown function (DUF2863); Region: DUF2863; pfam11062 1036672007308 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 1036672007309 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 1036672007310 elongation factor P; Validated; Region: PRK00529 1036672007311 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1036672007312 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 1036672007313 RNA binding site [nucleotide binding]; other site 1036672007314 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 1036672007315 RNA binding site [nucleotide binding]; other site 1036672007316 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 1036672007317 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 1036672007318 Protein of unknown function (DUF533); Region: DUF533; pfam04391 1036672007319 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 1036672007320 putative metal binding site [ion binding]; other site 1036672007321 potential frameshift: common BLAST hit: gi|70734302|ref|YP_257942.1| FAD dependent oxidoreductase 1036672007322 potential frameshift: common BLAST hit: gi|70734302|ref|YP_257942.1| FAD dependent oxidoreductase 1036672007323 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1036672007324 Mycobacterium tuberculosis CorA-like subfamily; Region: MtCorA-like; cd12830 1036672007325 oligomer interface [polypeptide binding]; other site 1036672007326 metal binding site [ion binding]; metal-binding site 1036672007327 metal binding site [ion binding]; metal-binding site 1036672007328 putative Cl binding site [ion binding]; other site 1036672007329 basic sphincter; other site 1036672007330 hydrophobic gate; other site 1036672007331 periplasmic entrance; other site 1036672007332 potential frameshift: common BLAST hit: gi|146282285|ref|YP_001172438.1| acyl-CoA dehydrogenase 1036672007333 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1036672007334 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 1036672007335 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 1036672007336 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1036672007337 putative ligand binding site [chemical binding]; other site 1036672007338 NAD binding site [chemical binding]; other site 1036672007339 catalytic site [active] 1036672007340 potential frameshift: common BLAST hit: gi|311107713|ref|YP_003980566.1| aspartate kinase 1036672007341 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 1036672007342 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 1036672007343 inhibitor-cofactor binding pocket; inhibition site 1036672007344 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1036672007345 catalytic residue [active] 1036672007346 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1036672007347 AAA domain; Region: AAA_26; pfam13500 1036672007348 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 1036672007349 AAA domain; Region: AAA_26; pfam13500 1036672007350 potential frameshift: common BLAST hit: gi|88608742|ref|YP_506493.1| 8-amino-7-oxononanoate synthase 1036672007351 potential frameshift: common BLAST hit: gi|94986865|ref|YP_594798.1| 7-keto-8-aminopelargonate synthetase and related enzymes 1036672007352 Transcriptional regulator [Transcription]; Region: PaiB; COG2808 1036672007353 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1036672007354 Coenzyme A binding pocket [chemical binding]; other site 1036672007355 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1036672007356 Ferritin-like domain; Region: Ferritin; pfam00210 1036672007357 dinuclear metal binding motif [ion binding]; other site 1036672007358 Entericidin EcnA/B family; Region: Entericidin; cl02322 1036672007359 Hemerythrin-like domain; Region: Hr-like; cd12108 1036672007360 Fe binding site [ion binding]; other site 1036672007361 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1036672007362 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1036672007363 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1036672007364 HlyD family secretion protein; Region: HlyD_3; pfam13437 1036672007365 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1036672007366 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1036672007367 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1036672007368 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1036672007369 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 1036672007370 active site 2 [active] 1036672007371 active site 1 [active] 1036672007372 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1036672007373 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1036672007374 active site 1036672007375 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1036672007376 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1036672007377 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672007378 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1036672007379 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1036672007380 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672007381 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 1036672007382 dimerization interface [polypeptide binding]; other site 1036672007383 substrate binding pocket [chemical binding]; other site 1036672007384 Amidohydrolase; Region: Amidohydro_2; pfam04909 1036672007385 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672007386 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1036672007387 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672007388 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 1036672007389 putative dimerization interface [polypeptide binding]; other site 1036672007390 potential frameshift: common BLAST hit: gi|92116445|ref|YP_576174.1| catalase 1036672007391 potential frameshift: common BLAST hit: gi|82702847|ref|YP_412413.1| putative glutathione S-transferase 1036672007392 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1036672007393 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1036672007394 putative substrate translocation pore; other site 1036672007395 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1036672007396 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1036672007397 Domain of unknown function (DU1801); Region: DUF1801; cl17490 1036672007398 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1036672007399 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 1036672007400 Bacterial transcriptional regulator; Region: IclR; pfam01614 1036672007401 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672007402 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1036672007403 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 1036672007404 substrate binding site [chemical binding]; other site 1036672007405 oxyanion hole (OAH) forming residues; other site 1036672007406 trimer interface [polypeptide binding]; other site 1036672007407 CoA binding domain; Region: CoA_binding_2; pfam13380 1036672007408 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 1036672007409 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 1036672007410 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 1036672007411 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1036672007412 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 1036672007413 FMN-binding pocket [chemical binding]; other site 1036672007414 flavin binding motif; other site 1036672007415 phosphate binding motif [ion binding]; other site 1036672007416 beta-alpha-beta structure motif; other site 1036672007417 NAD binding pocket [chemical binding]; other site 1036672007418 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 1036672007419 catalytic loop [active] 1036672007420 iron binding site [ion binding]; other site 1036672007421 potential frameshift: common BLAST hit: gi|145589724|ref|YP_001156321.1| Rieske (2Fe-2S) domain-containing protein 1036672007422 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1036672007423 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1036672007424 DNA-binding site [nucleotide binding]; DNA binding site 1036672007425 FCD domain; Region: FCD; pfam07729 1036672007426 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 1036672007427 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1036672007428 putative substrate translocation pore; other site 1036672007429 hypothetical protein; Provisional; Region: PRK06208 1036672007430 intersubunit interface [polypeptide binding]; other site 1036672007431 active site 1036672007432 Zn2+ binding site [ion binding]; other site 1036672007433 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1036672007434 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672007435 The 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 1036672007436 dimerization interface [polypeptide binding]; other site 1036672007437 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1036672007438 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1036672007439 C-terminal, alpha helical domain of an unknown subfamily 5 of Glutathione S-transferases; Region: GST_C_5; cd03196 1036672007440 putative N-terminal domain interface [polypeptide binding]; other site 1036672007441 putative dimer interface [polypeptide binding]; other site 1036672007442 putative substrate binding pocket (H-site) [chemical binding]; other site 1036672007443 quinohemoprotein amine dehydrogenase, alpha subunit; Region: QH_alpha; TIGR03908 1036672007444 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 1036672007445 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 1036672007446 Moco binding site; other site 1036672007447 metal coordination site [ion binding]; other site 1036672007448 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 1036672007449 TilS substrate binding domain; Region: TilS; pfam09179 1036672007450 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 1036672007451 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 1036672007452 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1036672007453 endonuclease III; Region: ENDO3c; smart00478 1036672007454 minor groove reading motif; other site 1036672007455 helix-hairpin-helix signature motif; other site 1036672007456 substrate binding pocket [chemical binding]; other site 1036672007457 active site 1036672007458 potential frameshift: common BLAST hit: gi|332283464|ref|YP_004415375.1| cysteinyl-tRNA synthetase 1036672007459 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 1036672007460 binding surface 1036672007461 TPR repeat; Region: TPR_11; pfam13414 1036672007462 TPR motif; other site 1036672007463 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 1036672007464 substrate binding site [chemical binding]; other site 1036672007465 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1036672007466 enoyl-CoA hydratase; Provisional; Region: PRK08140 1036672007467 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 1036672007468 substrate binding site [chemical binding]; other site 1036672007469 oxyanion hole (OAH) forming residues; other site 1036672007470 trimer interface [polypeptide binding]; other site 1036672007471 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 1036672007472 DUF35 OB-fold domain; Region: DUF35; pfam01796 1036672007473 thiolase; Provisional; Region: PRK06158 1036672007474 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 1036672007475 active site 1036672007476 potential frameshift: common BLAST hit: gi|163855946|ref|YP_001630244.1| 3-oxoadipate CoA-transferase subunit A 1036672007477 Coenzyme A transferase; Region: CoA_trans; cl17247 1036672007478 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672007479 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672007480 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672007481 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672007482 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1036672007483 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1036672007484 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 1036672007485 Transporter associated domain; Region: CorC_HlyC; smart01091 1036672007486 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1036672007487 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672007488 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 1036672007489 putative dimerization interface [polypeptide binding]; other site 1036672007490 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1036672007491 NAD(P) binding site [chemical binding]; other site 1036672007492 sorbitol-6-phosphate 2-dehydrogenase; Provisional; Region: PRK06171 1036672007493 active site 1036672007494 enoyl-CoA hydratase; Region: PLN02864 1036672007495 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 1036672007496 HDE_HSD The R-hydratase-like hot dog fold of the 17-beta-hydroxysteriod dehydrogenase (HSD), and Hydratase-Dehydrogenase-Epimerase (HDE) proteins. Other enzymes with this fold include MaoC dehydratase, and the fatty acid synthase beta subunit; Region: HDE_HSD; cd03448 1036672007497 dimer interaction site [polypeptide binding]; other site 1036672007498 substrate-binding tunnel; other site 1036672007499 active site 1036672007500 catalytic site [active] 1036672007501 substrate binding site [chemical binding]; other site 1036672007502 potential frameshift: common BLAST hit: gi|348589975|ref|YP_004874437.1| undecaprenyl-diphosphatase 1036672007503 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1036672007504 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 1036672007505 active site 1036672007506 dimerization interface [polypeptide binding]; other site 1036672007507 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 1036672007508 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1036672007509 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1036672007510 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1036672007511 AMP nucleosidase; Provisional; Region: PRK08292 1036672007512 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 1036672007513 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 1036672007514 Predicted permeases [General function prediction only]; Region: COG0679 1036672007515 Membrane transport protein; Region: Mem_trans; cl09117 1036672007516 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 1036672007517 NAD binding site [chemical binding]; other site 1036672007518 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 1036672007519 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 1036672007520 catalytic triad [active] 1036672007521 metal binding site [ion binding]; metal-binding site 1036672007522 conserved cis-peptide bond; other site 1036672007523 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1036672007524 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1036672007525 Walker A/P-loop; other site 1036672007526 ATP binding site [chemical binding]; other site 1036672007527 Q-loop/lid; other site 1036672007528 ABC transporter signature motif; other site 1036672007529 Walker B; other site 1036672007530 D-loop; other site 1036672007531 H-loop/switch region; other site 1036672007532 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1036672007533 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672007534 dimer interface [polypeptide binding]; other site 1036672007535 conserved gate region; other site 1036672007536 putative PBP binding loops; other site 1036672007537 ABC-ATPase subunit interface; other site 1036672007538 potential frameshift: common BLAST hit: gi|332284790|ref|YP_004416701.1| amino acid ABC transporter permease 1036672007539 ectoine/hydroxyectoine ABC transporter solute-binding protein; Region: ectoine_ehuB; TIGR02995 1036672007540 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 1036672007541 substrate binding pocket [chemical binding]; other site 1036672007542 membrane-bound complex binding site; other site 1036672007543 hinge residues; other site 1036672007544 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1036672007545 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1036672007546 inhibitor site; inhibition site 1036672007547 active site 1036672007548 dimer interface [polypeptide binding]; other site 1036672007549 catalytic residue [active] 1036672007550 potential frameshift: common BLAST hit: gi|153010662|ref|YP_001371876.1| mandelate racemase/muconate lactonizing protein 1036672007551 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672007552 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672007553 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672007554 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1036672007555 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1036672007556 DNA-binding site [nucleotide binding]; DNA binding site 1036672007557 FCD domain; Region: FCD; pfam07729 1036672007558 potential frameshift: common BLAST hit: gi|33596868|ref|NP_884511.1| DNA mismatch repair protein MutS 1036672007559 potential frameshift: common BLAST hit: gi|33600645|ref|NP_888205.1| DNA mismatch repair protein MutS 1036672007560 Uncharacterized conserved protein [Function unknown]; Region: COG2850 1036672007561 Cupin-like domain; Region: Cupin_8; pfam13621 1036672007562 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1036672007563 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 1036672007564 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1036672007565 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1036672007566 dimer interface [polypeptide binding]; other site 1036672007567 active site 1036672007568 catalytic residue [active] 1036672007569 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1036672007570 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 1036672007571 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 1036672007572 active site 1036672007573 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 1036672007574 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1036672007575 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672007576 The 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 1036672007577 dimerization interface [polypeptide binding]; other site 1036672007578 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1036672007579 potential frameshift: common BLAST hit: gi|110634813|ref|YP_675021.1| choline/carnitine/betaine transporter 1036672007580 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 1036672007581 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 1036672007582 Putative catalytic domain, repeat 1, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_1; cd09157 1036672007583 putative active site [active] 1036672007584 catalytic site [active] 1036672007585 Putative catalytic domain, repeat 2, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_2; cd09163 1036672007586 putative active site [active] 1036672007587 catalytic site [active] 1036672007588 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 1036672007589 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 1036672007590 dimer interface [polypeptide binding]; other site 1036672007591 PYR/PP interface [polypeptide binding]; other site 1036672007592 TPP binding site [chemical binding]; other site 1036672007593 substrate binding site [chemical binding]; other site 1036672007594 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 1036672007595 TPP-binding site; other site 1036672007596 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 1036672007597 Domain of unknown function (DUF336); Region: DUF336; cl01249 1036672007598 glutamate dehydrogenase; Provisional; Region: PRK09414 1036672007599 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1036672007600 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 1036672007601 NAD(P) binding pocket [chemical binding]; other site 1036672007602 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1036672007603 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1036672007604 RNase E interface [polypeptide binding]; other site 1036672007605 trimer interface [polypeptide binding]; other site 1036672007606 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1036672007607 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1036672007608 RNase E interface [polypeptide binding]; other site 1036672007609 trimer interface [polypeptide binding]; other site 1036672007610 active site 1036672007611 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 1036672007612 putative nucleic acid binding region [nucleotide binding]; other site 1036672007613 G-X-X-G motif; other site 1036672007614 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 1036672007615 RNA binding site [nucleotide binding]; other site 1036672007616 domain interface; other site 1036672007617 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 1036672007618 16S/18S rRNA binding site [nucleotide binding]; other site 1036672007619 S13e-L30e interaction site [polypeptide binding]; other site 1036672007620 25S rRNA binding site [nucleotide binding]; other site 1036672007621 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 1036672007622 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1036672007623 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 1036672007624 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 1036672007625 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1036672007626 substrate binding pocket [chemical binding]; other site 1036672007627 membrane-bound complex binding site; other site 1036672007628 hinge residues; other site 1036672007629 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1036672007630 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672007631 dimer interface [polypeptide binding]; other site 1036672007632 conserved gate region; other site 1036672007633 putative PBP binding loops; other site 1036672007634 ABC-ATPase subunit interface; other site 1036672007635 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1036672007636 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672007637 dimer interface [polypeptide binding]; other site 1036672007638 conserved gate region; other site 1036672007639 putative PBP binding loops; other site 1036672007640 ABC-ATPase subunit interface; other site 1036672007641 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1036672007642 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1036672007643 Walker A/P-loop; other site 1036672007644 ATP binding site [chemical binding]; other site 1036672007645 Q-loop/lid; other site 1036672007646 ABC transporter signature motif; other site 1036672007647 Walker B; other site 1036672007648 D-loop; other site 1036672007649 H-loop/switch region; other site 1036672007650 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 1036672007651 active site 1036672007652 Thiolase, N-terminal domain; Region: Thiolase_N; pfam00108 1036672007653 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 1036672007654 dimer interface [polypeptide binding]; other site 1036672007655 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 1036672007656 Coenzyme A transferase; Region: CoA_trans; cl17247 1036672007657 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08314 1036672007658 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1036672007659 Putative long-chain fatty acid CoA ligase; Region: LC_FACS_like; cd05935 1036672007660 acyl-activating enzyme (AAE) consensus motif; other site 1036672007661 putative AMP binding site [chemical binding]; other site 1036672007662 putative active site [active] 1036672007663 putative CoA binding site [chemical binding]; other site 1036672007664 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 1036672007665 active site 1036672007666 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 1036672007667 dimer interface [polypeptide binding]; other site 1036672007668 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1036672007669 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 1036672007670 substrate binding site [chemical binding]; other site 1036672007671 oxyanion hole (OAH) forming residues; other site 1036672007672 trimer interface [polypeptide binding]; other site 1036672007673 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1036672007674 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 1036672007675 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 1036672007676 FAD binding site [chemical binding]; other site 1036672007677 substrate binding site [chemical binding]; other site 1036672007678 catalytic base [active] 1036672007679 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 1036672007680 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1036672007681 active site 1036672007682 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 1036672007683 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 1036672007684 CoenzymeA binding site [chemical binding]; other site 1036672007685 subunit interaction site [polypeptide binding]; other site 1036672007686 PHB binding site; other site 1036672007687 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1036672007688 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1036672007689 Bacterial transcriptional regulator; Region: IclR; pfam01614 1036672007690 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1036672007691 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 1036672007692 FMN binding site [chemical binding]; other site 1036672007693 substrate binding site [chemical binding]; other site 1036672007694 putative catalytic residue [active] 1036672007695 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 1036672007696 substrate binding site [chemical binding]; other site 1036672007697 oxyanion hole (OAH) forming residues; other site 1036672007698 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 1036672007699 trimer interface [polypeptide binding]; other site 1036672007700 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1036672007701 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1036672007702 active site 1036672007703 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1036672007704 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1036672007705 active site 1036672007706 potential frameshift: common BLAST hit: gi|94310780|ref|YP_583990.1| extra-cytoplasmic solute receptor protein 1036672007707 Nitroreductase-like family 4. 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_4; cd02140 1036672007708 dimer interface [polypeptide binding]; other site 1036672007709 FMN binding site [chemical binding]; other site 1036672007710 potential frameshift: common BLAST hit: gi|116695023|ref|YP_840599.1| extra-cytoplasmic solute receptor 1036672007711 D-amino acid dehydrogenase small subunit; Provisional; Region: PRK12409 1036672007712 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1036672007713 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1036672007714 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1036672007715 Walker A/P-loop; other site 1036672007716 ATP binding site [chemical binding]; other site 1036672007717 Q-loop/lid; other site 1036672007718 ABC transporter signature motif; other site 1036672007719 Walker B; other site 1036672007720 D-loop; other site 1036672007721 H-loop/switch region; other site 1036672007722 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1036672007723 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672007724 dimer interface [polypeptide binding]; other site 1036672007725 conserved gate region; other site 1036672007726 putative PBP binding loops; other site 1036672007727 ABC-ATPase subunit interface; other site 1036672007728 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1036672007729 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672007730 dimer interface [polypeptide binding]; other site 1036672007731 conserved gate region; other site 1036672007732 putative PBP binding loops; other site 1036672007733 ABC-ATPase subunit interface; other site 1036672007734 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 1036672007735 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 1036672007736 substrate binding pocket [chemical binding]; other site 1036672007737 membrane-bound complex binding site; other site 1036672007738 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 1036672007739 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672007740 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 1036672007741 putative dimerization interface [polypeptide binding]; other site 1036672007742 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672007743 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 1036672007744 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1036672007745 homodimer interface [polypeptide binding]; other site 1036672007746 catalytic residue [active] 1036672007747 putative aminotransferase; Provisional; Region: PRK12414 1036672007748 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 1036672007749 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 1036672007750 substrate binding pocket [chemical binding]; other site 1036672007751 membrane-bound complex binding site; other site 1036672007752 hinge residues; other site 1036672007753 ketol-acid reductoisomerase; Provisional; Region: PRK05479 1036672007754 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1036672007755 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1036672007756 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1036672007757 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1036672007758 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1036672007759 putative valine binding site [chemical binding]; other site 1036672007760 dimer interface [polypeptide binding]; other site 1036672007761 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1036672007762 potential frameshift: common BLAST hit: gi|332285147|ref|YP_004417058.1| acetolactate synthase isozyme III large subunit 1036672007763 potential frameshift: common BLAST hit: gi|187479148|ref|YP_787173.1| membrane protein 1036672007764 potential frameshift: common BLAST hit: gi|187479148|ref|YP_787173.1| membrane protein 1036672007765 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1036672007766 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1036672007767 putative substrate translocation pore; other site 1036672007768 hypothetical protein; Validated; Region: PRK02101 1036672007769 seryl-tRNA synthetase; Provisional; Region: PRK05431 1036672007770 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1036672007771 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 1036672007772 dimer interface [polypeptide binding]; other site 1036672007773 active site 1036672007774 motif 1; other site 1036672007775 motif 2; other site 1036672007776 motif 3; other site 1036672007777 recombination factor protein RarA; Reviewed; Region: PRK13342 1036672007778 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 1036672007779 Walker A motif; other site 1036672007780 ATP binding site [chemical binding]; other site 1036672007781 Walker B motif; other site 1036672007782 arginine finger; other site 1036672007783 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1036672007784 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 1036672007785 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 1036672007786 potential frameshift: common BLAST hit: gi|163855884|ref|YP_001630182.1| cell division protein 1036672007787 potential frameshift: common BLAST hit: gi|332285172|ref|YP_004417083.1| thioredoxin reductase 1036672007788 Smr domain; Region: Smr; pfam01713 1036672007789 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 1036672007790 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 1036672007791 active site residue [active] 1036672007792 tricarballylate utilization protein B; Provisional; Region: PRK15033 1036672007793 tricarballylate utilization protein B; Provisional; Region: PRK15033 1036672007794 tricarballylate dehydrogenase; Validated; Region: PRK08274 1036672007795 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1036672007796 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1036672007797 DNA-binding site [nucleotide binding]; DNA binding site 1036672007798 FCD domain; Region: FCD; pfam07729 1036672007799 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672007800 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1036672007801 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672007802 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 1036672007803 putative effector binding pocket; other site 1036672007804 putative dimerization interface [polypeptide binding]; other site 1036672007805 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1036672007806 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 1. 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_1; cd03326 1036672007807 putative active site pocket [active] 1036672007808 metal binding site [ion binding]; metal-binding site 1036672007809 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672007810 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 1036672007811 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 1036672007812 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 1036672007813 Cytochrome c; Region: Cytochrom_C; cl11414 1036672007814 potential frameshift: common BLAST hit: gi|332285178|ref|YP_004417089.1| cytochrome 1036672007815 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 1036672007816 Walker A motif; other site 1036672007817 ATP binding site [chemical binding]; other site 1036672007818 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 1036672007819 TOBE domain; Region: TOBE; cl01440 1036672007820 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1036672007821 ABC transporter; Region: ABC_tran; pfam00005 1036672007822 Q-loop/lid; other site 1036672007823 ABC transporter signature motif; other site 1036672007824 Walker B; other site 1036672007825 D-loop; other site 1036672007826 H-loop/switch region; other site 1036672007827 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672007828 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1036672007829 dimer interface [polypeptide binding]; other site 1036672007830 conserved gate region; other site 1036672007831 putative PBP binding loops; other site 1036672007832 ABC-ATPase subunit interface; other site 1036672007833 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 1036672007834 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1036672007835 MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase, which catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The family also includes the C-terminal domain in carbamoyl phosphate...; Region: MGS-like; cl00245 1036672007836 substrate binding site [chemical binding]; other site 1036672007837 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 1036672007838 chaperone protein DnaJ; Provisional; Region: PRK10767 1036672007839 HSP70 interaction site [polypeptide binding]; other site 1036672007840 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1036672007841 substrate binding site [polypeptide binding]; other site 1036672007842 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1036672007843 Zn binding sites [ion binding]; other site 1036672007844 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1036672007845 dimer interface [polypeptide binding]; other site 1036672007846 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1036672007847 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 1036672007848 nucleotide binding site [chemical binding]; other site 1036672007849 NEF interaction site [polypeptide binding]; other site 1036672007850 SBD interface [polypeptide binding]; other site 1036672007851 GrpE; Region: GrpE; pfam01025 1036672007852 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 1036672007853 dimer interface [polypeptide binding]; other site 1036672007854 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1036672007855 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 1036672007856 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 1036672007857 MOSC domain; Region: MOSC; pfam03473 1036672007858 ferrochelatase; Reviewed; Region: hemH; PRK00035 1036672007859 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 1036672007860 C-terminal domain interface [polypeptide binding]; other site 1036672007861 active site 1036672007862 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 1036672007863 active site 1036672007864 N-terminal domain interface [polypeptide binding]; other site 1036672007865 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 1036672007866 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 1036672007867 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 1036672007868 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 1036672007869 potential frameshift: common BLAST hit: gi|311104368|ref|YP_003977221.1| DNA repair protein RecN 1036672007870 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1036672007871 metal binding site 2 [ion binding]; metal-binding site 1036672007872 putative DNA binding helix; other site 1036672007873 metal binding site 1 [ion binding]; metal-binding site 1036672007874 dimer interface [polypeptide binding]; other site 1036672007875 structural Zn2+ binding site [ion binding]; other site 1036672007876 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 1036672007877 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1036672007878 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1036672007879 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1036672007880 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1036672007881 potential frameshift: common BLAST hit: gi|311104364|ref|YP_003977217.1| UDP-N-acetylenolpyruvoylglucosamine reductase 1036672007882 HipA N-terminal domain; Region: Couple_hipA; pfam13657 1036672007883 HipA-like N-terminal domain; Region: HipA_N; pfam07805 1036672007884 HipA-like C-terminal domain; Region: HipA_C; pfam07804 1036672007885 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1036672007886 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 1036672007887 non-specific DNA binding site [nucleotide binding]; other site 1036672007888 salt bridge; other site 1036672007889 sequence-specific DNA binding site [nucleotide binding]; other site 1036672007890 metabolite-proton symporter; Region: 2A0106; TIGR00883 1036672007891 potential frameshift: common BLAST hit: gi|311108523|ref|YP_003981376.1| ubiquinol oxidase subunit II 2 1036672007892 cytochrome o ubiquinol oxidase, subunit I; Region: CyoB; TIGR02843 1036672007893 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1036672007894 cytochrome o ubiquinol oxidase, subunit I; Region: CyoB; TIGR02843 1036672007895 cytochrome o ubiquinol oxidase, subunit I; Region: CyoB; TIGR02843 1036672007896 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 1036672007897 Subunit III/IV interface [polypeptide binding]; other site 1036672007898 Subunit I/III interface [polypeptide binding]; other site 1036672007899 Heme/copper-type cytochrome/quinol oxidase, subunit 4 [Energy production and conversion]; Region: CyoD; COG3125 1036672007900 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 1036672007901 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1036672007902 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 1036672007903 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1036672007904 ATP binding site [chemical binding]; other site 1036672007905 Mg2+ binding site [ion binding]; other site 1036672007906 G-X-G motif; other site 1036672007907 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 1036672007908 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1036672007909 active site 1036672007910 phosphorylation site [posttranslational modification] 1036672007911 intermolecular recognition site; other site 1036672007912 dimerization interface [polypeptide binding]; other site 1036672007913 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1036672007914 potential frameshift: common BLAST hit: gi|186472755|ref|YP_001860097.1| glycosyl transferase family protein 1036672007915 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1036672007916 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1036672007917 potential frameshift: common BLAST hit: gi|300697900|ref|YP_003748561.1| transcriptional regulator 1036672007918 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 1036672007919 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1036672007920 non-specific DNA binding site [nucleotide binding]; other site 1036672007921 salt bridge; other site 1036672007922 sequence-specific DNA binding site [nucleotide binding]; other site 1036672007923 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1036672007924 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 1036672007925 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1036672007926 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1036672007927 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 1036672007928 motif II; other site 1036672007929 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1036672007930 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1036672007931 Walker A/P-loop; other site 1036672007932 ATP binding site [chemical binding]; other site 1036672007933 Q-loop/lid; other site 1036672007934 ABC transporter signature motif; other site 1036672007935 Walker B; other site 1036672007936 D-loop; other site 1036672007937 H-loop/switch region; other site 1036672007938 TOBE domain; Region: TOBE_2; pfam08402 1036672007939 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672007940 dimer interface [polypeptide binding]; other site 1036672007941 conserved gate region; other site 1036672007942 ABC-ATPase subunit interface; other site 1036672007943 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1036672007944 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672007945 dimer interface [polypeptide binding]; other site 1036672007946 conserved gate region; other site 1036672007947 putative PBP binding loops; other site 1036672007948 ABC-ATPase subunit interface; other site 1036672007949 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1036672007950 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1036672007951 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1036672007952 potential frameshift: common BLAST hit: gi|339502475|ref|YP_004689895.1| calcineurin-like phosphoesterase 1036672007953 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 1036672007954 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1036672007955 putative active site [active] 1036672007956 putative metal binding site [ion binding]; other site 1036672007957 L-type amino acid transporter; Region: 2A0308; TIGR00911 1036672007958 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1036672007959 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 1036672007960 S-adenosylmethionine binding site [chemical binding]; other site 1036672007961 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1036672007962 Putative D-3-Phosphoglycerate Dehydrogenases; Region: PGDH_like_1; cd12169 1036672007963 dimerization interface [polypeptide binding]; other site 1036672007964 NAD binding site [chemical binding]; other site 1036672007965 ligand binding site [chemical binding]; other site 1036672007966 catalytic site [active] 1036672007967 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 1036672007968 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672007969 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 1036672007970 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1036672007971 DNA-binding site [nucleotide binding]; DNA binding site 1036672007972 FCD domain; Region: FCD; pfam07729 1036672007973 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1036672007974 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 1036672007975 tetramer interface [polypeptide binding]; other site 1036672007976 active site 1036672007977 Mg2+/Mn2+ binding site [ion binding]; other site 1036672007978 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 1036672007979 active site 1036672007980 Zn binding site [ion binding]; other site 1036672007981 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672007982 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1036672007983 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672007984 The 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 1036672007985 dimerization interface [polypeptide binding]; other site 1036672007986 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 1036672007987 putative acyl-CoA synthetase; Provisional; Region: PRK06018 1036672007988 dimer interface [polypeptide binding]; other site 1036672007989 acyl-activating enzyme (AAE) consensus motif; other site 1036672007990 putative active site [active] 1036672007991 AMP binding site [chemical binding]; other site 1036672007992 putative CoA binding site [chemical binding]; other site 1036672007993 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 1036672007994 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 1036672007995 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 1036672007996 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1036672007997 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1036672007998 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 1036672007999 DNA binding site [nucleotide binding] 1036672008000 active site 1036672008001 potential frameshift: common BLAST hit: gi|311106162|ref|YP_003979015.1| dehydratase 1036672008002 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1036672008003 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1036672008004 DNA-binding site [nucleotide binding]; DNA binding site 1036672008005 FCD domain; Region: FCD; pfam07729 1036672008006 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 1036672008007 Fasciclin domain; Region: Fasciclin; pfam02469 1036672008008 RNA polymerase sigma factor; Provisional; Region: PRK12534 1036672008009 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1036672008010 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 1036672008011 DNA binding residues [nucleotide binding] 1036672008012 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5343 1036672008013 Anti-sigma-K factor rskA; Region: RskA; pfam10099 1036672008014 potential frameshift: common BLAST hit: gi|189353450|ref|YP_001949077.1| transporter component 1036672008015 Bacterial protein of unknown function (DUF937); Region: DUF937; pfam06078 1036672008016 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1036672008017 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1036672008018 ligand binding site [chemical binding]; other site 1036672008019 Prokaryotic phenylalanine-4-hydroxylase (pro_PheOH); a member of the biopterin-dependent aromatic amino acid hydroxylase family of non-heme, iron(II)-dependent enzymes that also includes the eukaryotic proteins, phenylalanine-4-hydroxylase (eu_PheOH); Region: pro_PheOH; cd03348 1036672008020 cofactor binding site; other site 1036672008021 metal binding site [ion binding]; metal-binding site 1036672008022 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_b; cd00914 1036672008023 aromatic arch; other site 1036672008024 DCoH dimer interaction site [polypeptide binding]; other site 1036672008025 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 1036672008026 DCoH tetramer interaction site [polypeptide binding]; other site 1036672008027 substrate binding site [chemical binding]; other site 1036672008028 Protein of unknown function (DUF2946); Region: DUF2944; pfam11161 1036672008029 potential frameshift: common BLAST hit: gi|187479223|ref|YP_787248.1| NUDIX hydrolase 1036672008030 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 1036672008031 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 1036672008032 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 1036672008033 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 1036672008034 potential frameshift: common BLAST hit: gi|311104232|ref|YP_003977085.1| dihydroorotate oxidase 1036672008035 Phasin protein; Region: Phasin_2; pfam09361 1036672008036 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1036672008037 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1036672008038 Bacterial transcriptional regulator; Region: IclR; pfam01614 1036672008039 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 1036672008040 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 1036672008041 putative MPT binding site; other site 1036672008042 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 1036672008043 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 1036672008044 catalytic residues [active] 1036672008045 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 1036672008046 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1036672008047 ATP binding site [chemical binding]; other site 1036672008048 Mg++ binding site [ion binding]; other site 1036672008049 motif III; other site 1036672008050 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 1036672008051 nucleotide binding region [chemical binding]; other site 1036672008052 ATP-binding site [chemical binding]; other site 1036672008053 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 1036672008054 AzlC protein; Region: AzlC; pfam03591 1036672008055 Zinc-finger domain; Region: zf-CHCC; cl01821 1036672008056 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 1036672008057 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 1036672008058 potential frameshift: common BLAST hit: gi|163855220|ref|YP_001629518.1| inner membrane protein 1036672008059 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1036672008060 hypothetical protein; Provisional; Region: PRK06996 1036672008061 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 1036672008062 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 1036672008063 FMN binding site [chemical binding]; other site 1036672008064 active site 1036672008065 catalytic residues [active] 1036672008066 substrate binding site [chemical binding]; other site 1036672008067 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1036672008068 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1036672008069 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 1036672008070 purine monophosphate binding site [chemical binding]; other site 1036672008071 dimer interface [polypeptide binding]; other site 1036672008072 putative catalytic residues [active] 1036672008073 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1036672008074 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1036672008075 potential frameshift: common BLAST hit: gi|33602976|ref|NP_890536.1| Holliday junction resolvase 1036672008076 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1036672008077 RuvA N terminal domain; Region: RuvA_N; pfam01330 1036672008078 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1036672008079 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1036672008080 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1036672008081 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1036672008082 DctM-like transporters; Region: DctM; pfam06808 1036672008083 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1036672008084 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1036672008085 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 1036672008086 Walker A motif; other site 1036672008087 ATP binding site [chemical binding]; other site 1036672008088 Walker B motif; other site 1036672008089 arginine finger; other site 1036672008090 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1036672008091 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1036672008092 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1036672008093 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 1036672008094 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 1036672008095 N-terminal plug; other site 1036672008096 ligand-binding site [chemical binding]; other site 1036672008097 siderophore ferric iron reductase, AHA_1954 family; Region: sidero_Fe_reduc; TIGR03950 1036672008098 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 1036672008099 Catalytic NodB homology domain of uncharacterized bacterial polysaccharide deacetylases; Region: CE4_NodB_like_1; cd10960 1036672008100 NodB motif; other site 1036672008101 putative active site [active] 1036672008102 putative catalytic site [active] 1036672008103 putative Zn binding site [ion binding]; other site 1036672008104 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 1036672008105 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 1036672008106 ATP binding site [chemical binding]; other site 1036672008107 putative Mg++ binding site [ion binding]; other site 1036672008108 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 1036672008109 nucleotide binding region [chemical binding]; other site 1036672008110 ATP-binding site [chemical binding]; other site 1036672008111 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 1036672008112 HRDC domain; Region: HRDC; pfam00570 1036672008113 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 1036672008114 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 1036672008115 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 1036672008116 thiS-thiF/thiG interaction site; other site 1036672008117 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 1036672008118 ThiS interaction site; other site 1036672008119 putative active site [active] 1036672008120 tetramer interface [polypeptide binding]; other site 1036672008121 AzlC protein; Region: AzlC; pfam03591 1036672008122 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 1036672008123 CsbD-like; Region: CsbD; cl17424 1036672008124 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 1036672008125 potential frameshift: common BLAST hit: gi|56479311|ref|YP_160900.1| aconitate hydratase 1036672008126 potential frameshift: common BLAST hit: gi|332285865|ref|YP_004417776.1| aconitate hydratase 1036672008127 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 1036672008128 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1036672008129 Walker A/P-loop; other site 1036672008130 ATP binding site [chemical binding]; other site 1036672008131 Q-loop/lid; other site 1036672008132 ABC transporter signature motif; other site 1036672008133 Walker B; other site 1036672008134 D-loop; other site 1036672008135 H-loop/switch region; other site 1036672008136 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1036672008137 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 1036672008138 ABC-ATPase subunit interface; other site 1036672008139 dimer interface [polypeptide binding]; other site 1036672008140 putative PBP binding regions; other site 1036672008141 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 1036672008142 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1036672008143 intersubunit interface [polypeptide binding]; other site 1036672008144 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 1036672008145 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 1036672008146 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 1036672008147 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 1036672008148 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 1036672008149 N-terminal plug; other site 1036672008150 ligand-binding site [chemical binding]; other site 1036672008151 Pirin; Region: Pirin; pfam02678 1036672008152 Pirin-related protein [General function prediction only]; Region: COG1741 1036672008153 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1036672008154 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 1036672008155 potential frameshift: common BLAST hit: gi|89900847|ref|YP_523318.1| patatin 1036672008156 potential frameshift: common BLAST hit: gi|89900847|ref|YP_523318.1| patatin 1036672008157 Uncharacterized BCR, YnfA/UPF0060 family; Region: UPF0060; cl00757 1036672008158 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 1036672008159 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 1036672008160 E-class dimer interface [polypeptide binding]; other site 1036672008161 P-class dimer interface [polypeptide binding]; other site 1036672008162 active site 1036672008163 Cu2+ binding site [ion binding]; other site 1036672008164 Zn2+ binding site [ion binding]; other site 1036672008165 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 1036672008166 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1036672008167 TM-ABC transporter signature motif; other site 1036672008168 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1036672008169 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 1036672008170 TM-ABC transporter signature motif; other site 1036672008171 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1036672008172 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1036672008173 Walker A/P-loop; other site 1036672008174 ATP binding site [chemical binding]; other site 1036672008175 Q-loop/lid; other site 1036672008176 ABC transporter signature motif; other site 1036672008177 Walker B; other site 1036672008178 D-loop; other site 1036672008179 H-loop/switch region; other site 1036672008180 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 1036672008181 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1036672008182 Walker A/P-loop; other site 1036672008183 ATP binding site [chemical binding]; other site 1036672008184 Q-loop/lid; other site 1036672008185 ABC transporter signature motif; other site 1036672008186 Walker B; other site 1036672008187 D-loop; other site 1036672008188 H-loop/switch region; other site 1036672008189 potential frameshift: common BLAST hit: gi|332284845|ref|YP_004416756.1| aldehyde dehydrogenase 1036672008190 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1036672008191 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 1036672008192 NAD(P) binding site [chemical binding]; other site 1036672008193 active site 1036672008194 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 1036672008195 Zinc-dependent alcohol dehydrogenases (ADH) and class III ADG (AKA formaldehyde dehydrogenase); Region: liver_ADH_like1; cd08281 1036672008196 NAD binding site [chemical binding]; other site 1036672008197 catalytic Zn binding site [ion binding]; other site 1036672008198 substrate binding site [chemical binding]; other site 1036672008199 structural Zn binding site [ion binding]; other site 1036672008200 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1036672008201 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_Arsenic_SBP_like; cd06330 1036672008202 putative ligand binding site [chemical binding]; other site 1036672008203 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1036672008204 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1036672008205 putative substrate translocation pore; other site 1036672008206 potential frameshift: common BLAST hit: gi|163855024|ref|YP_001629322.1| glycosyl hydrolase 1036672008207 potential frameshift: common BLAST hit: gi|311104027|ref|YP_003976880.1| tRNA 5-methylaminomethyl-2-thiouridine biosynthesis protein MnmC 1036672008208 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 1036672008209 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1036672008210 active site 1036672008211 dimerization interface [polypeptide binding]; other site 1036672008212 potential frameshift: common BLAST hit: gi|384205049|ref|YP_005590788.1| putative cation transport protein 1036672008213 potential frameshift: common BLAST hit: gi|384205049|ref|YP_005590788.1| putative cation transport protein 1036672008214 potential frameshift: common BLAST hit: gi|384205249|ref|YP_005590988.1| preprotein translocase subunit SecA 1036672008215 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1036672008216 Peptidase family M23; Region: Peptidase_M23; pfam01551 1036672008217 Protein of unknown function (DUF721); Region: DUF721; cl02324 1036672008218 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 1036672008219 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1036672008220 cell division protein FtsZ; Validated; Region: PRK09330 1036672008221 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 1036672008222 nucleotide binding site [chemical binding]; other site 1036672008223 SulA interaction site; other site 1036672008224 potential frameshift: common BLAST hit: gi|332283269|ref|YP_004415180.1| cell division protein FtsA 1036672008225 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1036672008226 Cell division protein FtsQ; Region: FtsQ; pfam03799 1036672008227 potential frameshift: common BLAST hit: gi|311104003|ref|YP_003976856.1| D-alanine--D-alanine ligase B 1036672008228 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1036672008229 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1036672008230 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1036672008231 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1036672008232 potential frameshift: common BLAST hit: gi|33603173|ref|NP_890733.1| undecaprenyldiphospho-muramoylpentapeptide beta-N- 1036672008233 cell division protein FtsW; Region: ftsW; TIGR02614 1036672008234 potential frameshift: common BLAST hit: gi|33598264|ref|NP_885907.1| UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase 1036672008235 potential frameshift: common BLAST hit: gi|33603175|ref|NP_890735.1| UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase 1036672008236 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02006 1036672008237 Glycosyltransferase 4 (GT4) includes both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases. They catalyze the transfer of a D-N-acetylhexosamine 1-phosphate to a membrane-bound...; Region: GT_MraY-like; cl10571 1036672008238 putative catalytic motif [active] 1036672008239 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1036672008240 Glycosyltransferase 4 (GT4) includes both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases. They catalyze the transfer of a D-N-acetylhexosamine 1-phosphate to a membrane-bound...; Region: GT_MraY-like; cl10571 1036672008241 Mg++ binding site [ion binding]; other site 1036672008242 putative bifunctional UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase/UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-alanine ligase; Provisional; Region: PRK11929 1036672008243 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1036672008244 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1036672008245 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1036672008246 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1036672008247 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1036672008248 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1036672008249 potential frameshift: common BLAST hit: gi|319778489|ref|YP_004129402.1| Cell division protein FtsI 1036672008250 potential frameshift: common BLAST hit: gi|332283260|ref|YP_004415171.1| peptidoglycan glycosyltransferase 1036672008251 Cell division protein FtsL; Region: FtsL; pfam04999 1036672008252 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1036672008253 MraW methylase family; Region: Methyltransf_5; cl17771 1036672008254 cell division protein MraZ; Reviewed; Region: PRK00326 1036672008255 MraZ protein; Region: MraZ; pfam02381 1036672008256 MraZ protein; Region: MraZ; pfam02381 1036672008257 potential frameshift: common BLAST hit: gi|187479359|ref|YP_787384.1| ABC transporter ATP-binding protein 1036672008258 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 1036672008259 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 1036672008260 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 1036672008261 active site 1036672008262 substrate binding pocket [chemical binding]; other site 1036672008263 dimer interface [polypeptide binding]; other site 1036672008264 SWI complex, BAF60b domains; Region: SWIB; smart00151 1036672008265 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1036672008266 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1036672008267 DNA-binding site [nucleotide binding]; DNA binding site 1036672008268 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1036672008269 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 1036672008270 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1036672008271 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1036672008272 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 1036672008273 metal binding site [ion binding]; metal-binding site 1036672008274 substrate binding pocket [chemical binding]; other site 1036672008275 Amidohydrolase; Region: Amidohydro_2; pfam04909 1036672008276 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 1036672008277 short chain dehydrogenase; Provisional; Region: PRK08628 1036672008278 classical (c) SDRs; Region: SDR_c; cd05233 1036672008279 NAD(P) binding site [chemical binding]; other site 1036672008280 active site 1036672008281 Domain of unknown function (DUF718); Region: DUF718; pfam05336 1036672008282 potential frameshift: common BLAST hit: gi|157368889|ref|YP_001476878.1| L-fucose transporter 1036672008283 DsrE/DsrF-like family; Region: DrsE; cl00672 1036672008284 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 1036672008285 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 1036672008286 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 1036672008287 ligand-binding site [chemical binding]; other site 1036672008288 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1036672008289 NAD(P)-dependent sugar dehydrogenases; Region: sugar_DH; cd08236 1036672008290 putative NAD(P) binding site [chemical binding]; other site 1036672008291 catalytic Zn binding site [ion binding]; other site 1036672008292 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1036672008293 metabolite-proton symporter; Region: 2A0106; TIGR00883 1036672008294 putative substrate translocation pore; other site 1036672008295 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1036672008296 NAD(P) binding site [chemical binding]; other site 1036672008297 active site 1036672008298 histidinol dehydrogenase; Region: hisD; TIGR00069 1036672008299 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 1036672008300 NAD binding site [chemical binding]; other site 1036672008301 dimerization interface [polypeptide binding]; other site 1036672008302 product binding site; other site 1036672008303 substrate binding site [chemical binding]; other site 1036672008304 zinc binding site [ion binding]; other site 1036672008305 catalytic residues [active] 1036672008306 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1036672008307 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1036672008308 DNA binding site [nucleotide binding] 1036672008309 domain linker motif; other site 1036672008310 This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR_like_1; cd06273 1036672008311 putative dimerization interface [polypeptide binding]; other site 1036672008312 putative ligand binding site [chemical binding]; other site 1036672008313 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1036672008314 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672008315 The 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 1036672008316 dimerization interface [polypeptide binding]; other site 1036672008317 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 1036672008318 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1036672008319 putative substrate translocation pore; other site 1036672008320 Protein of unknown function (DUF2848); Region: DUF2848; pfam11010 1036672008321 potential frameshift: common BLAST hit: gi|160896891|ref|YP_001562473.1| amidase 1036672008322 tryptophan tryptophylquinone biosynthesis enzyme MauG; Region: TTQ_mauG; TIGR03791 1036672008323 Cytochrome c; Region: Cytochrom_C; pfam00034 1036672008324 methylamine dehydrogenase (amicyanin) light chain; Region: TTQ_MADH_Lt; TIGR02659 1036672008325 potential frameshift: common BLAST hit: gi|253996940|ref|YP_003049004.1| methylamine dehydrogenase accessory protein MauD 1036672008326 Methylamine utilisation protein MauE; Region: MauE; pfam07291 1036672008327 methylamine dehydrogenase (amicyanin) heavy chain; Region: TTQ_MADH_Hv; TIGR02658 1036672008328 potential frameshift: common BLAST hit: gi|253996944|ref|YP_003049008.1| AraC family transcriptional regulator 1036672008329 MauM/NapG family ferredoxin-type protein; Region: mauM_napG; TIGR00397 1036672008330 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 1036672008331 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1036672008332 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 1036672008333 potential frameshift: common BLAST hit: gi|33603187|ref|NP_890747.1| leucine-responsive regulatory protein 1036672008334 potential frameshift: common BLAST hit: gi|187479365|ref|YP_787390.1| 4-hydroxyphenylpyruvate dioxygenase 1036672008335 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 1036672008336 Cytochrome c; Region: Cytochrom_C; cl11414 1036672008337 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 1036672008338 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1036672008339 Uncharacterized conserved protein [Function unknown]; Region: COG2968 1036672008340 Protein of unknown function (DUF541); Region: SIMPL; cl01077 1036672008341 Cell division protein ZapA; Region: ZapA; pfam05164 1036672008342 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 1036672008343 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1036672008344 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 1036672008345 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1036672008346 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 1036672008347 putative active site [active] 1036672008348 Ap4A binding site [chemical binding]; other site 1036672008349 nudix motif; other site 1036672008350 putative metal binding site [ion binding]; other site 1036672008351 prolyl-tRNA synthetase; Provisional; Region: PRK09194 1036672008352 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 1036672008353 dimer interface [polypeptide binding]; other site 1036672008354 motif 1; other site 1036672008355 active site 1036672008356 motif 2; other site 1036672008357 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 1036672008358 putative deacylase active site [active] 1036672008359 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 1036672008360 active site 1036672008361 motif 3; other site 1036672008362 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 1036672008363 anticodon binding site; other site 1036672008364 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 1036672008365 active site 1036672008366 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1036672008367 TolR protein; Region: tolR; TIGR02801 1036672008368 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1036672008369 TonB C terminal; Region: TonB_2; pfam13103 1036672008370 translocation protein TolB; Provisional; Region: tolB; PRK02889 1036672008371 TolB amino-terminal domain; Region: TolB_N; pfam04052 1036672008372 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1036672008373 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1036672008374 ligand binding site [chemical binding]; other site 1036672008375 Septum formation initiator; Region: DivIC; cl17659 1036672008376 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 1036672008377 Tetratricopeptide repeat; Region: TPR_6; pfam13174 1036672008378 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1036672008379 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1036672008380 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1036672008381 potential frameshift: common BLAST hit: gi|163856978|ref|YP_001631276.1| chloride channel protein-related protein 1036672008382 Protein of unknown function (DUF461); Region: DUF461; pfam04314 1036672008383 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 1036672008384 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1036672008385 putative C-terminal domain interface [polypeptide binding]; other site 1036672008386 putative GSH binding site (G-site) [chemical binding]; other site 1036672008387 putative dimer interface [polypeptide binding]; other site 1036672008388 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 1036672008389 putative N-terminal domain interface [polypeptide binding]; other site 1036672008390 putative substrate binding pocket (H-site) [chemical binding]; other site 1036672008391 intracellular protease, PfpI family; Region: PfpI; TIGR01382 1036672008392 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 1036672008393 conserved cys residue [active] 1036672008394 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1036672008395 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1036672008396 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1036672008397 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 1036672008398 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 1036672008399 substrate binding pocket [chemical binding]; other site 1036672008400 membrane-bound complex binding site; other site 1036672008401 hinge residues; other site 1036672008402 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1036672008403 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1036672008404 Walker A/P-loop; other site 1036672008405 ATP binding site [chemical binding]; other site 1036672008406 Q-loop/lid; other site 1036672008407 ABC transporter signature motif; other site 1036672008408 Walker B; other site 1036672008409 D-loop; other site 1036672008410 H-loop/switch region; other site 1036672008411 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 1036672008412 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 1036672008413 intersubunit interface [polypeptide binding]; other site 1036672008414 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1036672008415 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 1036672008416 ABC-ATPase subunit interface; other site 1036672008417 dimer interface [polypeptide binding]; other site 1036672008418 putative PBP binding regions; other site 1036672008419 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1036672008420 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 1036672008421 ABC-ATPase subunit interface; other site 1036672008422 dimer interface [polypeptide binding]; other site 1036672008423 putative PBP binding regions; other site 1036672008424 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 1036672008425 chorismate binding enzyme; Region: Chorismate_bind; cl10555 1036672008426 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1036672008427 homodimer interface [polypeptide binding]; other site 1036672008428 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 1036672008429 substrate-cofactor binding pocket; other site 1036672008430 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1036672008431 catalytic residue [active] 1036672008432 Esterase PHB depolymerase; Region: Esterase_phd; pfam10503 1036672008433 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1036672008434 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 1036672008435 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 1036672008436 active site 1036672008437 purine riboside binding site [chemical binding]; other site 1036672008438 Protein of unknown function (DUF2474); Region: DUF2474; pfam10617 1036672008439 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1036672008440 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1036672008441 potential frameshift: common BLAST hit: gi|332284326|ref|YP_004416237.1| cyanide insensitive terminal oxidase 1036672008442 potential frameshift: common BLAST hit: gi|344207052|ref|YP_004792193.1| G-D-S-L family lipolytic protein 1036672008443 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1036672008444 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672008445 The 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 1036672008446 dimerization interface [polypeptide binding]; other site 1036672008447 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1036672008448 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1036672008449 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 1036672008450 intersubunit interface [polypeptide binding]; other site 1036672008451 active site 1036672008452 Zn2+ binding site [ion binding]; other site 1036672008453 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 1036672008454 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 1036672008455 catalytic residues [active] 1036672008456 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 1036672008457 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1036672008458 Zn2+ binding site [ion binding]; other site 1036672008459 Mg2+ binding site [ion binding]; other site 1036672008460 Predicted flavoprotein [General function prediction only]; Region: COG0431 1036672008461 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1036672008462 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 1036672008463 putative FMN binding site [chemical binding]; other site 1036672008464 NADPH bind site [chemical binding]; other site 1036672008465 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 1036672008466 Fusaric acid resistance protein family; Region: FUSC; pfam04632 1036672008467 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1036672008468 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 1036672008469 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3787; cl17897 1036672008470 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 1036672008471 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1036672008472 HlyD family secretion protein; Region: HlyD_3; pfam13437 1036672008473 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1036672008474 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 1036672008475 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 1036672008476 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 1036672008477 active site 1036672008478 DNA binding site [nucleotide binding] 1036672008479 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 1036672008480 DNA binding site [nucleotide binding] 1036672008481 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 1036672008482 nucleotide binding site [chemical binding]; other site 1036672008483 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 1036672008484 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 1036672008485 putative DNA binding site [nucleotide binding]; other site 1036672008486 putative homodimer interface [polypeptide binding]; other site 1036672008487 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 1036672008488 ArsC family; Region: ArsC; pfam03960 1036672008489 catalytic residues [active] 1036672008490 potential frameshift: common BLAST hit: gi|146280963|ref|YP_001171116.1| O-acetylhomoserine aminocarboxypropyltransferase 1036672008491 potential frameshift: common BLAST hit: gi|378950258|ref|YP_005207746.1| araC family transcriptional regulator 1036672008492 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1036672008493 EamA-like transporter family; Region: EamA; pfam00892 1036672008494 EamA-like transporter family; Region: EamA; pfam00892 1036672008495 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1036672008496 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1036672008497 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1036672008498 conserved cys residue [active] 1036672008499 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1036672008500 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 1036672008501 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1036672008502 Sarcosine oxidase delta subunit [Amino acid transport and metabolism]; Region: SoxD; COG4311 1036672008503 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 1036672008504 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 1036672008505 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1036672008506 Sarcosine oxidase gamma subunit [Amino acid transport and metabolism]; Region: COG4583 1036672008507 transcriptional regulator NanR; Provisional; Region: PRK03837 1036672008508 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1036672008509 DNA-binding site [nucleotide binding]; DNA binding site 1036672008510 FCD domain; Region: FCD; pfam07729 1036672008511 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 1036672008512 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1036672008513 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1036672008514 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1036672008515 DNA-binding site [nucleotide binding]; DNA binding site 1036672008516 FCD domain; Region: FCD; pfam07729 1036672008517 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1036672008518 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1036672008519 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1036672008520 active site 1036672008521 NAD binding site [chemical binding]; other site 1036672008522 metal binding site [ion binding]; metal-binding site 1036672008523 benzoate transport; Region: 2A0115; TIGR00895 1036672008524 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1036672008525 putative substrate translocation pore; other site 1036672008526 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1036672008527 potential frameshift: common BLAST hit: gi|121609836|ref|YP_997643.1| fatty acid hydroxylase 1036672008528 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 1036672008529 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 1036672008530 active site 1036672008531 putative substrate binding pocket [chemical binding]; other site 1036672008532 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 1036672008533 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1036672008534 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1036672008535 Walker A/P-loop; other site 1036672008536 ATP binding site [chemical binding]; other site 1036672008537 Q-loop/lid; other site 1036672008538 ABC transporter signature motif; other site 1036672008539 Walker B; other site 1036672008540 D-loop; other site 1036672008541 H-loop/switch region; other site 1036672008542 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1036672008543 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1036672008544 Walker A/P-loop; other site 1036672008545 ATP binding site [chemical binding]; other site 1036672008546 Q-loop/lid; other site 1036672008547 ABC transporter signature motif; other site 1036672008548 Walker B; other site 1036672008549 D-loop; other site 1036672008550 H-loop/switch region; other site 1036672008551 potential frameshift: common BLAST hit: gi|187477008|ref|YP_785032.1| ABC transporter permease 1036672008552 potential frameshift: common BLAST hit: gi|121608966|ref|YP_996773.1| binding-protein-dependent transport systems inner membrane 1036672008553 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1036672008554 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_16; cd08502 1036672008555 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1036672008556 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1036672008557 thiamine pyrophosphate protein; Validated; Region: PRK08199 1036672008558 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1036672008559 PYR/PP interface [polypeptide binding]; other site 1036672008560 dimer interface [polypeptide binding]; other site 1036672008561 TPP binding site [chemical binding]; other site 1036672008562 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1036672008563 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 1036672008564 TPP-binding site [chemical binding]; other site 1036672008565 potential frameshift: common BLAST hit: gi|121608962|ref|YP_996769.1| TetR family transcriptional regulator 1036672008566 potential frameshift: common BLAST hit: gi|121608962|ref|YP_996769.1| TetR family transcriptional regulator 1036672008567 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1036672008568 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1036672008569 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672008570 dimer interface [polypeptide binding]; other site 1036672008571 conserved gate region; other site 1036672008572 putative PBP binding loops; other site 1036672008573 ABC-ATPase subunit interface; other site 1036672008574 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1036672008575 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1036672008576 Walker A/P-loop; other site 1036672008577 ATP binding site [chemical binding]; other site 1036672008578 Q-loop/lid; other site 1036672008579 ABC transporter signature motif; other site 1036672008580 Walker B; other site 1036672008581 D-loop; other site 1036672008582 H-loop/switch region; other site 1036672008583 TfoX N-terminal domain; Region: TfoX_N; pfam04993 1036672008584 potential frameshift: common BLAST hit: gi|332283810|ref|YP_004415721.1| TRAP-type C4-dicarboxylate transport system, large permease 1036672008585 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 1036672008586 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 1036672008587 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1036672008588 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1036672008589 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1036672008590 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 1036672008591 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672008592 aldolase II superfamily protein; Provisional; Region: PRK07044 1036672008593 intersubunit interface [polypeptide binding]; other site 1036672008594 active site 1036672008595 Zn2+ binding site [ion binding]; other site 1036672008596 gluconate 5-dehydrogenase; Provisional; Region: PRK06124 1036672008597 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1036672008598 NAD(P) binding site [chemical binding]; other site 1036672008599 active site 1036672008600 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1036672008601 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1036672008602 putative catalytic site [active] 1036672008603 putative phosphate binding site [ion binding]; other site 1036672008604 putative metal binding site [ion binding]; other site 1036672008605 potential frameshift: common BLAST hit: gi|50121734|ref|YP_050901.1| TonB-dependent ferric achromobactin receptor 1036672008606 iron-dicitrate transporter substrate-binding subunit; Provisional; Region: fecB; PRK11411 1036672008607 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 1036672008608 siderophore binding site; other site 1036672008609 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 1036672008610 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1036672008611 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 1036672008612 dimer interface [polypeptide binding]; other site 1036672008613 putative PBP binding regions; other site 1036672008614 ABC-ATPase subunit interface; other site 1036672008615 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1036672008616 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 1036672008617 ABC-ATPase subunit interface; other site 1036672008618 dimer interface [polypeptide binding]; other site 1036672008619 putative PBP binding regions; other site 1036672008620 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1036672008621 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1036672008622 Walker A/P-loop; other site 1036672008623 ATP binding site [chemical binding]; other site 1036672008624 Q-loop/lid; other site 1036672008625 ABC transporter signature motif; other site 1036672008626 Walker B; other site 1036672008627 D-loop; other site 1036672008628 H-loop/switch region; other site 1036672008629 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 1036672008630 siderophore-iron reductase FhuF; Region: Fe_III_red_FhuF; TIGR03951 1036672008631 Uncharacterized protein conserved in bacteria (DUF2086); Region: DUF2086; pfam09859 1036672008632 Uncharacterized protein conserved in bacteria (DUF2086); Region: DUF2086; pfam09859 1036672008633 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 1036672008634 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672008635 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 1036672008636 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 1036672008637 octamer interface [polypeptide binding]; other site 1036672008638 active site 1036672008639 muconolactone delta-isomerase; Region: muco_delta; TIGR03221 1036672008640 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672008641 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 1036672008642 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672008643 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in benzoate catabolism; contains the type 2 periplasmic binding fold; Region: PBP2_BenM_CatM_CatR; cd08445 1036672008644 dimerizarion interface [polypeptide binding]; other site 1036672008645 CrgA pocket; other site 1036672008646 substrate binding pocket [chemical binding]; other site 1036672008647 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 1036672008648 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1036672008649 active site 1036672008650 phosphorylation site [posttranslational modification] 1036672008651 intermolecular recognition site; other site 1036672008652 dimerization interface [polypeptide binding]; other site 1036672008653 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 1036672008654 DNA binding site [nucleotide binding] 1036672008655 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1036672008656 ATP binding site [chemical binding]; other site 1036672008657 Mg2+ binding site [ion binding]; other site 1036672008658 G-X-G motif; other site 1036672008659 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 1036672008660 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 1036672008661 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 1036672008662 GAF domain; Region: GAF_3; pfam13492 1036672008663 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 1036672008664 dimer interface [polypeptide binding]; other site 1036672008665 phosphorylation site [posttranslational modification] 1036672008666 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 1036672008667 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 1036672008668 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 1036672008669 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1036672008670 Potassium-transporting ATPase A subunit; Region: KdpA; cl00903 1036672008671 Potassium-transporting ATPase A subunit; Region: KdpA; cl00903 1036672008672 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 1036672008673 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1036672008674 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 1036672008675 substrate binding pocket [chemical binding]; other site 1036672008676 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1036672008677 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 1036672008678 membrane-bound complex binding site; other site 1036672008679 hinge residues; other site 1036672008680 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 1036672008681 active site clefts [active] 1036672008682 zinc binding site [ion binding]; other site 1036672008683 dimer interface [polypeptide binding]; other site 1036672008684 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 1036672008685 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1036672008686 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1036672008687 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 1036672008688 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1036672008689 non-specific DNA binding site [nucleotide binding]; other site 1036672008690 salt bridge; other site 1036672008691 sequence-specific DNA binding site [nucleotide binding]; other site 1036672008692 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 1036672008693 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 1036672008694 dimer interface [polypeptide binding]; other site 1036672008695 active site 1036672008696 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1036672008697 catalytic residues [active] 1036672008698 substrate binding site [chemical binding]; other site 1036672008699 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 1036672008700 Predicted transcriptional regulators [Transcription]; Region: COG1733 1036672008701 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1036672008702 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1036672008703 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 1036672008704 C-terminal domain interface [polypeptide binding]; other site 1036672008705 GSH binding site (G-site) [chemical binding]; other site 1036672008706 dimer interface [polypeptide binding]; other site 1036672008707 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1036672008708 N-terminal domain interface [polypeptide binding]; other site 1036672008709 dimer interface [polypeptide binding]; other site 1036672008710 substrate binding pocket (H-site) [chemical binding]; other site 1036672008711 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 1036672008712 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672008713 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 1036672008714 substrate binding pocket [chemical binding]; other site 1036672008715 dimerization interface [polypeptide binding]; other site 1036672008716 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672008717 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672008718 potential frameshift: common BLAST hit: gi|91787999|ref|YP_548951.1| fumarate reductase/succinate dehydrogenase flavoprotein-like 1036672008719 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 1036672008720 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672008721 The 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 1036672008722 dimerization interface [polypeptide binding]; other site 1036672008723 potential frameshift: common BLAST hit: gi|187478281|ref|YP_786305.1| salicylate hydroxylase 1036672008724 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672008725 potential frameshift: common BLAST hit: gi|264678913|ref|YP_003278820.1| Gentisate 1,2-dioxygenase 1036672008726 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1036672008727 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 1036672008728 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 1036672008729 maleylacetoacetate isomerase; Region: maiA; TIGR01262 1036672008730 C-terminal domain interface [polypeptide binding]; other site 1036672008731 GSH binding site (G-site) [chemical binding]; other site 1036672008732 putative dimer interface [polypeptide binding]; other site 1036672008733 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 1036672008734 dimer interface [polypeptide binding]; other site 1036672008735 N-terminal domain interface [polypeptide binding]; other site 1036672008736 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 1036672008737 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 1036672008738 Isochorismatase family; Region: Isochorismatase; pfam00857 1036672008739 catalytic triad [active] 1036672008740 conserved cis-peptide bond; other site 1036672008741 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 1036672008742 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1036672008743 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1036672008744 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1036672008745 catalytic site [active] 1036672008746 potential frameshift: common BLAST hit: gi|187478029|ref|YP_786053.1| aldehyde dehydrogenase 1036672008747 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1036672008748 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 1036672008749 catalytic loop [active] 1036672008750 iron binding site [ion binding]; other site 1036672008751 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1036672008752 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1036672008753 Cytochrome c; Region: Cytochrom_C; pfam00034 1036672008754 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1036672008755 MarR family; Region: MarR_2; cl17246 1036672008756 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1036672008757 potential frameshift: common BLAST hit: gi|170721321|ref|YP_001749009.1| monooxygenase FAD-binding 1036672008758 potential frameshift: common BLAST hit: gi|170721325|ref|YP_001749013.1| major facilitator transporter 1036672008759 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1036672008760 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672008761 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 1036672008762 putative effector binding pocket; other site 1036672008763 putative dimerization interface [polypeptide binding]; other site 1036672008764 Uncharacterized conserved protein [Function unknown]; Region: COG4925 1036672008765 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1036672008766 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1036672008767 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1036672008768 putative substrate translocation pore; other site 1036672008769 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1036672008770 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1036672008771 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1036672008772 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1036672008773 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 1036672008774 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1036672008775 catalytic loop [active] 1036672008776 iron binding site [ion binding]; other site 1036672008777 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1036672008778 potential frameshift: common BLAST hit: gi|378950833|ref|YP_005208321.1| araC family transcriptional regulator 1036672008779 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 1036672008780 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 1036672008781 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1036672008782 The 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 1036672008783 dimerization interface [polypeptide binding]; other site 1036672008784 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 1036672008785 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1036672008786 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1036672008787 potential frameshift: common BLAST hit: gi|116050354|ref|YP_790829.1| L-sorbosone dehydrogenase 1036672008788 Predicted membrane protein (DUF2231); Region: DUF2231; cl01730 1036672008789 potential frameshift: common BLAST hit: gi|146308230|ref|YP_001188695.1| major facilitator superfamily transporter 1036672008790 potential frameshift: common BLAST hit: gi|146308231|ref|YP_001188696.1| XRE family transcriptional regulator 1036672008791 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 1036672008792 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1036672008793 tetramer interface [polypeptide binding]; other site 1036672008794 active site 1036672008795 Mg2+/Mn2+ binding site [ion binding]; other site 1036672008796 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 1036672008797 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 1036672008798 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 1036672008799 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1036672008800 substrate binding site [chemical binding]; other site 1036672008801 ligand binding site [chemical binding]; other site 1036672008802 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 1036672008803 substrate binding site [chemical binding]; other site 1036672008804 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1036672008805 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 1036672008806 dimer interface [polypeptide binding]; other site 1036672008807 active site 1036672008808 citrylCoA binding site [chemical binding]; other site 1036672008809 oxalacetate/citrate binding site [chemical binding]; other site 1036672008810 coenzyme A binding site [chemical binding]; other site 1036672008811 catalytic triad [active] 1036672008812 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1036672008813 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 1036672008814 sequence-specific DNA binding site [nucleotide binding]; other site 1036672008815 salt bridge; other site 1036672008816 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 1036672008817 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1036672008818 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672008819 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 1036672008820 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 1036672008821 putative NAD(P) binding site [chemical binding]; other site 1036672008822 putative active site [active] 1036672008823 potential frameshift: common BLAST hit: gi|241203542|ref|YP_002974638.1| LysR family transcriptional regulator 1036672008824 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1036672008825 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1036672008826 active site 1036672008827 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1036672008828 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 1036672008829 substrate binding site [chemical binding]; other site 1036672008830 oxyanion hole (OAH) forming residues; other site 1036672008831 trimer interface [polypeptide binding]; other site 1036672008832 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 1036672008833 Coenzyme A transferase; Region: CoA_trans; smart00882 1036672008834 Coenzyme A transferase; Region: CoA_trans; cl17247 1036672008835 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1036672008836 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 1036672008837 substrate binding site [chemical binding]; other site 1036672008838 oxyanion hole (OAH) forming residues; other site 1036672008839 trimer interface [polypeptide binding]; other site 1036672008840 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 1036672008841 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 1036672008842 DctM-like transporters; Region: DctM; pfam06808 1036672008843 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 1036672008844 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1036672008845 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1036672008846 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1036672008847 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1036672008848 DNA-binding site [nucleotide binding]; DNA binding site 1036672008849 FCD domain; Region: FCD; pfam07729 1036672008850 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1036672008851 AMP-binding enzyme; Region: AMP-binding; pfam00501 1036672008852 acyl-activating enzyme (AAE) consensus motif; other site 1036672008853 AMP binding site [chemical binding]; other site 1036672008854 active site 1036672008855 CoA binding site [chemical binding]; other site 1036672008856 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 1036672008857 oligomerisation interface [polypeptide binding]; other site 1036672008858 mobile loop; other site 1036672008859 roof hairpin; other site 1036672008860 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1036672008861 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 1036672008862 ring oligomerisation interface [polypeptide binding]; other site 1036672008863 ATP/Mg binding site [chemical binding]; other site 1036672008864 stacking interactions; other site 1036672008865 hinge regions; other site 1036672008866 Cupin domain; Region: Cupin_2; cl17218 1036672008867 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1036672008868 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1036672008869 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1036672008870 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 1036672008871 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 1036672008872 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 1036672008873 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 1036672008874 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 1036672008875 oligomeric interface; other site 1036672008876 putative active site [active] 1036672008877 homodimer interface [polypeptide binding]; other site 1036672008878 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 1036672008879 Competence-damaged protein; Region: CinA; pfam02464 1036672008880 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 1036672008881 tetramer interfaces [polypeptide binding]; other site 1036672008882 binuclear metal-binding site [ion binding]; other site 1036672008883 thiamine monophosphate kinase; Provisional; Region: PRK05731 1036672008884 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 1036672008885 ATP binding site [chemical binding]; other site 1036672008886 dimerization interface [polypeptide binding]; other site 1036672008887 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 1036672008888 putative RNA binding site [nucleotide binding]; other site 1036672008889 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 1036672008890 homopentamer interface [polypeptide binding]; other site 1036672008891 active site 1036672008892 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 1036672008893 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1036672008894 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 1036672008895 dimerization interface [polypeptide binding]; other site 1036672008896 active site 1036672008897 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 1036672008898 homotrimer interaction site [polypeptide binding]; other site 1036672008899 putative active site [active] 1036672008900 potential frameshift: common BLAST hit: gi|311103808|ref|YP_003976661.1| 2-aminobenzoate-CoA ligase 1036672008901 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1036672008902 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 1036672008903 acyl-activating enzyme (AAE) consensus motif; other site 1036672008904 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1036672008905 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1036672008906 active site 1036672008907 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1036672008908 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 1036672008909 trimer interface [polypeptide binding]; other site 1036672008910 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1036672008911 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 1036672008912 substrate binding site [chemical binding]; other site 1036672008913 oxyanion hole (OAH) forming residues; other site 1036672008914 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1036672008915 classical (c) SDRs; Region: SDR_c; cd05233 1036672008916 NAD(P) binding site [chemical binding]; other site 1036672008917 active site 1036672008918 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 1036672008919 phosphate binding site [ion binding]; other site 1036672008920 potential frameshift: common BLAST hit: gi|333913972|ref|YP_004487704.1| NADPH dehydrogenase 1036672008921 MarR family; Region: MarR; pfam01047 1036672008922 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 1036672008923 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 1036672008924 potential frameshift: common BLAST hit: gi|311108733|ref|YP_003981586.1| CYTH domain-containing protein 1036672008925 potential frameshift: common BLAST hit: gi|319779123|ref|YP_004130036.1| adenylate cyclase 1036672008926 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1036672008927 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1036672008928 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 1036672008929 P loop; other site 1036672008930 GTP binding site [chemical binding]; other site 1036672008931 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 1036672008932 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 1036672008933 S-adenosylmethionine binding site [chemical binding]; other site 1036672008934 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1036672008935 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1036672008936 active site 1036672008937 (T/H)XGH motif; other site 1036672008938 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1036672008939 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 1036672008940 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 1036672008941 GTP-binding protein YchF; Reviewed; Region: PRK09601 1036672008942 YchF GTPase; Region: YchF; cd01900 1036672008943 G1 box; other site 1036672008944 GTP/Mg2+ binding site [chemical binding]; other site 1036672008945 Switch I region; other site 1036672008946 G2 box; other site 1036672008947 Switch II region; other site 1036672008948 G3 box; other site 1036672008949 G4 box; other site 1036672008950 G5 box; other site 1036672008951 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 1036672008952 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_16; cd07263 1036672008953 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1036672008954 CAAX protease self-immunity; Region: Abi; cl00558 1036672008955 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 1036672008956 putative active site [active] 1036672008957 catalytic residue [active] 1036672008958 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 1036672008959 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1036672008960 5S rRNA interface [nucleotide binding]; other site 1036672008961 CTC domain interface [polypeptide binding]; other site 1036672008962 L16 interface [polypeptide binding]; other site 1036672008963 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1036672008964 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 1036672008965 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 1036672008966 potential frameshift: common BLAST hit: gi|187477044|ref|YP_785068.1| outer membrane lipoprotein LolB 1036672008967 potential frameshift: common BLAST hit: gi|311108753|ref|YP_003981606.1| formamidopyrimidine-DNA glycosylase 1036672008968 potential frameshift: common BLAST hit: gi|332285384|ref|YP_004417295.1| oxidoreductase 1036672008969 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1036672008970 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 1036672008971 active site 1036672008972 substrate binding site [chemical binding]; other site 1036672008973 metal binding site [ion binding]; metal-binding site 1036672008974 potential frameshift: common BLAST hit: gi|384205367|ref|YP_005591106.1| putative glycosyltransferase 1036672008975 potential frameshift: common BLAST hit: gi|163858342|ref|YP_001632640.1| glycosyltransferase 1036672008976 potential frameshift: common BLAST hit: gi|384205369|ref|YP_005591108.1| putative glycosyltransferase 1036672008977 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 1036672008978 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 1036672008979 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 1036672008980 active site 1036672008981 dimer interface [polypeptide binding]; other site 1036672008982 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 1036672008983 Ligand Binding Site [chemical binding]; other site 1036672008984 Molecular Tunnel; other site 1036672008985 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1036672008986 This family is most closely related to the GT1 family of glycosyltransferases. AmSD in Erwinia amylovora has been shown to be involved in the biosynthesis of amylovoran, the acidic exopolysaccharide acting as a virulence factor. This enzyme may be...; Region: GT1_amsD_like; cd03820 1036672008987 putative ADP-binding pocket [chemical binding]; other site 1036672008988 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1036672008989 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 1036672008990 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 1036672008991 NAD binding site [chemical binding]; other site 1036672008992 substrate binding site [chemical binding]; other site 1036672008993 homodimer interface [polypeptide binding]; other site 1036672008994 active site 1036672008995 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 1036672008996 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1036672008997 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1036672008998 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphatetransferase; Region: ECA_wecA; TIGR02380 1036672008999 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 1036672009000 Mg++ binding site [ion binding]; other site 1036672009001 putative catalytic motif [active] 1036672009002 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 1036672009003 diiron binding motif [ion binding]; other site 1036672009004 OsmC-like protein; Region: OsmC; cl00767 1036672009005 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 1036672009006 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 1036672009007 active site 1036672009008 dimerization interface [polypeptide binding]; other site 1036672009009 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 1036672009010 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1036672009011 folate binding site [chemical binding]; other site 1036672009012 NADP+ binding site [chemical binding]; other site 1036672009013 potential frameshift: common BLAST hit: gi|332285003|ref|YP_004416914.1| mechanosensitive protein 1036672009014 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1036672009015 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1036672009016 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 1036672009017 putative active site [active] 1036672009018 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1036672009019 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1036672009020 Walker A/P-loop; other site 1036672009021 ATP binding site [chemical binding]; other site 1036672009022 Q-loop/lid; other site 1036672009023 ABC transporter signature motif; other site 1036672009024 Walker B; other site 1036672009025 D-loop; other site 1036672009026 H-loop/switch region; other site 1036672009027 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1036672009028 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672009029 dimer interface [polypeptide binding]; other site 1036672009030 conserved gate region; other site 1036672009031 putative PBP binding loops; other site 1036672009032 ABC-ATPase subunit interface; other site 1036672009033 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1036672009034 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672009035 dimer interface [polypeptide binding]; other site 1036672009036 conserved gate region; other site 1036672009037 putative PBP binding loops; other site 1036672009038 ABC-ATPase subunit interface; other site 1036672009039 potential frameshift: common BLAST hit: gi|222106400|ref|YP_002547191.1| ABC transporter substrate binding protein (sugar) 1036672009040 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1036672009041 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1036672009042 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 1036672009043 motif II; other site 1036672009044 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 1036672009045 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 1036672009046 active site 1036672009047 potential frameshift: common BLAST hit: gi|311108795|ref|YP_003981648.1| glycine dehydrogenase 1036672009048 potential frameshift: common BLAST hit: gi|187477002|ref|YP_785026.1| glycine dehydrogenase 1036672009049 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 1036672009050 lipoyl attachment site [posttranslational modification]; other site 1036672009051 potential frameshift: common BLAST hit: gi|311108797|ref|YP_003981650.1| glycine cleavage system protein T 1036672009052 Predicted flavoproteins [General function prediction only]; Region: COG2081 1036672009053 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1036672009054 potential frameshift: common BLAST hit: gi|384202722|ref|YP_005588461.1| Orn/Arg/Lys decarboxylase 1036672009055 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1036672009056 trimer interface [polypeptide binding]; other site 1036672009057 active site 1036672009058 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 1036672009059 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 1036672009060 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 1036672009061 Surface antigen; Region: Bac_surface_Ag; pfam01103 1036672009062 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 1036672009063 potential frameshift: common BLAST hit: gi|163857972|ref|YP_001632270.1| LysR family transcriptional regulator 1036672009064 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1036672009065 NAD(P) binding site [chemical binding]; other site 1036672009066 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1036672009067 active site 1036672009068 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 1036672009069 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1036672009070 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 1036672009071 active site 1036672009072 FMN binding site [chemical binding]; other site 1036672009073 substrate binding site [chemical binding]; other site 1036672009074 homotetramer interface [polypeptide binding]; other site 1036672009075 catalytic residue [active] 1036672009076 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1036672009077 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672009078 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_3; cd08461 1036672009079 putative substrate binding pocket [chemical binding]; other site 1036672009080 putative dimerization interface [polypeptide binding]; other site 1036672009081 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1036672009082 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1036672009083 putative substrate translocation pore; other site 1036672009084 Chromate transporter; Region: Chromate_transp; pfam02417 1036672009085 Chromate transporter; Region: Chromate_transp; pfam02417 1036672009086 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 1036672009087 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1036672009088 active site 1036672009089 KMSKS motif; other site 1036672009090 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1036672009091 anticodon binding site; other site 1036672009092 tRNA binding surface [nucleotide binding]; other site 1036672009093 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 1036672009094 dimer interface [polypeptide binding]; other site 1036672009095 putative tRNA-binding site [nucleotide binding]; other site 1036672009096 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 1036672009097 S-adenosylmethionine binding site [chemical binding]; other site 1036672009098 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 1036672009099 S-adenosylmethionine binding site [chemical binding]; other site 1036672009100 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 1036672009101 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 1036672009102 BON domain; Region: BON; pfam04972 1036672009103 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1036672009104 potential frameshift: common BLAST hit: gi|384203276|ref|YP_005589015.1| high-affinity choline transport protein 1036672009105 potential frameshift: common BLAST hit: gi|33602849|ref|NP_890409.1| high-affinity choline transport protein 1036672009106 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 1036672009107 potential frameshift: common BLAST hit: gi|33599497|ref|NP_887057.1| signal recognition particle protein 1036672009108 potential frameshift: common BLAST hit: gi|33599497|ref|NP_887057.1| signal recognition particle protein 1036672009109 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 1036672009110 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1036672009111 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 1036672009112 amidase catalytic site [active] 1036672009113 Zn binding residues [ion binding]; other site 1036672009114 substrate binding site [chemical binding]; other site 1036672009115 Protein of unknown function (DUF3018); Region: DUF3018; pfam11455 1036672009116 potential frameshift: common BLAST hit: gi|311109000|ref|YP_003981853.1| chaperone protein HtpG 1036672009117 potential protein location (hypothetical protein TKWG_20795 [Advenella kashmirensis WT001]) that overlaps RNA (tRNA-L) 1036672009118 potential frameshift: common BLAST hit: gi|332283851|ref|YP_004415762.1| transposase 1036672009119 potential frameshift: common BLAST hit: gi|332285444|ref|YP_004417355.1| site-specific recombinase, phage integrase 1036672009120 Helix-turn-helix domain; Region: HTH_36; pfam13730 1036672009121 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 1036672009122 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 1036672009123 P-type DNA transfer protein VirB5; Region: VirB5; TIGR02791 1036672009124 Type IV secretion system proteins; Region: T4SS; pfam07996 1036672009125 MamI restriction endonuclease; Region: RE_MamI; pfam09567 1036672009126 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 1036672009127 non-specific DNA binding site [nucleotide binding]; other site 1036672009128 salt bridge; other site 1036672009129 sequence-specific DNA binding site [nucleotide binding]; other site 1036672009130 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1036672009131 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1036672009132 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1036672009133 Predicted nucleotide-binding protein containing TIR-like domain; Region: TIR-like; pfam10137 1036672009134 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 1036672009135 active site 1036672009136 Int/Topo IB signature motif; other site 1036672009137 Predicted nucleotide-binding protein containing TIR-like domain; Region: TIR-like; pfam10137 1036672009138 SIR2-like domain; Region: SIR2_2; pfam13289 1036672009139 DTW domain; Region: DTW; cl01221 1036672009140 DTW domain; Region: DTW; cl01221 1036672009141 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 1036672009142 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 1036672009143 S-adenosylmethionine binding site [chemical binding]; other site 1036672009144 PAAR motif; Region: PAAR_motif; pfam05488 1036672009145 potential frameshift: common BLAST hit: gi|78062676|ref|YP_372584.1| Rhs family protein 1036672009146 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1036672009147 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1036672009148 Helix-turn-helix domain; Region: HTH_18; pfam12833 1036672009149 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1036672009150 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672009151 NIPSNAP; Region: NIPSNAP; pfam07978 1036672009152 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 1036672009153 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672009154 Novel bacterial esterase 713 that cleaves esters on halogenated cyclic compounds; Region: Esterase_713; cd12807 1036672009155 catalytic site [active] 1036672009156 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672009157 EthD domain; Region: EthD; pfam07110 1036672009158 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR6; cd08272 1036672009159 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1036672009160 putative NAD(P) binding site [chemical binding]; other site 1036672009161 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 1036672009162 dimerization interface [polypeptide binding]; other site 1036672009163 putative DNA binding site [nucleotide binding]; other site 1036672009164 putative Zn2+ binding site [ion binding]; other site 1036672009165 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1036672009166 putative substrate translocation pore; other site 1036672009167 Cupin; Region: Cupin_6; pfam12852 1036672009168 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1036672009169 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1036672009170 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1036672009171 potential frameshift: common BLAST hit: gi|190891100|ref|YP_001977642.1| alpha/beta hydrolase fold protein 1036672009172 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1036672009173 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1036672009174 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672009175 The 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 1036672009176 dimerization interface [polypeptide binding]; other site 1036672009177 The 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 1036672009178 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 1036672009179 methionine synthase; Provisional; Region: PRK01207 1036672009180 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 1036672009181 substrate binding site [chemical binding]; other site 1036672009182 THF binding site; other site 1036672009183 zinc-binding site [ion binding]; other site 1036672009184 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 1036672009185 Serine/threonine protein kinase involved in cell cycle control [Signal transduction mechanisms / Cell division and chromosome partitioning]; Region: RIO1; COG1718 1036672009186 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 1036672009187 ATP binding site [chemical binding]; other site 1036672009188 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 1036672009189 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 1036672009190 short chain dehydrogenase; Provisional; Region: PRK06500 1036672009191 classical (c) SDRs; Region: SDR_c; cd05233 1036672009192 NAD(P) binding site [chemical binding]; other site 1036672009193 active site 1036672009194 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1036672009195 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1036672009196 potential frameshift: common BLAST hit: gi|146307209|ref|YP_001187674.1| filamentation induced by cAMP protein fic 1036672009197 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 1036672009198 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1036672009199 substrate binding pocket [chemical binding]; other site 1036672009200 membrane-bound complex binding site; other site 1036672009201 hinge residues; other site 1036672009202 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 1036672009203 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 1036672009204 N-terminal plug; other site 1036672009205 ligand-binding site [chemical binding]; other site 1036672009206 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1036672009207 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1036672009208 NAD(P) binding site [chemical binding]; other site 1036672009209 active site 1036672009210 potential frameshift: common BLAST hit: gi|384047012|ref|YP_005495029.1| Arylsulfatase A family protein 1036672009211 Uncharacterized conserved protein [Function unknown]; Region: COG5476 1036672009212 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 1036672009213 MlrC C-terminus; Region: MlrC_C; pfam07171 1036672009214 potential frameshift: common BLAST hit: gi|311109477|ref|YP_003982330.1| extra-cytoplasmic solute receptor family protein 178 1036672009215 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 1036672009216 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1036672009217 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1036672009218 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 1036672009219 catalytic triad [active] 1036672009220 hypothetical protein; Provisional; Region: PRK07483 1036672009221 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 1036672009222 inhibitor-cofactor binding pocket; inhibition site 1036672009223 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1036672009224 catalytic residue [active] 1036672009225 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1036672009226 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1036672009227 Protein of unknown function (DUF592); Region: DUF592; pfam04574 1036672009228 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 1036672009229 putative active site [active] 1036672009230 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 1036672009231 Predicted transcriptional regulator [Transcription]; Region: COG3905 1036672009232 Protein of unknown function (DUF1470); Region: DUF1470; pfam07336 1036672009233 CGNR zinc finger; Region: zf-CGNR; pfam11706 1036672009234 potential frameshift: common BLAST hit: gi|226359865|ref|YP_002777643.1| epoxide hydrolase 1036672009235 Mrr N-terminal domain; Region: Mrr_N; pfam14338 1036672009236 Restriction endonuclease [Defense mechanisms]; Region: Mrr; COG1715 1036672009237 Mrr N-terminal domain; Region: Mrr_N; pfam14338 1036672009238 Restriction endonuclease; Region: Mrr_cat; pfam04471 1036672009239 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1036672009240 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1036672009241 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 1036672009242 putative dimerization interface [polypeptide binding]; other site 1036672009243 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1036672009244 Sulfatase; Region: Sulfatase; cl17466 1036672009245 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672009246 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1036672009247 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 1036672009248 EamA-like transporter family; Region: EamA; cl17759 1036672009249 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672009250 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1036672009251 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 1036672009252 dimerization interface [polypeptide binding]; other site 1036672009253 substrate binding pocket [chemical binding]; other site 1036672009254 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 1036672009255 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 1036672009256 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1036672009257 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672009258 The 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 1036672009259 dimerization interface [polypeptide binding]; other site 1036672009260 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1036672009261 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 1036672009262 substrate binding pocket [chemical binding]; other site 1036672009263 membrane-bound complex binding site; other site 1036672009264 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1036672009265 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672009266 dimer interface [polypeptide binding]; other site 1036672009267 conserved gate region; other site 1036672009268 putative PBP binding loops; other site 1036672009269 ABC-ATPase subunit interface; other site 1036672009270 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1036672009271 Walker A/P-loop; other site 1036672009272 ATP binding site [chemical binding]; other site 1036672009273 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1036672009274 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1036672009275 Q-loop/lid; other site 1036672009276 ABC transporter signature motif; other site 1036672009277 Walker B; other site 1036672009278 D-loop; other site 1036672009279 H-loop/switch region; other site 1036672009280 potential frameshift: common BLAST hit: gi|377808229|ref|YP_004979421.1| FAD dependent oxidoreductase 1036672009281 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 1036672009282 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 1036672009283 potential frameshift: common BLAST hit: gi|326318954|ref|YP_004236626.1| 5-carboxymethyl-2-hydroxymuconate delta-isomerase 1036672009284 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 1036672009285 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 1036672009286 active site 1036672009287 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 1036672009288 homotrimer interaction site [polypeptide binding]; other site 1036672009289 putative active site [active] 1036672009290 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 1036672009291 potential frameshift: common BLAST hit: gi|330823155|ref|YP_004386458.1| IclR family transcriptional regulator 1036672009292 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 1036672009293 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1036672009294 active site 1036672009295 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 1036672009296 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 1036672009297 putative catalytic residue [active] 1036672009298 metabolite-proton symporter; Region: 2A0106; TIGR00883 1036672009299 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1036672009300 putative substrate translocation pore; other site 1036672009301 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 1036672009302 active site 1036672009303 intersubunit interface [polypeptide binding]; other site 1036672009304 Zn2+ binding site [ion binding]; other site 1036672009305 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672009306 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1036672009307 The 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 1036672009308 dimerization interface [polypeptide binding]; other site 1036672009309 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1036672009310 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1036672009311 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1036672009312 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 1036672009313 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 1036672009314 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1036672009315 Walker B; other site 1036672009316 D-loop; other site 1036672009317 H-loop/switch region; other site 1036672009318 potential frameshift: common BLAST hit: gi|113869179|ref|YP_727668.1| ABC-type transporter, ATPase and permease components 1036672009319 potential frameshift: common BLAST hit: gi|146280564|ref|YP_001170717.1| AraC family transcriptional regulator 1036672009320 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 1036672009321 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1036672009322 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1036672009323 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1036672009324 Protein of unknown function, DUF596; Region: DUF596; cl10492 1036672009325 potential frameshift: common BLAST hit: gi|15677610|ref|NP_274768.1| hemagglutinin/hemolysin-like protein 1036672009326 adhesin HecA family 20-residue repeat (two copies); Region: fil_hemag_20aa; TIGR01731 1036672009327 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 1036672009328 haemagglutination activity domain; Region: Haemagg_act; pfam05860 1036672009329 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1036672009330 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 1036672009331 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 1036672009332 Protein of unknown function, DUF600; Region: DUF600; cl04640 1036672009333 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1036672009334 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1036672009335 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1036672009336 Domain of unknown function (DUF4202); Region: DUF4202; pfam13875 1036672009337 potential frameshift: common BLAST hit: gi|332285501|ref|YP_004417412.1| acyl-CoA transferase 1036672009338 Citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CCL cleaves citryl-CoA (CiCoA) to acetyl-CoA (AcCoA) and oxaloacetate (OAA); Region: CCL_ACL-C; cd06100 1036672009339 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1036672009340 active site 1036672009341 citrylCoA binding site [chemical binding]; other site 1036672009342 oxalacetate binding site [chemical binding]; other site 1036672009343 coenzyme A binding site [chemical binding]; other site 1036672009344 catalytic triad [active] 1036672009345 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1036672009346 Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes; Region: MAR; cd08177 1036672009347 active site 1036672009348 dimer interface [polypeptide binding]; other site 1036672009349 metal binding site [ion binding]; metal-binding site 1036672009350 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672009351 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 1036672009352 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672009353 The 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 1036672009354 dimerization interface [polypeptide binding]; other site 1036672009355 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 1036672009356 Fumarase C-terminus; Region: Fumerase_C; pfam05683 1036672009357 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 1036672009358 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672009359 potential frameshift: common BLAST hit: gi|300693955|ref|YP_003749928.1| 3-carboxy-cis,cis-muconate cycloisomerase 1036672009360 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1036672009361 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1036672009362 DNA-binding site [nucleotide binding]; DNA binding site 1036672009363 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1036672009364 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1036672009365 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1036672009366 putative substrate translocation pore; other site 1036672009367 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1036672009368 classical (c) SDRs; Region: SDR_c; cd05233 1036672009369 NAD(P) binding site [chemical binding]; other site 1036672009370 active site 1036672009371 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1036672009372 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1036672009373 potential frameshift: common BLAST hit: gi|311104475|ref|YP_003977328.1| extra-cytoplasmic solute receptor family protein 25 1036672009374 potential frameshift: common BLAST hit: gi|311104474|ref|YP_003977327.1| FMN-dependent dehydrogenase family protein 1 1036672009375 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1036672009376 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672009377 The 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 1036672009378 dimerization interface [polypeptide binding]; other site 1036672009379 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 1036672009380 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1036672009381 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 1036672009382 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1036672009383 DNA binding residues [nucleotide binding] 1036672009384 putative dimer interface [polypeptide binding]; other site 1036672009385 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 1036672009386 dimer interface [polypeptide binding]; other site 1036672009387 FMN binding site [chemical binding]; other site 1036672009388 NADPH bind site [chemical binding]; other site 1036672009389 Citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CCL cleaves citryl-CoA (CiCoA) to acetyl-CoA (AcCoA) and oxaloacetate (OAA); Region: CCL_ACL-C; cd06100 1036672009390 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1036672009391 active site 1036672009392 oxalacetate binding site [chemical binding]; other site 1036672009393 citrylCoA binding site [chemical binding]; other site 1036672009394 coenzyme A binding site [chemical binding]; other site 1036672009395 catalytic triad [active] 1036672009396 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1036672009397 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_DitJ_like; cd05934 1036672009398 acyl-activating enzyme (AAE) consensus motif; other site 1036672009399 putative AMP binding site [chemical binding]; other site 1036672009400 putative active site [active] 1036672009401 putative CoA binding site [chemical binding]; other site 1036672009402 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672009403 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672009404 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672009405 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1036672009406 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1036672009407 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 1036672009408 potential frameshift: common BLAST hit: gi|146281992|ref|YP_001172145.1| isoleucyl-tRNA synthetase 1036672009409 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1036672009410 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 1036672009411 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1036672009412 Walker A/P-loop; other site 1036672009413 ATP binding site [chemical binding]; other site 1036672009414 Q-loop/lid; other site 1036672009415 ABC transporter signature motif; other site 1036672009416 Walker B; other site 1036672009417 D-loop; other site 1036672009418 H-loop/switch region; other site 1036672009419 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1036672009420 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1036672009421 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1036672009422 Walker A/P-loop; other site 1036672009423 ATP binding site [chemical binding]; other site 1036672009424 Q-loop/lid; other site 1036672009425 ABC transporter signature motif; other site 1036672009426 Walker B; other site 1036672009427 D-loop; other site 1036672009428 H-loop/switch region; other site 1036672009429 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1036672009430 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1036672009431 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672009432 dimer interface [polypeptide binding]; other site 1036672009433 conserved gate region; other site 1036672009434 putative PBP binding loops; other site 1036672009435 ABC-ATPase subunit interface; other site 1036672009436 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1036672009437 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672009438 dimer interface [polypeptide binding]; other site 1036672009439 conserved gate region; other site 1036672009440 putative PBP binding loops; other site 1036672009441 ABC-ATPase subunit interface; other site 1036672009442 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1036672009443 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1036672009444 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1036672009445 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; cd00995 1036672009446 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1036672009447 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672009448 The 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 1036672009449 dimerization interface [polypeptide binding]; other site 1036672009450 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 1036672009451 putative hydrophobic ligand binding site [chemical binding]; other site 1036672009452 hypothetical protein; Provisional; Region: PRK01842 1036672009453 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 1036672009454 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 1036672009455 C-terminal domain interface [polypeptide binding]; other site 1036672009456 GSH binding site (G-site) [chemical binding]; other site 1036672009457 dimer interface [polypeptide binding]; other site 1036672009458 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 1036672009459 N-terminal domain interface [polypeptide binding]; other site 1036672009460 putative dimer interface [polypeptide binding]; other site 1036672009461 active site 1036672009462 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1036672009463 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1036672009464 Zeta-crystallin with NADP-dependent quinone reductase activity (QOR); Region: zeta_crystallin; cd08253 1036672009465 NAD(P) binding site [chemical binding]; other site 1036672009466 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 1036672009467 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 1036672009468 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1036672009469 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 1036672009470 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 1036672009471 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 1036672009472 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 1036672009473 active site 1036672009474 substrate binding site [chemical binding]; other site 1036672009475 putative catalytic residues [active] 1036672009476 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 1036672009477 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1036672009478 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1036672009479 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 1036672009480 active site 1036672009481 NAD binding site [chemical binding]; other site 1036672009482 metal binding site [ion binding]; metal-binding site 1036672009483 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1036672009484 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672009485 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 1036672009486 putative effector binding pocket; other site 1036672009487 dimerization interface [polypeptide binding]; other site 1036672009488 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 1036672009489 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 1036672009490 non-specific DNA binding site [nucleotide binding]; other site 1036672009491 salt bridge; other site 1036672009492 sequence-specific DNA binding site [nucleotide binding]; other site 1036672009493 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1036672009494 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1036672009495 DNA binding site [nucleotide binding] 1036672009496 domain linker motif; other site 1036672009497 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_2; cd06278 1036672009498 putative ligand binding site [chemical binding]; other site 1036672009499 putative dimerization interface [polypeptide binding]; other site 1036672009500 potential frameshift: common BLAST hit: gi|330810396|ref|YP_004354858.1| transporter membrane protein 1036672009501 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1036672009502 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 1036672009503 active site 1036672009504 iron coordination sites [ion binding]; other site 1036672009505 substrate binding pocket [chemical binding]; other site 1036672009506 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672009507 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1036672009508 DNA-binding site [nucleotide binding]; DNA binding site 1036672009509 potential frameshift: common BLAST hit: gi|33603058|ref|NP_890618.1| GntR family transcriptional regulator 1036672009510 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 1036672009511 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1036672009512 tetramer interface [polypeptide binding]; other site 1036672009513 active site 1036672009514 Mg2+/Mn2+ binding site [ion binding]; other site 1036672009515 3-isopropylmalate dehydratase, small subunit; Region: LEUD_arch; TIGR02087 1036672009516 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 1036672009517 substrate binding site [chemical binding]; other site 1036672009518 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1036672009519 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1036672009520 substrate binding site [chemical binding]; other site 1036672009521 ligand binding site [chemical binding]; other site 1036672009522 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1036672009523 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1036672009524 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1036672009525 Uncharacterized protein conserved in bacteria (DUF2169); Region: DUF2169; pfam09937 1036672009526 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1036672009527 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1036672009528 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1036672009529 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1036672009530 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1036672009531 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1036672009532 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1036672009533 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1036672009534 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1036672009535 Domain of unknown function (DUF4150); Region: DUF4150; pfam13665 1036672009536 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 1036672009537 catalytic core [active] 1036672009538 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1036672009539 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1036672009540 active site 1036672009541 phosphorylation site [posttranslational modification] 1036672009542 intermolecular recognition site; other site 1036672009543 dimerization interface [polypeptide binding]; other site 1036672009544 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 1036672009545 DNA binding site [nucleotide binding] 1036672009546 enterobactin receptor protein; Provisional; Region: PRK13483 1036672009547 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 1036672009548 N-terminal plug; other site 1036672009549 ligand-binding site [chemical binding]; other site 1036672009550 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 1036672009551 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 1036672009552 putative ligand binding residues [chemical binding]; other site 1036672009553 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1036672009554 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672009555 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 1036672009556 putative effector binding pocket; other site 1036672009557 putative dimerization interface [polypeptide binding]; other site 1036672009558 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 1036672009559 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1036672009560 active site 1036672009561 catalytic tetrad [active] 1036672009562 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 1036672009563 dimerization interface [polypeptide binding]; other site 1036672009564 putative DNA binding site [nucleotide binding]; other site 1036672009565 putative Zn2+ binding site [ion binding]; other site 1036672009566 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 1036672009567 active site 1036672009568 NTP binding site [chemical binding]; other site 1036672009569 metal binding triad [ion binding]; metal-binding site 1036672009570 antibiotic binding site [chemical binding]; other site 1036672009571 Heme NO binding; Region: HNOB; pfam07700 1036672009572 potential frameshift: common BLAST hit: gi|33595579|ref|NP_883222.1| LysR family transcriptional regulator 1036672009573 phosphate/phosphite/phosphonate ABC transporters, periplasmic binding protein; Region: 3A0109s03R; TIGR01098 1036672009574 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672009575 potential frameshift: common BLAST hit: gi|330823626|ref|YP_004386929.1| Microcystin LR degradation protein MlrC 1036672009576 potential frameshift: common BLAST hit: gi|319764099|ref|YP_004128036.1| microcystin lr degradation protein mlrc-like protein 1036672009577 potential frameshift: common BLAST hit: gi|104781079|ref|YP_607577.1| 5'-nucleotidase 1036672009578 potential frameshift: common BLAST hit: gi|330823413|ref|YP_004386716.1| amidohydrolase 2 1036672009579 potential frameshift: common BLAST hit: gi|121608327|ref|YP_996134.1| 3-isopropylmalate dehydrogenase 1036672009580 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1036672009581 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1036672009582 DNA-binding site [nucleotide binding]; DNA binding site 1036672009583 FCD domain; Region: FCD; pfam07729 1036672009584 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672009585 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1036672009586 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672009587 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 1036672009588 putative effector binding pocket; other site 1036672009589 putative dimerization interface [polypeptide binding]; other site 1036672009590 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672009591 potential frameshift: common BLAST hit: gi|339323530|ref|YP_004682424.1| extra-cytoplasmic solute receptor 1036672009592 potential frameshift: common BLAST hit: gi|116696211|ref|YP_841787.1| isopropylmalate isomerase large subunit 1036672009593 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 1036672009594 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 1036672009595 substrate binding site [chemical binding]; other site 1036672009596 Protein of unknown function (DUF1706); Region: DUF1706; pfam08020 1036672009597 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 1036672009598 HicB family; Region: HicB; pfam05534 1036672009599 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1036672009600 D-galactonate transporter; Region: 2A0114; TIGR00893 1036672009601 putative substrate translocation pore; other site 1036672009602 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 1036672009603 dihydropyrimidinase; Provisional; Region: PRK13404 1036672009604 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 1036672009605 tetramer interface [polypeptide binding]; other site 1036672009606 active site 1036672009607 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 1036672009608 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1036672009609 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1036672009610 DNA-binding site [nucleotide binding]; DNA binding site 1036672009611 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1036672009612 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1036672009613 sulfite oxidase; Provisional; Region: PLN00177 1036672009614 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 1036672009615 Moco binding site; other site 1036672009616 metal coordination site [ion binding]; other site 1036672009617 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1036672009618 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1036672009619 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 1036672009620 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1036672009621 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1036672009622 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 1036672009623 ligand binding site [chemical binding]; other site 1036672009624 NAD binding site [chemical binding]; other site 1036672009625 dimerization interface [polypeptide binding]; other site 1036672009626 catalytic site [active] 1036672009627 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1036672009628 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 1036672009629 active site pocket [active] 1036672009630 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 1036672009631 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1036672009632 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1036672009633 acyl-activating enzyme (AAE) consensus motif; other site 1036672009634 AMP binding site [chemical binding]; other site 1036672009635 active site 1036672009636 CoA binding site [chemical binding]; other site 1036672009637 enoyl-CoA hydratase; Provisional; Region: PRK08252 1036672009638 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 1036672009639 substrate binding site [chemical binding]; other site 1036672009640 oxyanion hole (OAH) forming residues; other site 1036672009641 trimer interface [polypeptide binding]; other site 1036672009642 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 1036672009643 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1036672009644 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1036672009645 Bacterial transcriptional regulator; Region: IclR; pfam01614 1036672009646 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 1036672009647 NADP binding site [chemical binding]; other site 1036672009648 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1036672009649 potential frameshift: common BLAST hit: gi|337748692|ref|YP_004642854.1| L-carnitine dehydratase/bile acid-inducible protein F 1036672009650 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1036672009651 potential frameshift: common BLAST hit: gi|384538743|ref|YP_005722827.1| putative TRAP dicarboxylate transporter 1036672009652 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1036672009653 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1036672009654 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1036672009655 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1036672009656 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1036672009657 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 1036672009658 active site 2 [active] 1036672009659 active site 1 [active] 1036672009660 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1036672009661 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1036672009662 Bacterial transcriptional regulator; Region: IclR; pfam01614 1036672009663 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 1036672009664 substrate binding site [chemical binding]; other site 1036672009665 active site 1036672009666 catalytic residues [active] 1036672009667 heterodimer interface [polypeptide binding]; other site 1036672009668 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1036672009669 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 1036672009670 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1036672009671 catalytic residue [active] 1036672009672 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1036672009673 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672009674 The 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 1036672009675 dimerization interface [polypeptide binding]; other site 1036672009676 Protein of Unknown function (DUF2784); Region: DUF2784; pfam10861 1036672009677 Pirin-related protein [General function prediction only]; Region: COG1741 1036672009678 Pirin; Region: Pirin; pfam02678 1036672009679 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1036672009680 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 1036672009681 putative effector binding pocket; other site 1036672009682 putative dimerization interface [polypeptide binding]; other site 1036672009683 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 1036672009684 Ligand Binding Site [chemical binding]; other site 1036672009685 PAS fold; Region: PAS_4; pfam08448 1036672009686 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1036672009687 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1036672009688 hydroxyproline-2-epimerase; Provisional; Region: PRK13970 1036672009689 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 1036672009690 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1036672009691 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1036672009692 potential frameshift: common BLAST hit: gi|93006045|ref|YP_580482.1| dihydrodipicolinate synthetase 1036672009693 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1036672009694 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 1036672009695 NAD(P) binding site [chemical binding]; other site 1036672009696 catalytic residues [active] 1036672009697 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1036672009698 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 1036672009699 EF-hand domain pair; Region: EF_hand_5; pfam13499 1036672009700 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 1036672009701 Ca2+ binding site [ion binding]; other site 1036672009702 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 1036672009703 potential frameshift: common BLAST hit: gi|163857530|ref|YP_001631828.1| Zn-dependent protease 1036672009704 MASE1; Region: MASE1; cl17823 1036672009705 PAS fold; Region: PAS_3; pfam08447 1036672009706 Phasin protein; Region: Phasin_2; cl11491 1036672009707 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 1036672009708 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1036672009709 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 1036672009710 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 1036672009711 DNA binding site [nucleotide binding] 1036672009712 active site 1036672009713 glutamate carboxypeptidase; Reviewed; Region: PRK06133 1036672009714 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 1036672009715 metal binding site [ion binding]; metal-binding site 1036672009716 dimer interface [polypeptide binding]; other site 1036672009717 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1036672009718 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 1036672009719 potential catalytic triad [active] 1036672009720 conserved cys residue [active] 1036672009721 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 1036672009722 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1036672009723 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 1036672009724 Staphylococcal nuclease homologues; Region: SNc; smart00318 1036672009725 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 1036672009726 Catalytic site; other site 1036672009727 potential frameshift: common BLAST hit: gi|332286850|ref|YP_004418761.1| sulfatase 1036672009728 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1036672009729 Transcriptional regulator; Region: Rrf2; cl17282 1036672009730 Rrf2 family protein; Region: rrf2_super; TIGR00738 1036672009731 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 1036672009732 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 1036672009733 heme-binding site [chemical binding]; other site 1036672009734 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 1036672009735 FAD binding pocket [chemical binding]; other site 1036672009736 FAD binding motif [chemical binding]; other site 1036672009737 phosphate binding motif [ion binding]; other site 1036672009738 beta-alpha-beta structure motif; other site 1036672009739 NAD binding pocket [chemical binding]; other site 1036672009740 Heme binding pocket [chemical binding]; other site 1036672009741 Predicted membrane protein [Function unknown]; Region: COG2860 1036672009742 UPF0126 domain; Region: UPF0126; pfam03458 1036672009743 UPF0126 domain; Region: UPF0126; pfam03458 1036672009744 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 1036672009745 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 1036672009746 dimer interface [polypeptide binding]; other site 1036672009747 ssDNA binding site [nucleotide binding]; other site 1036672009748 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1036672009749 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 1036672009750 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 1036672009751 intersubunit interface [polypeptide binding]; other site 1036672009752 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1036672009753 amino acid carrier protein; Region: agcS; TIGR00835 1036672009754 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1036672009755 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 1036672009756 META domain; Region: META; pfam03724 1036672009757 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 1036672009758 H+ Antiporter protein; Region: 2A0121; TIGR00900 1036672009759 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1036672009760 putative substrate translocation pore; other site 1036672009761 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1036672009762 MarR family; Region: MarR_2; pfam12802 1036672009763 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 1036672009764 active site 1036672009765 substrate-binding site [chemical binding]; other site 1036672009766 metal-binding site [ion binding] 1036672009767 GTP binding site [chemical binding]; other site 1036672009768 potential frameshift: common BLAST hit: gi|194292284|ref|YP_002008191.1| shikimate and dehydroshikimate transport protein (); mfs family 1036672009769 potential frameshift: common BLAST hit: gi|116695787|ref|YP_841363.1| glucose-methanol-choline oxidoreductase 1036672009770 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1036672009771 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1036672009772 Bacterial transcriptional regulator; Region: IclR; pfam01614 1036672009773 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672009774 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672009775 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1036672009776 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1036672009777 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 1036672009778 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 1036672009779 potential frameshift: common BLAST hit: gi|78060740|ref|YP_367315.1| amidohydrolase 1036672009780 potential frameshift: common BLAST hit: gi|347539432|ref|YP_004846857.1| sulfoacetaldehyde acetyltransferase 1036672009781 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 1036672009782 Cobalamin biosynthesis protein CobT (nicotinate-mononucleotide:5, 6-dimethylbenzimidazole phosphoribosyltransferase) [Coenzyme metabolism]; Region: CobT; COG4547 1036672009783 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 1036672009784 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 1036672009785 metal ion-dependent adhesion site (MIDAS); other site 1036672009786 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 1036672009787 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 1036672009788 AAA domain; Region: AAA_17; pfam13207 1036672009789 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1036672009790 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1036672009791 Bacterial transcriptional regulator; Region: IclR; pfam01614 1036672009792 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 1036672009793 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 1036672009794 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1036672009795 catalytic residue [active] 1036672009796 homodimer interface [polypeptide binding]; other site 1036672009797 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1036672009798 DNA-binding site [nucleotide binding]; DNA binding site 1036672009799 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 1036672009800 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 1036672009801 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1036672009802 potential frameshift: common BLAST hit: gi|384538882|ref|YP_005722966.1| putative taurine uptake ABC transporter permease protein 1036672009803 ABC-type taurine transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG4525 1036672009804 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1036672009805 Walker A/P-loop; other site 1036672009806 ATP binding site [chemical binding]; other site 1036672009807 Q-loop/lid; other site 1036672009808 ABC transporter signature motif; other site 1036672009809 Walker B; other site 1036672009810 D-loop; other site 1036672009811 H-loop/switch region; other site 1036672009812 ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: TauA; COG4521 1036672009813 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 1036672009814 substrate binding pocket [chemical binding]; other site 1036672009815 membrane-bound complex binding site; other site 1036672009816 hinge residues; other site 1036672009817 glutamine ABC transporter periplasmic protein; Reviewed; Region: glnH; PRK09495 1036672009818 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 1036672009819 substrate binding pocket [chemical binding]; other site 1036672009820 membrane-bound complex binding site; other site 1036672009821 hinge residues; other site 1036672009822 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1036672009823 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1036672009824 FAD dependent oxidoreductase; Region: DAO; pfam01266 1036672009825 SnoaL-like domain; Region: SnoaL_2; pfam12680 1036672009826 potential frameshift: common BLAST hit: gi|91776927|ref|YP_546683.1| sulfide dehydrogenase (flavocytochrome), flavoprotein subunit 1036672009827 Cytochrome c; Region: Cytochrom_C; cl11414 1036672009828 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1036672009829 potential frameshift: common BLAST hit: gi|253995442|ref|YP_003047506.1| sulfur oxidation protein SoxZ 1036672009830 gluconate 5-dehydrogenase; Provisional; Region: PRK08085 1036672009831 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 1036672009832 NADP binding site [chemical binding]; other site 1036672009833 homodimer interface [polypeptide binding]; other site 1036672009834 active site 1036672009835 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1036672009836 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 1036672009837 active site pocket [active] 1036672009838 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1036672009839 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1036672009840 DNA-binding site [nucleotide binding]; DNA binding site 1036672009841 FCD domain; Region: FCD; pfam07729 1036672009842 PPOX class probable FMN-dependent enzyme, DR_2398 family; Region: PPOX_FMN_DR2398; TIGR04025 1036672009843 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 1036672009844 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 1036672009845 Domain of unknown function (DUF4285); Region: DUF4285; pfam14113 1036672009846 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1036672009847 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1036672009848 DNA-binding site [nucleotide binding]; DNA binding site 1036672009849 FCD domain; Region: FCD; pfam07729 1036672009850 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1036672009851 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1036672009852 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4222 1036672009853 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 1036672009854 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1036672009855 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1036672009856 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 1036672009857 potential frameshift: common BLAST hit: gi|300310313|ref|YP_003774405.1| acyl-CoA dehydrogenase 1036672009858 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1036672009859 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 1036672009860 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 1036672009861 DNA binding residues [nucleotide binding] 1036672009862 dimer interface [polypeptide binding]; other site 1036672009863 copper binding site [ion binding]; other site 1036672009864 ATPase, P-type (transporting), HAD superfamily, subfamily IC; Region: ATPase_P-type; TIGR01494 1036672009865 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1036672009866 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 1036672009867 motif II; other site 1036672009868 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 1036672009869 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1036672009870 metal-binding site [ion binding] 1036672009871 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 1036672009872 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 1036672009873 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1036672009874 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1036672009875 ligand binding site [chemical binding]; other site 1036672009876 potential frameshift: common BLAST hit: gi|163854799|ref|YP_001629097.1| B12-dependent methionine synthase 1036672009877 potential frameshift: common BLAST hit: gi|33603430|ref|NP_890990.1| B12-dependent methionine synthase 1036672009878 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 1036672009879 potential frameshift: common BLAST hit: gi|332286649|ref|YP_004418560.1| outer membrane protein 1036672009880 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 1036672009881 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 1036672009882 intersubunit interface [polypeptide binding]; other site 1036672009883 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1036672009884 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 1036672009885 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 1036672009886 Dihydroneopterin aldolase; Region: FolB; pfam02152 1036672009887 active site 1036672009888 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 1036672009889 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 1036672009890 Ligand Binding Site [chemical binding]; other site 1036672009891 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 1036672009892 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 1036672009893 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 1036672009894 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 1036672009895 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 1036672009896 putative GSH binding site [chemical binding]; other site 1036672009897 catalytic residues [active] 1036672009898 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 1036672009899 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 1036672009900 S-adenosylmethionine binding site [chemical binding]; other site 1036672009901 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1036672009902 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1036672009903 RF-1 domain; Region: RF-1; pfam00472 1036672009904 potential frameshift: common BLAST hit: gi|163858863|ref|YP_001633161.1| glutamyl-tRNA reductase 1036672009905 Protein of unknown function (DUF4065); Region: DUF4065; pfam13274 1036672009906 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 1036672009907 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 1036672009908 ATP binding site [chemical binding]; other site 1036672009909 putative Mg++ binding site [ion binding]; other site 1036672009910 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 1036672009911 nucleotide binding region [chemical binding]; other site 1036672009912 Domain of unknown function (DUF4016); Region: DUF4016; pfam13208 1036672009913 tellurite resistance protein terB; Region: terB; cd07176 1036672009914 putative metal binding site [ion binding]; other site 1036672009915 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 1036672009916 Protein of unknown function (DUF2380); Region: DUF3280; pfam11684 1036672009917 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1036672009918 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1036672009919 DNA-binding site [nucleotide binding]; DNA binding site 1036672009920 UTRA domain; Region: UTRA; pfam07702 1036672009921 potential frameshift: common BLAST hit: gi|163856298|ref|YP_001630596.1| 4-hydroxythreonine-4-phosphate dehydrogenase 1036672009922 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 1036672009923 2-keto-3-deoxygluconate permease; Provisional; Region: PRK05274 1036672009924 potential frameshift: common BLAST hit: gi|300309916|ref|YP_003774008.1| transcription regulator protein 1036672009925 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 1036672009926 classical (c) SDRs; Region: SDR_c; cd05233 1036672009927 NAD(P) binding site [chemical binding]; other site 1036672009928 active site 1036672009929 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1036672009930 classical (c) SDRs; Region: SDR_c; cd05233 1036672009931 NAD(P) binding site [chemical binding]; other site 1036672009932 active site 1036672009933 potential frameshift: common BLAST hit: gi|295699501|ref|YP_003607394.1| cupin 1036672009934 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1036672009935 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672009936 potential frameshift: common BLAST hit: gi|91783493|ref|YP_558699.1| ABC transporter, inner membrane subunit 1036672009937 ABC transporter; Region: ABC_tran; pfam00005 1036672009938 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1036672009939 Q-loop/lid; other site 1036672009940 ABC transporter signature motif; other site 1036672009941 Walker B; other site 1036672009942 D-loop; other site 1036672009943 H-loop/switch region; other site 1036672009944 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 1036672009945 TrkA-N domain; Region: TrkA_N; pfam02254 1036672009946 RyR domain; Region: RyR; pfam02026 1036672009947 TIR domain; Region: TIR_2; pfam13676 1036672009948 FOG: WD40 repeat [General function prediction only]; Region: COG2319 1036672009949 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 1036672009950 structural tetrad; other site 1036672009951 FOG: WD40 repeat [General function prediction only]; Region: COG2319 1036672009952 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_14; cd08355 1036672009953 potential frameshift: common BLAST hit: gi|311108459|ref|YP_003981312.1| NADP-dependent malic enzyme 3 1036672009954 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1036672009955 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672009956 The 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 1036672009957 dimerization interface [polypeptide binding]; other site 1036672009958 chaperone-modulator protein CbpM; Provisional; Region: PRK10265 1036672009959 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 1036672009960 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1036672009961 substrate binding site [polypeptide binding]; other site 1036672009962 dimer interface [polypeptide binding]; other site 1036672009963 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 1036672009964 HSP70 interaction site [polypeptide binding]; other site 1036672009965 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1036672009966 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1036672009967 Bacterial transcriptional regulator; Region: IclR; pfam01614 1036672009968 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1036672009969 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 1036672009970 ligand binding site [chemical binding]; other site 1036672009971 NAD binding site [chemical binding]; other site 1036672009972 dimerization interface [polypeptide binding]; other site 1036672009973 catalytic site [active] 1036672009974 hypothetical protein; Validated; Region: PRK06201 1036672009975 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 1036672009976 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672009977 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1036672009978 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672009979 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 1036672009980 putative effector binding pocket; other site 1036672009981 dimerization interface [polypeptide binding]; other site 1036672009982 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1036672009983 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1036672009984 tetrameric interface [polypeptide binding]; other site 1036672009985 NAD binding site [chemical binding]; other site 1036672009986 catalytic residues [active] 1036672009987 Helix-turn-helix domain; Region: HTH_18; pfam12833 1036672009988 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1036672009989 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_22; cd08359 1036672009990 putative dimer interface [polypeptide binding]; other site 1036672009991 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1036672009992 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 1036672009993 CoenzymeA binding site [chemical binding]; other site 1036672009994 subunit interaction site [polypeptide binding]; other site 1036672009995 PHB binding site; other site 1036672009996 multidrug efflux protein NorA; Provisional; Region: PRK00187 1036672009997 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 1036672009998 cation binding site [ion binding]; other site 1036672009999 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1036672010000 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672010001 The C-terminal substrate domain of LysR-like regulator LrhA (LysR homologue A) and that of closely related homologs, contains the type 2 periplasmic binding fold; Region: PBP2_LrhA_like; cd08439 1036672010002 putative dimerization interface [polypeptide binding]; other site 1036672010003 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 1036672010004 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 1036672010005 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 1036672010006 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1036672010007 catalytic residue [active] 1036672010008 3-mercaptopyruvate sulfurtransferase; Provisional; Region: sseA; PRK11493 1036672010009 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 1036672010010 active site residue [active] 1036672010011 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 1036672010012 active site residue [active] 1036672010013 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 1036672010014 active site residue [active] 1036672010015 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 1036672010016 active site residue [active] 1036672010017 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1036672010018 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 1036672010019 substrate binding pocket [chemical binding]; other site 1036672010020 membrane-bound complex binding site; other site 1036672010021 hinge residues; other site 1036672010022 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672010023 dimer interface [polypeptide binding]; other site 1036672010024 conserved gate region; other site 1036672010025 putative PBP binding loops; other site 1036672010026 ABC-ATPase subunit interface; other site 1036672010027 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672010028 putative PBP binding loops; other site 1036672010029 dimer interface [polypeptide binding]; other site 1036672010030 ABC-ATPase subunit interface; other site 1036672010031 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1036672010032 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1036672010033 Walker A/P-loop; other site 1036672010034 ATP binding site [chemical binding]; other site 1036672010035 Q-loop/lid; other site 1036672010036 ABC transporter signature motif; other site 1036672010037 Walker B; other site 1036672010038 D-loop; other site 1036672010039 H-loop/switch region; other site 1036672010040 potential frameshift: common BLAST hit: gi|163858769|ref|YP_001633067.1| LysR family transcriptional regulator 1036672010041 Domain of unknown function (DUF305); Region: DUF305; cl17794 1036672010042 Protein of unknown function, DUF; Region: DUF411; pfam04214 1036672010043 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 1036672010044 metal-binding site [ion binding] 1036672010045 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 1036672010046 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672010047 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1036672010048 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1036672010049 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1036672010050 Putative cyclase; Region: Cyclase; pfam04199 1036672010051 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672010052 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1036672010053 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 1036672010054 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 1036672010055 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672010056 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1036672010057 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1036672010058 Bacterial transcriptional regulator; Region: IclR; pfam01614 1036672010059 potential frameshift: common BLAST hit: gi|163857989|ref|YP_001632287.1| facyl-CoA transferase/carnitine dehydratase 1036672010060 potential frameshift: common BLAST hit: gi|311107701|ref|YP_003980554.1| CoA-transferase 1036672010061 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1036672010062 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 1036672010063 substrate binding site [chemical binding]; other site 1036672010064 oxyanion hole (OAH) forming residues; other site 1036672010065 trimer interface [polypeptide binding]; other site 1036672010066 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 1036672010067 Coenzyme A transferase; Region: CoA_trans; cl17247 1036672010068 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 1036672010069 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1036672010070 acyl-activating enzyme (AAE) consensus motif; other site 1036672010071 AMP binding site [chemical binding]; other site 1036672010072 active site 1036672010073 CoA binding site [chemical binding]; other site 1036672010074 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1036672010075 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1036672010076 DNA-binding site [nucleotide binding]; DNA binding site 1036672010077 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1036672010078 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 1036672010079 potential frameshift: common BLAST hit: gi|311103693|ref|YP_003976546.1| D-galactarate dehydratase/altronate hydrolase family protein 1 1036672010080 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1036672010081 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 1036672010082 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1036672010083 ligand binding site [chemical binding]; other site 1036672010084 NAD binding site [chemical binding]; other site 1036672010085 dimerization interface [polypeptide binding]; other site 1036672010086 catalytic site [active] 1036672010087 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsC; COG3563 1036672010088 Protein of unknown function (DUF2274); Region: DUF2274; cl02406 1036672010089 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 1036672010090 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 1036672010091 Hint domain; Region: Hint_2; pfam13403 1036672010092 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 1036672010093 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1036672010094 Cupin domain; Region: Cupin_2; cl17218 1036672010095 Glycosyl transferase 4-like domain; Region: Glyco_trans_4_4; pfam13579 1036672010096 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1036672010097 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 1036672010098 type I restriction enzyme EcoKI subunit R; Provisional; Region: hsdR; PRK11448 1036672010099 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 1036672010100 YfbU domain; Region: YfbU; cl01137 1036672010101 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 1036672010102 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 1036672010103 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 1036672010104 active site 1036672010105 substrate binding site [chemical binding]; other site 1036672010106 trimer interface [polypeptide binding]; other site 1036672010107 CoA binding site [chemical binding]; other site 1036672010108 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 1036672010109 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 1036672010110 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1036672010111 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 1036672010112 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 1036672010113 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1036672010114 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 1036672010115 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 1036672010116 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 1036672010117 active site 1036672010118 homodimer interface [polypeptide binding]; other site 1036672010119 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1036672010120 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1036672010121 Walker A/P-loop; other site 1036672010122 ATP binding site [chemical binding]; other site 1036672010123 Q-loop/lid; other site 1036672010124 ABC transporter signature motif; other site 1036672010125 Walker B; other site 1036672010126 D-loop; other site 1036672010127 H-loop/switch region; other site 1036672010128 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1036672010129 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1036672010130 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1036672010131 polysaccharide export protein Wza; Provisional; Region: PRK15078 1036672010132 SLBB domain; Region: SLBB; pfam10531 1036672010133 Chain length determinant protein; Region: Wzz; cl15801 1036672010134 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 1036672010135 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 1036672010136 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 1036672010137 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 1036672010138 Fusaric acid resistance protein family; Region: FUSC; pfam04632 1036672010139 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1036672010140 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 1036672010141 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1036672010142 potential frameshift: common BLAST hit: gi|340785872|ref|YP_004751337.1| Tannase and feruloyl esterase 1036672010143 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1036672010144 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1036672010145 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1036672010146 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1036672010147 glycerol-3-phosphate dehydrogenase, anaerobic, A subunit; Region: glycerol3P_GlpA; TIGR03377 1036672010148 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1036672010149 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1036672010150 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 1036672010151 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1036672010152 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672010153 dimer interface [polypeptide binding]; other site 1036672010154 conserved gate region; other site 1036672010155 putative PBP binding loops; other site 1036672010156 ABC-ATPase subunit interface; other site 1036672010157 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1036672010158 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672010159 dimer interface [polypeptide binding]; other site 1036672010160 conserved gate region; other site 1036672010161 putative PBP binding loops; other site 1036672010162 ABC-ATPase subunit interface; other site 1036672010163 potential frameshift: common BLAST hit: gi|91789787|ref|YP_550739.1| ABC transporter-like protein 1036672010164 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1036672010165 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 1036672010166 putative DNA binding site [nucleotide binding]; other site 1036672010167 putative Zn2+ binding site [ion binding]; other site 1036672010168 Bacterial transcriptional regulator; Region: IclR; pfam01614 1036672010169 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1036672010170 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1036672010171 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 1036672010172 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1036672010173 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 1036672010174 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 1036672010175 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1036672010176 HlyD family secretion protein; Region: HlyD_3; pfam13437 1036672010177 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1036672010178 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1036672010179 putative substrate translocation pore; other site 1036672010180 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1036672010181 Protein of unknown function (DUF3540); Region: DUF3540; pfam12059 1036672010182 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 1036672010183 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 1036672010184 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 1036672010185 Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]; Region: ImpE; COG4455 1036672010186 ImpE protein; Region: ImpE; pfam07024 1036672010187 Protein of unknown function (DUF796); Region: DUF796; pfam05638 1036672010188 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517 1036672010189 Protein of unknown function (DUF877); Region: DUF877; pfam05943 1036672010190 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3516 1036672010191 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 1036672010192 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 1036672010193 DctM-like transporters; Region: DctM; pfam06808 1036672010194 TRAP transporter, DctM subunit; Region: dctM; TIGR00786 1036672010195 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 1036672010196 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1036672010197 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1036672010198 5-oxoprolinase; Region: PLN02666 1036672010199 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 1036672010200 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 1036672010201 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 1036672010202 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672010203 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1036672010204 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1036672010205 putative substrate translocation pore; other site 1036672010206 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1036672010207 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672010208 The 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 1036672010209 dimerization interface [polypeptide binding]; other site 1036672010210 succinic semialdehyde dehydrogenase; Region: PLN02278 1036672010211 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1036672010212 tetramerization interface [polypeptide binding]; other site 1036672010213 NAD(P) binding site [chemical binding]; other site 1036672010214 catalytic residues [active] 1036672010215 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1036672010216 metabolite-proton symporter; Region: 2A0106; TIGR00883 1036672010217 putative substrate translocation pore; other site 1036672010218 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 1036672010219 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1036672010220 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 1036672010221 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 1036672010222 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1036672010223 DNA-binding site [nucleotide binding]; DNA binding site 1036672010224 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 1036672010225 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1036672010226 homodimer interface [polypeptide binding]; other site 1036672010227 catalytic residue [active] 1036672010228 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 1036672010229 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 1036672010230 FAD binding pocket [chemical binding]; other site 1036672010231 FAD binding motif [chemical binding]; other site 1036672010232 phosphate binding motif [ion binding]; other site 1036672010233 NAD binding pocket [chemical binding]; other site 1036672010234 Predicted transcriptional regulators [Transcription]; Region: COG1695 1036672010235 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1036672010236 Protein of unknown function (DUF2753); Region: DUF2753; pfam10952 1036672010237 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 1036672010238 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1036672010239 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1036672010240 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1036672010241 classical (c) SDRs; Region: SDR_c; cd05233 1036672010242 NAD(P) binding site [chemical binding]; other site 1036672010243 active site 1036672010244 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672010245 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 1036672010246 CoenzymeA binding site [chemical binding]; other site 1036672010247 subunit interaction site [polypeptide binding]; other site 1036672010248 PHB binding site; other site 1036672010249 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 1036672010250 active site 1 [active] 1036672010251 active site 2 [active] 1036672010252 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1036672010253 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1036672010254 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1036672010255 classical (c) SDRs; Region: SDR_c; cd05233 1036672010256 NAD(P) binding site [chemical binding]; other site 1036672010257 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1036672010258 classical (c) SDRs; Region: SDR_c; cd05233 1036672010259 NAD(P) binding site [chemical binding]; other site 1036672010260 active site 1036672010261 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1036672010262 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1036672010263 active site 1036672010264 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 1036672010265 CoA binding domain; Region: CoA_binding_2; pfam13380 1036672010266 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 1036672010267 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 1036672010268 potential frameshift: common BLAST hit: gi|27378556|ref|NP_770085.1| enoyl-CoA hydratase 1036672010269 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 1036672010270 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1036672010271 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 1036672010272 The 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 1036672010273 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1036672010274 dimerization interface [polypeptide binding]; other site 1036672010275 potential frameshift: common BLAST hit: gi|27378553|ref|NP_770082.1| senescence marker protein-30 (SMP-30) (regucalcin) (RC) 1036672010276 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672010277 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672010278 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672010279 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672010280 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08276 1036672010281 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1036672010282 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 1036672010283 acyl-activating enzyme (AAE) consensus motif; other site 1036672010284 acyl-activating enzyme (AAE) consensus motif; other site 1036672010285 putative AMP binding site [chemical binding]; other site 1036672010286 putative active site [active] 1036672010287 putative CoA binding site [chemical binding]; other site 1036672010288 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 1036672010289 NAD(P) binding site [chemical binding]; other site 1036672010290 short chain dehydrogenase; Provisional; Region: PRK07677 1036672010291 substrate binding site [chemical binding]; other site 1036672010292 homotetramer interface [polypeptide binding]; other site 1036672010293 active site 1036672010294 homodimer interface [polypeptide binding]; other site 1036672010295 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1036672010296 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672010297 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 1036672010298 putative effector binding pocket; other site 1036672010299 dimerization interface [polypeptide binding]; other site 1036672010300 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 1036672010301 classical (c) SDRs; Region: SDR_c; cd05233 1036672010302 NAD(P) binding site [chemical binding]; other site 1036672010303 active site 1036672010304 OsmC-like protein; Region: OsmC; cl00767 1036672010305 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1036672010306 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1036672010307 NAD(P) binding site [chemical binding]; other site 1036672010308 active site 1036672010309 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1036672010310 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672010311 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 1036672010312 putative effector binding pocket; other site 1036672010313 dimerization interface [polypeptide binding]; other site 1036672010314 Cupin domain; Region: Cupin_2; pfam07883 1036672010315 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1036672010316 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1036672010317 RNA polymerase sigma-70 factor, TIGR02957 family; Region: SigX4 1036672010318 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1036672010319 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 1036672010320 DNA binding residues [nucleotide binding] 1036672010321 Protein of unknown function (DUF805); Region: DUF805; pfam05656 1036672010322 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1036672010323 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 1036672010324 dimer interface [polypeptide binding]; other site 1036672010325 ssDNA binding site [nucleotide binding]; other site 1036672010326 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1036672010327 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1036672010328 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1036672010329 putative substrate translocation pore; other site 1036672010330 potential frameshift: common BLAST hit: gi|163859227|ref|YP_001633526.1| excinuclease ABC subunit A 1036672010331 potential frameshift: common BLAST hit: gi|126450779|ref|YP_001080167.1| acetyl-coenzyme A synthetase 1036672010332 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 1036672010333 active site 1036672010334 dimerization interface [polypeptide binding]; other site 1036672010335 Helix-turn-helix domain; Region: HTH_18; pfam12833 1036672010336 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1036672010337 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 1036672010338 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1036672010339 Zn2+ binding site [ion binding]; other site 1036672010340 Mg2+ binding site [ion binding]; other site 1036672010341 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1036672010342 potential frameshift: common BLAST hit: gi|163859231|ref|YP_001633529.1| 3-dehydroquinate synthase 1036672010343 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 1036672010344 shikimate kinase; Reviewed; Region: aroK; PRK00131 1036672010345 ADP binding site [chemical binding]; other site 1036672010346 magnesium binding site [ion binding]; other site 1036672010347 putative shikimate binding site; other site 1036672010348 Transglycosylase; Region: Transgly; pfam00912 1036672010349 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1036672010350 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1036672010351 Frataxin-like domain; Region: Frataxin_Cyay; pfam01491 1036672010352 putative iron binding site [ion binding]; other site 1036672010353 diaminopimelate decarboxylase; Region: lysA; TIGR01048 1036672010354 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1036672010355 active site 1036672010356 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1036672010357 substrate binding site [chemical binding]; other site 1036672010358 catalytic residues [active] 1036672010359 dimer interface [polypeptide binding]; other site 1036672010360 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1036672010361 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 1036672010362 NMT1-like family; Region: NMT1_2; pfam13379 1036672010363 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1036672010364 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1036672010365 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1036672010366 Walker A/P-loop; other site 1036672010367 ATP binding site [chemical binding]; other site 1036672010368 Q-loop/lid; other site 1036672010369 ABC transporter signature motif; other site 1036672010370 Walker B; other site 1036672010371 D-loop; other site 1036672010372 H-loop/switch region; other site 1036672010373 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1036672010374 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672010375 ABC-ATPase subunit interface; other site 1036672010376 potential frameshift: common BLAST hit: gi|311109559|ref|YP_003982412.1| cytochrome C biogenesis protein CcsB 1036672010377 potential frameshift: common BLAST hit: gi|348590776|ref|YP_004875238.1| cytochrome c-type biogenesis protein Ccs1/ResB 1036672010378 Cytochrome c; Region: Cytochrom_C; cl11414 1036672010379 Cytochrome c; Region: Cytochrom_C; cl11414 1036672010380 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1036672010381 G1 box; other site 1036672010382 GTP/Mg2+ binding site [chemical binding]; other site 1036672010383 Switch I region; other site 1036672010384 G2 box; other site 1036672010385 G3 box; other site 1036672010386 Switch II region; other site 1036672010387 G4 box; other site 1036672010388 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 1036672010389 dimer interface [polypeptide binding]; other site 1036672010390 active site 1036672010391 aspartate-rich active site metal binding site; other site 1036672010392 allosteric magnesium binding site [ion binding]; other site 1036672010393 Schiff base residues; other site 1036672010394 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1036672010395 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1036672010396 active site 1036672010397 tetramer interface; other site 1036672010398 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 1036672010399 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1036672010400 NAD(P) binding site [chemical binding]; other site 1036672010401 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1036672010402 active site 1036672010403 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1036672010404 Fic/DOC family; Region: Fic; cl00960 1036672010405 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 1036672010406 VbhA antitoxin and related proteins; Region: VbhA_like; cd11586 1036672010407 FIC domain binding interface [polypeptide binding]; other site 1036672010408 Domain of unknown function (DUF4188); Region: DUF4188; pfam13826 1036672010409 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 1036672010410 MOSC domain; Region: MOSC; pfam03473 1036672010411 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4102 1036672010412 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 1036672010413 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1036672010414 DsbD alpha interface [polypeptide binding]; other site 1036672010415 catalytic residues [active] 1036672010416 potential frameshift: common BLAST hit: gi|311109572|ref|YP_003982425.1| thiol:disulfide interchange protein DsbD 1036672010417 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 1036672010418 benzoate transport; Region: 2A0115; TIGR00895 1036672010419 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1036672010420 putative substrate translocation pore; other site 1036672010421 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5304 1036672010422 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1036672010423 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1036672010424 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1036672010425 alphaNTD homodimer interface [polypeptide binding]; other site 1036672010426 alphaNTD - beta interaction site [polypeptide binding]; other site 1036672010427 alphaNTD - beta' interaction site [polypeptide binding]; other site 1036672010428 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1036672010429 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1036672010430 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1036672010431 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 1036672010432 RNA binding surface [nucleotide binding]; other site 1036672010433 30S ribosomal protein S11; Validated; Region: PRK05309 1036672010434 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 1036672010435 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1036672010436 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 1036672010437 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 1036672010438 rRNA binding site [nucleotide binding]; other site 1036672010439 predicted 30S ribosome binding site; other site 1036672010440 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1036672010441 SecY translocase; Region: SecY; pfam00344 1036672010442 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1036672010443 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 1036672010444 23S rRNA binding site [nucleotide binding]; other site 1036672010445 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1036672010446 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1036672010447 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1036672010448 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 1036672010449 5S rRNA interface [nucleotide binding]; other site 1036672010450 L27 interface [polypeptide binding]; other site 1036672010451 23S rRNA interface [nucleotide binding]; other site 1036672010452 L5 interface [polypeptide binding]; other site 1036672010453 potential frameshift: common BLAST hit: gi|348590796|ref|YP_004875258.1| 50S ribosomal protein L6p 1036672010454 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1036672010455 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1036672010456 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1036672010457 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1036672010458 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1036672010459 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1036672010460 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1036672010461 RNA binding site [nucleotide binding]; other site 1036672010462 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1036672010463 MltA-interacting protein MipA; Region: MipA; cl01504 1036672010464 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1036672010465 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1036672010466 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1036672010467 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672010468 dimer interface [polypeptide binding]; other site 1036672010469 conserved gate region; other site 1036672010470 putative PBP binding loops; other site 1036672010471 ABC-ATPase subunit interface; other site 1036672010472 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672010473 ABC-ATPase subunit interface; other site 1036672010474 putative PBP binding loops; other site 1036672010475 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1036672010476 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1036672010477 spermidine/putrescine ABC transporter ATP-binding subunit; Region: potA; TIGR01187 1036672010478 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1036672010479 Q-loop/lid; other site 1036672010480 ABC transporter signature motif; other site 1036672010481 Walker B; other site 1036672010482 D-loop; other site 1036672010483 H-loop/switch region; other site 1036672010484 TOBE domain; Region: TOBE_2; pfam08402 1036672010485 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1036672010486 Walker A/P-loop; other site 1036672010487 aminotransferase; Provisional; Region: PRK06105 1036672010488 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 1036672010489 inhibitor-cofactor binding pocket; inhibition site 1036672010490 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1036672010491 catalytic residue [active] 1036672010492 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1036672010493 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1036672010494 N-formylglutamate amidohydrolase; Region: FGase; cl01522 1036672010495 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 1036672010496 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1036672010497 potential frameshift: common BLAST hit: gi|384206014|ref|YP_005591753.1| putative sensor kinase protein 1036672010498 potential frameshift: common BLAST hit: gi|384206013|ref|YP_005591752.1| putative response regulator protein 1036672010499 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1036672010500 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1036672010501 tetramerization interface [polypeptide binding]; other site 1036672010502 NAD(P) binding site [chemical binding]; other site 1036672010503 catalytic residues [active] 1036672010504 Predicted transcriptional regulator [Transcription]; Region: COG2944 1036672010505 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 1036672010506 non-specific DNA binding site [nucleotide binding]; other site 1036672010507 salt bridge; other site 1036672010508 sequence-specific DNA binding site [nucleotide binding]; other site 1036672010509 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 1036672010510 potential frameshift: common BLAST hit: gi|307546596|ref|YP_003899075.1| quinoprotein glucose dehydrogenase 1036672010511 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1036672010512 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1036672010513 Bacterial transcriptional regulator; Region: IclR; pfam01614 1036672010514 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1036672010515 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 1036672010516 NAD binding site [chemical binding]; other site 1036672010517 homotetramer interface [polypeptide binding]; other site 1036672010518 homodimer interface [polypeptide binding]; other site 1036672010519 active site 1036672010520 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 1036672010521 potential frameshift: common BLAST hit: gi|311104125|ref|YP_003976978.1| extra-cytoplasmic solute receptor family protein 18 1036672010522 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1036672010523 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 1036672010524 TM-ABC transporter signature motif; other site 1036672010525 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 1036672010526 TM-ABC transporter signature motif; other site 1036672010527 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1036672010528 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 1036672010529 putative ligand binding site [chemical binding]; other site 1036672010530 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1036672010531 H-loop/switch region; other site 1036672010532 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1036672010533 Walker A/P-loop; other site 1036672010534 ATP binding site [chemical binding]; other site 1036672010535 ABC transporter; Region: ABC_tran; pfam00005 1036672010536 Q-loop/lid; other site 1036672010537 ABC transporter signature motif; other site 1036672010538 Walker B; other site 1036672010539 D-loop; other site 1036672010540 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1036672010541 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1036672010542 Walker A/P-loop; other site 1036672010543 ATP binding site [chemical binding]; other site 1036672010544 Q-loop/lid; other site 1036672010545 ABC transporter signature motif; other site 1036672010546 Walker B; other site 1036672010547 D-loop; other site 1036672010548 H-loop/switch region; other site 1036672010549 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 1036672010550 dimerization interface [polypeptide binding]; other site 1036672010551 putative DNA binding site [nucleotide binding]; other site 1036672010552 putative Zn2+ binding site [ion binding]; other site 1036672010553 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_5; cd08898 1036672010554 putative hydrophobic ligand binding site [chemical binding]; other site 1036672010555 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672010556 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 1036672010557 catalytic residues [active] 1036672010558 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 1036672010559 active site 1036672010560 catalytic residues [active] 1036672010561 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 1036672010562 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 1036672010563 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 1036672010564 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1036672010565 active site 1036672010566 intersubunit interface [polypeptide binding]; other site 1036672010567 catalytic residue [active] 1036672010568 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1036672010569 FAD binding domain; Region: FAD_binding_4; pfam01565 1036672010570 dihydroxy-acid dehydratase; Provisional; Region: PRK13017 1036672010571 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1036672010572 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1036672010573 potential frameshift: common BLAST hit: gi|332285422|ref|YP_004417333.1| TRAP-type C4-dicarboxylate transport system, large permease 1036672010574 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1036672010575 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1036672010576 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1036672010577 NAD(P) binding site [chemical binding]; other site 1036672010578 active site 1036672010579 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 1036672010580 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 1036672010581 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1036672010582 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1036672010583 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 1036672010584 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1036672010585 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1036672010586 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1036672010587 DNA-binding site [nucleotide binding]; DNA binding site 1036672010588 FCD domain; Region: FCD; pfam07729 1036672010589 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 1036672010590 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1036672010591 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 1036672010592 substrate binding site [chemical binding]; other site 1036672010593 ATP binding site [chemical binding]; other site 1036672010594 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 1036672010595 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1036672010596 active site 1036672010597 intersubunit interface [polypeptide binding]; other site 1036672010598 catalytic residue [active] 1036672010599 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 1036672010600 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 1036672010601 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1036672010602 FAD binding domain; Region: FAD_binding_4; pfam01565 1036672010603 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1036672010604 FAD binding domain; Region: FAD_binding_4; pfam01565 1036672010605 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 1036672010606 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1036672010607 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 1036672010608 23S rRNA interface [nucleotide binding]; other site 1036672010609 putative translocon interaction site; other site 1036672010610 signal recognition particle (SRP54) interaction site; other site 1036672010611 L23 interface [polypeptide binding]; other site 1036672010612 trigger factor interaction site; other site 1036672010613 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 1036672010614 23S rRNA interface [nucleotide binding]; other site 1036672010615 5S rRNA interface [nucleotide binding]; other site 1036672010616 putative antibiotic binding site [chemical binding]; other site 1036672010617 L25 interface [polypeptide binding]; other site 1036672010618 L27 interface [polypeptide binding]; other site 1036672010619 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1036672010620 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 1036672010621 G-X-X-G motif; other site 1036672010622 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1036672010623 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 1036672010624 putative translocon binding site; other site 1036672010625 protein-rRNA interface [nucleotide binding]; other site 1036672010626 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1036672010627 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1036672010628 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1036672010629 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1036672010630 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1036672010631 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1036672010632 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1036672010633 ornithine cyclodeaminase; Validated; Region: PRK07340 1036672010634 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 1036672010635 ornithine cyclodeaminase; Validated; Region: PRK07340 1036672010636 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1036672010637 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 1036672010638 non-specific DNA binding site [nucleotide binding]; other site 1036672010639 salt bridge; other site 1036672010640 sequence-specific DNA binding site [nucleotide binding]; other site 1036672010641 Cupin domain; Region: Cupin_2; pfam07883 1036672010642 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1036672010643 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1036672010644 Q-loop/lid; other site 1036672010645 ABC transporter signature motif; other site 1036672010646 Walker B; other site 1036672010647 D-loop; other site 1036672010648 H-loop/switch region; other site 1036672010649 Branched-chain amino acid ATP-binding cassette transporter; Region: BCA_ABC_TP_C; pfam12399 1036672010650 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 1036672010651 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1036672010652 Walker A/P-loop; other site 1036672010653 ATP binding site [chemical binding]; other site 1036672010654 Q-loop/lid; other site 1036672010655 ABC transporter signature motif; other site 1036672010656 Walker B; other site 1036672010657 D-loop; other site 1036672010658 H-loop/switch region; other site 1036672010659 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 1036672010660 TM-ABC transporter signature motif; other site 1036672010661 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 1036672010662 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1036672010663 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 1036672010664 TM-ABC transporter signature motif; other site 1036672010665 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1036672010666 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 1036672010667 dimerization interface [polypeptide binding]; other site 1036672010668 ligand binding site [chemical binding]; other site 1036672010669 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1036672010670 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1036672010671 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1036672010672 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 1036672010673 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1036672010674 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 1036672010675 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 1036672010676 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 1036672010677 Uncharacterized conserved protein [Function unknown]; Region: COG2308 1036672010678 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1036672010679 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1036672010680 catalytic residues [active] 1036672010681 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1036672010682 potential frameshift: common BLAST hit: gi|91777559|ref|YP_552767.1| putative aminotransferase 1036672010683 potential frameshift: common BLAST hit: gi|126208616|ref|YP_001053841.1| DNA recombination protein RmuC-like protein 1036672010684 RmuC family; Region: RmuC; pfam02646 1036672010685 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1036672010686 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1036672010687 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 1036672010688 Uncharacterized protein related to arylsulfate sulfotransferase involved in siderophore biosynthesis [General function prediction only]; Region: COG4321 1036672010689 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1036672010690 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1036672010691 dimer interface [polypeptide binding]; other site 1036672010692 active site 1036672010693 metal binding site [ion binding]; metal-binding site 1036672010694 glutathione binding site [chemical binding]; other site 1036672010695 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1036672010696 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1036672010697 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1036672010698 dimer interface [polypeptide binding]; other site 1036672010699 conserved gate region; other site 1036672010700 ABC-ATPase subunit interface; other site 1036672010701 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 1036672010702 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1036672010703 Walker A/P-loop; other site 1036672010704 ATP binding site [chemical binding]; other site 1036672010705 Q-loop/lid; other site 1036672010706 ABC transporter signature motif; other site 1036672010707 Walker B; other site 1036672010708 D-loop; other site 1036672010709 H-loop/switch region; other site 1036672010710 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 1036672010711 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1036672010712 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1036672010713 G5 box; other site 1036672010714 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 1036672010715 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 1036672010716 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 1036672010717 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1036672010718 G1 box; other site 1036672010719 GTP/Mg2+ binding site [chemical binding]; other site 1036672010720 G2 box; other site 1036672010721 Switch I region; other site 1036672010722 G3 box; other site 1036672010723 Switch II region; other site 1036672010724 G4 box; other site 1036672010725 30S ribosomal protein S7; Validated; Region: PRK05302 1036672010726 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 1036672010727 S17 interaction site [polypeptide binding]; other site 1036672010728 S8 interaction site; other site 1036672010729 16S rRNA interaction site [nucleotide binding]; other site 1036672010730 streptomycin interaction site [chemical binding]; other site 1036672010731 23S rRNA interaction site [nucleotide binding]; other site 1036672010732 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1036672010733 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1036672010734 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1036672010735 active site 1036672010736 phosphorylation site [posttranslational modification] 1036672010737 intermolecular recognition site; other site 1036672010738 dimerization interface [polypeptide binding]; other site 1036672010739 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 1036672010740 DNA binding site [nucleotide binding] 1036672010741 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4254 1036672010742 FecR protein; Region: FecR; pfam04773 1036672010743 CHASE2 domain; Region: CHASE2; pfam05226 1036672010744 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1036672010745 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed 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 1036672010746 dimer interface [polypeptide binding]; other site 1036672010747 phosphorylation site [posttranslational modification] 1036672010748 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1036672010749 ATP binding site [chemical binding]; other site 1036672010750 Mg2+ binding site [ion binding]; other site 1036672010751 G-X-G motif; other site 1036672010752 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 1036672010753 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1036672010754 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1036672010755 Uncharacterized conserved protein [Function unknown]; Region: COG3777 1036672010756 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 1036672010757 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 1036672010758 active site 2 [active] 1036672010759 active site 1 [active] 1036672010760 potential frameshift: common BLAST hit: gi|332284450|ref|YP_004416361.1| transcriptional regulator 1036672010761 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 1036672010762 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1036672010763 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1036672010764 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1036672010765 active site 1036672010766 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 1036672010767 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1036672010768 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 1036672010769 conserved cys residue [active] 1036672010770 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1036672010771 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1036672010772 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 1036672010773 dimer interface [polypeptide binding]; other site 1036672010774 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1036672010775 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 1036672010776 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 1036672010777 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 1036672010778 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1036672010779 Class II fumarases; Region: Fumarase_classII; cd01362 1036672010780 active site 1036672010781 tetramer interface [polypeptide binding]; other site 1036672010782 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1036672010783 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 1036672010784 putative C-terminal domain interface [polypeptide binding]; other site 1036672010785 putative GSH binding site (G-site) [chemical binding]; other site 1036672010786 putative dimer interface [polypeptide binding]; other site 1036672010787 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 1036672010788 dimer interface [polypeptide binding]; other site 1036672010789 N-terminal domain interface [polypeptide binding]; other site 1036672010790 putative substrate binding pocket (H-site) [chemical binding]; other site 1036672010791 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1036672010792 EamA-like transporter family; Region: EamA; pfam00892 1036672010793 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 1036672010794 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1036672010795 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1036672010796 Arginase family; Region: Arginase; cd09989 1036672010797 agmatinase; Region: agmatinase; TIGR01230 1036672010798 active site 1036672010799 Mn binding site [ion binding]; other site 1036672010800 oligomer interface [polypeptide binding]; other site 1036672010801 short chain dehydrogenase; Provisional; Region: PRK12829 1036672010802 classical (c) SDRs; Region: SDR_c; cd05233 1036672010803 NAD(P) binding site [chemical binding]; other site 1036672010804 active site 1036672010805 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1036672010806 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1036672010807 DNA-binding site [nucleotide binding]; DNA binding site 1036672010808 FCD domain; Region: FCD; pfam07729 1036672010809 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1036672010810 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 1036672010811 putative ligand binding site [chemical binding]; other site 1036672010812 potential frameshift: common BLAST hit: gi|332283636|ref|YP_004415547.1| 3-hydroxybutyryl-CoA dehydrogenase 1036672010813 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 1036672010814 gluconate 5-dehydrogenase; Provisional; Region: PRK06124 1036672010815 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1036672010816 NAD(P) binding site [chemical binding]; other site 1036672010817 active site 1036672010818 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 1036672010819 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 1036672010820 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1036672010821 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1036672010822 putative acyl-acceptor binding pocket; other site 1036672010823 Phosphopantetheine attachment site; Region: PP-binding; cl09936 1036672010824 acyl carrier protein; Provisional; Region: PRK05350 1036672010825 Predicted membrane protein [Function unknown]; Region: COG4648 1036672010826 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1036672010827 AMP-binding enzyme; Region: AMP-binding; pfam00501 1036672010828 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1036672010829 acyl-activating enzyme (AAE) consensus motif; other site 1036672010830 acyl-activating enzyme (AAE) consensus motif; other site 1036672010831 AMP binding site [chemical binding]; other site 1036672010832 active site 1036672010833 CoA binding site [chemical binding]; other site 1036672010834 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 1036672010835 active site 2 [active] 1036672010836 active site 1 [active] 1036672010837 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1036672010838 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 1036672010839 Ligand binding site; other site 1036672010840 Putative Catalytic site; other site 1036672010841 DXD motif; other site 1036672010842 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 1036672010843 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1036672010844 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 1036672010845 active site 1036672010846 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 1036672010847 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 1036672010848 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 1036672010849 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 1036672010850 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 1036672010851 active site 1036672010852 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 1036672010853 putative active site 1 [active] 1036672010854 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1036672010855 3-oxoacyl-(acyl-carrier-protein) reductase, putative; Region: fabG_rel; TIGR01831 1036672010856 NAD(P) binding site [chemical binding]; other site 1036672010857 active site 1036672010858 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 1036672010859 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 1036672010860 dimer interface [polypeptide binding]; other site 1036672010861 active site 1036672010862 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 1036672010863 Antitoxin ParD; Region: ParD; pfam09386 1036672010864 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 1036672010865 ornithine cyclodeaminase; Validated; Region: PRK07589 1036672010866 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 1036672010867 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1036672010868 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 1036672010869 putative DNA binding site [nucleotide binding]; other site 1036672010870 putative Zn2+ binding site [ion binding]; other site 1036672010871 AsnC family; Region: AsnC_trans_reg; pfam01037 1036672010872 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1036672010873 Amidase; Region: Amidase; cl11426 1036672010874 Amidase; Region: Amidase; cl11426 1036672010875 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 1036672010876 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 1036672010877 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 1036672010878 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 1036672010879 ligand binding site [chemical binding]; other site 1036672010880 NAD binding site [chemical binding]; other site 1036672010881 tetramer interface [polypeptide binding]; other site 1036672010882 catalytic site [active] 1036672010883 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 1036672010884 L-serine binding site [chemical binding]; other site 1036672010885 ACT domain interface; other site 1036672010886 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 1036672010887 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1036672010888 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1036672010889 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1036672010890 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1036672010891 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 1036672010892 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1036672010893 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1036672010894 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1036672010895 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1036672010896 DNA binding site [nucleotide binding] 1036672010897 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1036672010898 potential frameshift: common BLAST hit: gi|332286161|ref|YP_004418072.1| DNA-directed RNA polymerase subunit beta 1036672010899 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 1036672010900 core dimer interface [polypeptide binding]; other site 1036672010901 peripheral dimer interface [polypeptide binding]; other site 1036672010902 L10 interface [polypeptide binding]; other site 1036672010903 L11 interface [polypeptide binding]; other site 1036672010904 putative EF-Tu interaction site [polypeptide binding]; other site 1036672010905 putative EF-G interaction site [polypeptide binding]; other site 1036672010906 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 1036672010907 23S rRNA interface [nucleotide binding]; other site 1036672010908 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1036672010909 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 1036672010910 mRNA/rRNA interface [nucleotide binding]; other site 1036672010911 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1036672010912 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 1036672010913 23S rRNA interface [nucleotide binding]; other site 1036672010914 L7/L12 interface [polypeptide binding]; other site 1036672010915 putative thiostrepton binding site; other site 1036672010916 L25 interface [polypeptide binding]; other site 1036672010917 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1036672010918 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1036672010919 putative homodimer interface [polypeptide binding]; other site 1036672010920 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1036672010921 heterodimer interface [polypeptide binding]; other site 1036672010922 homodimer interface [polypeptide binding]; other site 1036672010923 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 1036672010924 potential frameshift: common BLAST hit: gi|163859295|ref|YP_001633593.1| chromosome partitioning protein ParB 1036672010925 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1036672010926 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 1036672010927 P-loop; other site 1036672010928 Magnesium ion binding site [ion binding]; other site 1036672010929 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 1036672010930 Magnesium ion binding site [ion binding]; other site 1036672010931 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 1036672010932 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 1036672010933 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1036672010934 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 1036672010935 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 1036672010936 methionine aminotransferase; Validated; Region: PRK09082 1036672010937 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 1036672010938 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1036672010939 homodimer interface [polypeptide binding]; other site 1036672010940 catalytic residue [active] 1036672010941 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 1036672010942 nucleotide binding site/active site [active] 1036672010943 HIT family signature motif; other site 1036672010944 catalytic residue [active] 1036672010945 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 1036672010946 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 1036672010947 putative active site [active] 1036672010948 catalytic site [active] 1036672010949 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 1036672010950 putative active site [active] 1036672010951 catalytic site [active] 1036672010952 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1036672010953 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1036672010954 putative substrate translocation pore; other site 1036672010955 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 1036672010956 Putative ammonia monooxygenase; Region: AmoA; pfam05145 1036672010957 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 1036672010958 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1036672010959 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672010960 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 1036672010961 putative dimerization interface [polypeptide binding]; other site 1036672010962 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 1036672010963 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1036672010964 putative metal binding site [ion binding]; other site 1036672010965 potential frameshift: common BLAST hit: gi|163859322|ref|YP_001633620.1| tRNA modification GTPase TrmE 1036672010966 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 1036672010967 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1036672010968 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1036672010969 Coenzyme A binding pocket [chemical binding]; other site 1036672010970 potential frameshift: common BLAST hit: gi|241202779|ref|YP_002973875.1| GntR family transcriptional regulator 1036672010971 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1036672010972 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1036672010973 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1036672010974 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1036672010975 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1036672010976 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 1036672010977 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1036672010978 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1036672010979 Walker A/P-loop; other site 1036672010980 ATP binding site [chemical binding]; other site 1036672010981 Q-loop/lid; other site 1036672010982 ABC transporter signature motif; other site 1036672010983 Walker B; other site 1036672010984 D-loop; other site 1036672010985 H-loop/switch region; other site 1036672010986 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1036672010987 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1036672010988 Walker A/P-loop; other site 1036672010989 ATP binding site [chemical binding]; other site 1036672010990 Q-loop/lid; other site 1036672010991 ABC transporter signature motif; other site 1036672010992 Walker B; other site 1036672010993 D-loop; other site 1036672010994 H-loop/switch region; other site 1036672010995 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 1036672010996 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1036672010997 HlyD family secretion protein; Region: HlyD_3; pfam13437 1036672010998 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1036672010999 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1036672011000 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 1036672011001 potential frameshift: common BLAST hit: gi|187922811|ref|YP_001894453.1| L-carnitine dehydratase/bile acid-inducible protein F 1036672011002 potential frameshift: common BLAST hit: gi|323524879|ref|YP_004227032.1| pyruvate carboxyltransferase 1036672011003 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1036672011004 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672011005 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 1036672011006 putative dimerization interface [polypeptide binding]; other site 1036672011007 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1036672011008 potential frameshift: common BLAST hit: gi|94314287|ref|YP_587496.1| MmgE/PrpD family protein 1036672011009 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 1036672011010 CoA binding domain; Region: CoA_binding_2; pfam13380 1036672011011 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 1036672011012 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 1036672011013 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1036672011014 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1036672011015 active site 1036672011016 potential frameshift: common BLAST hit: gi|94313139|ref|YP_586348.1| class II aldolase/adducin 1036672011017 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672011018 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1036672011019 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 1036672011020 NAD binding site [chemical binding]; other site 1036672011021 ligand binding site [chemical binding]; other site 1036672011022 catalytic site [active] 1036672011023 potential frameshift: common BLAST hit: gi|311106372|ref|YP_003979225.1| LysR family transcriptional regulator 1036672011024 membrane protein insertase; Provisional; Region: PRK01318 1036672011025 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1036672011026 Haemolytic domain; Region: Haemolytic; pfam01809 1036672011027 Ribonuclease P; Region: Ribonuclease_P; cl00457 1036672011028 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 1036672011029 Xylella fastidiosa surface protein related; Region: X_fast-SP_rel; pfam06669 1036672011030 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 1036672011031 Haemagglutinin; Region: HIM; pfam05662 1036672011032 Haemagglutinin; Region: HIM; pfam05662 1036672011033 YadA-like C-terminal region; Region: YadA; pfam03895 1036672011034 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1036672011035 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1036672011036 DNA binding site [nucleotide binding] 1036672011037 domain linker motif; other site 1036672011038 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_2; cd06278 1036672011039 putative dimerization interface [polypeptide binding]; other site 1036672011040 putative ligand binding site [chemical binding]; other site 1036672011041 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 1036672011042 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 1036672011043 phosphate binding site [ion binding]; other site 1036672011044 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1036672011045 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 1036672011046 ligand binding site [chemical binding]; other site 1036672011047 NAD binding site [chemical binding]; other site 1036672011048 dimerization interface [polypeptide binding]; other site 1036672011049 catalytic site [active] 1036672011050 dihydroxy-acid dehydratase; Validated; Region: PRK06131 1036672011051 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 1036672011052 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 1036672011053 classical (c) SDRs; Region: SDR_c; cd05233 1036672011054 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1036672011055 NAD(P) binding site [chemical binding]; other site 1036672011056 active site 1036672011057 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 1036672011058 histidinol dehydrogenase; Region: hisD; TIGR00069 1036672011059 NAD binding site [chemical binding]; other site 1036672011060 dimerization interface [polypeptide binding]; other site 1036672011061 product binding site; other site 1036672011062 substrate binding site [chemical binding]; other site 1036672011063 zinc binding site [ion binding]; other site 1036672011064 catalytic residues [active] 1036672011065 type IV secretion system T-DNA border endonuclease VirD2; Provisional; Region: PRK13863 1036672011066 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 1036672011067 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 1036672011068 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 1036672011069 Staphylococcal nuclease homologues; Region: SNc; smart00318 1036672011070 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 1036672011071 Catalytic site; other site 1036672011072 Primase C terminal 2 (PriCT-2); Region: PriCT_2; pfam08707 1036672011073 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 1036672011074 active site 1036672011075 metal binding site [ion binding]; metal-binding site 1036672011076 interdomain interaction site; other site 1036672011077 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 1036672011078 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 1036672011079 Walker A motif; other site 1036672011080 ATP binding site [chemical binding]; other site 1036672011081 Walker B motif; other site 1036672011082 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1036672011083 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 1036672011084 dimer interface [polypeptide binding]; other site 1036672011085 ssDNA binding site [nucleotide binding]; other site 1036672011086 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1036672011087 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 1036672011088 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 1036672011089 Walker A motif; other site 1036672011090 ATP binding site [chemical binding]; other site 1036672011091 Walker B motif; other site 1036672011092 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 1036672011093 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 1036672011094 VirB7 interaction site; other site 1036672011095 VirB8 protein; Region: VirB8; pfam04335 1036672011096 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 1036672011097 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 1036672011098 P-type DNA transfer protein VirB5; Region: VirB5; TIGR02791 1036672011099 Type IV secretion system proteins; Region: T4SS; pfam07996 1036672011100 potential frameshift: common BLAST hit: gi|319778305|ref|YP_004129218.1| VirB4 ATPase like protein 1036672011101 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 1036672011102 TrbC/VIRB2 family; Region: TrbC; cl01583 1036672011103 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 1036672011104 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1036672011105 catalytic residue [active] 1036672011106 conjugal transfer protein TrbM; Provisional; Region: PRK13893 1036672011107 conjugal transfer protein TraL; Provisional; Region: PRK13886 1036672011108 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 1036672011109 sequence-specific DNA binding site [nucleotide binding]; other site 1036672011110 salt bridge; other site 1036672011111 Uncharacterized protein conserved in bacteria, prophage-related [Function unknown]; Region: COG4197 1036672011112 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 1036672011113 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 1036672011114 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 1036672011115 Catalytic site [active] 1036672011116 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 1036672011117 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 1036672011118 active site 1036672011119 DNA binding site [nucleotide binding] 1036672011120 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 1036672011121 Replication initiator protein A; Region: RPA; pfam10134 1036672011122 ParA-like protein; Provisional; Region: PHA02518 1036672011123 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 1036672011124 Magnesium ion binding site [ion binding]; other site 1036672011125 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 1036672011126 Bacterial SH3 domain; Region: SH3_3; pfam08239 1036672011127 WGR domain; Region: WGR; cl01581 1036672011128 Phage integrase protein; Region: DUF3701; pfam12482 1036672011129 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 1036672011130 active site 1036672011131 DNA binding site [nucleotide binding] 1036672011132 Int/Topo IB signature motif; other site 1036672011133 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1036672011134 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1036672011135 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 1036672011136 dimer interface [polypeptide binding]; other site 1036672011137 putative radical transfer pathway; other site 1036672011138 diiron center [ion binding]; other site 1036672011139 tyrosyl radical; other site 1036672011140 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1036672011141 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672011142 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 1036672011143 putative dimerization interface [polypeptide binding]; other site 1036672011144 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 1036672011145 dimer interface [polypeptide binding]; other site 1036672011146 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1036672011147 metal binding site [ion binding]; metal-binding site 1036672011148 Haemolysin-III related; Region: HlyIII; cl03831 1036672011149 Integrase core domain; Region: rve; pfam00665 1036672011150 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1036672011151 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1036672011152 The 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 1036672011153 dimerization interface [polypeptide binding]; other site 1036672011154 bifunctional preprotein translocase subunit SecD/SecF; Provisional; Region: PRK14726 1036672011155 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 1036672011156 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1036672011157 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1036672011158 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1036672011159 ligand binding site [chemical binding]; other site