-- dump date 20140619_051715 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1232381000001 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 1232381000002 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 1232381000003 Walker A motif; other site 1232381000004 ATP binding site [chemical binding]; other site 1232381000005 Walker B motif; other site 1232381000006 arginine finger; other site 1232381000007 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 1232381000008 DnaA box-binding interface [nucleotide binding]; other site 1232381000009 DNA polymerase III subunit beta; Validated; Region: PRK07761 1232381000010 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 1232381000011 putative DNA binding surface [nucleotide binding]; other site 1232381000012 dimer interface [polypeptide binding]; other site 1232381000013 beta-clamp/clamp loader binding surface; other site 1232381000014 beta-clamp/translesion DNA polymerase binding surface; other site 1232381000015 recombination protein F; Reviewed; Region: recF; PRK00064 1232381000016 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 1232381000017 Walker A/P-loop; other site 1232381000018 ATP binding site [chemical binding]; other site 1232381000019 Q-loop/lid; other site 1232381000020 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1232381000021 ABC transporter signature motif; other site 1232381000022 Walker B; other site 1232381000023 D-loop; other site 1232381000024 H-loop/switch region; other site 1232381000025 hypothetical protein; Provisional; Region: PRK00111 1232381000026 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 1232381000027 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1232381000028 ATP binding site [chemical binding]; other site 1232381000029 Mg2+ binding site [ion binding]; other site 1232381000030 G-X-G motif; other site 1232381000031 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 1232381000032 anchoring element; other site 1232381000033 dimer interface [polypeptide binding]; other site 1232381000034 ATP binding site [chemical binding]; other site 1232381000035 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 1232381000036 active site 1232381000037 putative metal-binding site [ion binding]; other site 1232381000038 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1232381000039 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 1232381000040 Predicted membrane protein [Function unknown]; Region: COG2364 1232381000041 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1232381000042 DNA gyrase subunit A; Validated; Region: PRK05560 1232381000043 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 1232381000044 CAP-like domain; other site 1232381000045 active site 1232381000046 primary dimer interface [polypeptide binding]; other site 1232381000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1232381000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1232381000049 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1232381000050 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1232381000051 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1232381000052 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1232381000053 Transmembrane domain of unknown function (DUF3566); Region: DUF3566; pfam12089 1232381000054 Amino acid permease; Region: AA_permease; pfam00324 1232381000055 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 1232381000056 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1232381000057 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1232381000058 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1232381000059 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1232381000060 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1232381000061 Streptomyces aureofaciens putative aldehyde dehydrogenase AldA (AAD23400)-like; Region: ALDH_AldA-AAD23400; cd07106 1232381000062 NAD(P) binding site [chemical binding]; other site 1232381000063 catalytic residues [active] 1232381000064 Predicted membrane protein [Function unknown]; Region: COG2855 1232381000065 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1232381000066 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1232381000067 The 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 1232381000068 dimerization interface [polypeptide binding]; other site 1232381000069 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 1232381000070 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1232381000071 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1232381000072 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1232381000073 Penicillinase repressor; Region: Pencillinase_R; pfam03965 1232381000074 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 1232381000075 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1232381000076 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1232381000077 active site 1232381000078 metal binding site [ion binding]; metal-binding site 1232381000079 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1232381000080 Protein of unknown function (DUF418); Region: DUF418; cl12135 1232381000081 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1232381000082 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 1232381000083 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 1232381000084 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 1232381000085 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1232381000086 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 1232381000087 putative active site [active] 1232381000088 putative metal binding site [ion binding]; other site 1232381000089 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 1232381000090 putative ADP-binding pocket [chemical binding]; other site 1232381000091 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1232381000092 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 1232381000093 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1232381000094 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 1232381000095 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1232381000096 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 1232381000097 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1232381000098 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 1232381000099 Glycosyl hydrolases family 39; Region: Glyco_hydro_39; pfam01229 1232381000100 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 1232381000101 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 1232381000102 Divergent AAA domain; Region: AAA_4; pfam04326 1232381000103 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 1232381000104 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 1232381000105 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 1232381000106 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 1232381000107 intersubunit interface [polypeptide binding]; other site 1232381000108 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1232381000109 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 1232381000110 ABC-ATPase subunit interface; other site 1232381000111 dimer interface [polypeptide binding]; other site 1232381000112 putative PBP binding regions; other site 1232381000113 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1232381000114 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1232381000115 Walker A/P-loop; other site 1232381000116 ATP binding site [chemical binding]; other site 1232381000117 Q-loop/lid; other site 1232381000118 ABC transporter signature motif; other site 1232381000119 Walker B; other site 1232381000120 D-loop; other site 1232381000121 H-loop/switch region; other site 1232381000122 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_4; cd06312 1232381000123 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1232381000124 putative ligand binding site [chemical binding]; other site 1232381000125 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1232381000126 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1232381000127 TM-ABC transporter signature motif; other site 1232381000128 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1232381000129 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1232381000130 Walker A/P-loop; other site 1232381000131 ATP binding site [chemical binding]; other site 1232381000132 Q-loop/lid; other site 1232381000133 ABC transporter signature motif; other site 1232381000134 Walker B; other site 1232381000135 D-loop; other site 1232381000136 H-loop/switch region; other site 1232381000137 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 1232381000138 active site 1232381000139 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 1232381000140 potential frameshift: common BLAST hit: gi|62388931|ref|YP_224333.1| transcription regulator protein, AraC typ 1232381000141 phosphate/phosphite/phosphonate ABC transporters, periplasmic binding protein; Region: 3A0109s03R; TIGR01098 1232381000142 iron-enterobactin transporter periplasmic binding protein; Provisional; Region: PRK10957 1232381000143 putative septation inhibitor protein; Reviewed; Region: PRK00159 1232381000144 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1232381000145 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1232381000146 active site 1232381000147 ATP binding site [chemical binding]; other site 1232381000148 substrate binding site [chemical binding]; other site 1232381000149 activation loop (A-loop); other site 1232381000150 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 1232381000151 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 1232381000152 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 1232381000153 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 1232381000154 PASTA domain; Region: PASTA; pfam03793 1232381000155 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1232381000156 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1232381000157 active site 1232381000158 ATP binding site [chemical binding]; other site 1232381000159 substrate binding site [chemical binding]; other site 1232381000160 activation loop (A-loop); other site 1232381000161 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1232381000162 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1232381000163 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1232381000164 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 1232381000165 Protein phosphatase 2C; Region: PP2C; pfam00481 1232381000166 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 1232381000167 active site 1232381000168 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 1232381000169 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 1232381000170 phosphopeptide binding site; other site 1232381000171 Protein of unknown function (DUF2662); Region: DUF3662; pfam12401 1232381000172 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 1232381000173 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 1232381000174 phosphopeptide binding site; other site 1232381000175 succinic semialdehyde dehydrogenase; Region: PLN02278 1232381000176 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1232381000177 tetramerization interface [polypeptide binding]; other site 1232381000178 NAD(P) binding site [chemical binding]; other site 1232381000179 catalytic residues [active] 1232381000180 potential frameshift: common BLAST hit: gi|62388946|ref|YP_224348.1| phenol 2-monooxygenase 1232381000181 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1232381000182 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 1232381000183 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 1232381000184 active site residue [active] 1232381000185 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1232381000186 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 1232381000187 active site residue [active] 1232381000188 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 1232381000189 active site residue [active] 1232381000190 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 1232381000191 putative homodimer interface [polypeptide binding]; other site 1232381000192 putative homotetramer interface [polypeptide binding]; other site 1232381000193 putative allosteric switch controlling residues; other site 1232381000194 putative metal binding site [ion binding]; other site 1232381000195 putative homodimer-homodimer interface [polypeptide binding]; other site 1232381000196 Polyphosphate(polyP) polymerase domain of yeast vacuolar transport chaperone (VTC) proteins VTC-2, -3 and- 4, and similar proteins; Region: PolyPPase_VTC_like; cd07750 1232381000197 putative metal binding residues [ion binding]; other site 1232381000198 signature motif; other site 1232381000199 dimer interface [polypeptide binding]; other site 1232381000200 active site 1232381000201 polyP binding site; other site 1232381000202 substrate binding site [chemical binding]; other site 1232381000203 acceptor-phosphate pocket; other site 1232381000204 MgtC family; Region: MgtC; pfam02308 1232381000205 Spore coat assembly protein [Cell envelope biogenesis, outer membrane]; Region: CotH; COG5337 1232381000206 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1232381000207 Mycobacterium tuberculosis CorA-like subfamily; Region: MtCorA-like; cd12830 1232381000208 oligomer interface [polypeptide binding]; other site 1232381000209 metal binding site [ion binding]; metal-binding site 1232381000210 metal binding site [ion binding]; metal-binding site 1232381000211 putative Cl binding site [ion binding]; other site 1232381000212 basic sphincter; other site 1232381000213 hydrophobic gate; other site 1232381000214 periplasmic entrance; other site 1232381000215 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 1232381000216 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 1232381000217 dimer interface [polypeptide binding]; other site 1232381000218 hexamer interface [polypeptide binding]; other site 1232381000219 active site 2 [active] 1232381000220 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1232381000221 Putative ClC chloride channel. Clc proteins are putative halogen ion (Cl-, Br- and I-) transporters found in eubacteria. They belong to the ClC superfamily of halogen ion channels, which share a unique double-barreled architecture and voltage-dependent...; Region: ClC_like; cd01033 1232381000222 putative ion selectivity filter; other site 1232381000223 putative pore gating glutamate residue; other site 1232381000224 Nicotinamide mononucleotide transporter [Coenzyme metabolism]; Region: PnuC; COG3201 1232381000225 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 1232381000226 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 1232381000227 putative active site [active] 1232381000228 PhoH-like protein; Region: PhoH; pfam02562 1232381000229 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 1232381000230 Citrate transporter; Region: CitMHS; pfam03600 1232381000231 H+/citrate symporter [Energy production and conversion]; Region: CitM; cl17620 1232381000232 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 1232381000233 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1232381000234 ATP binding site [chemical binding]; other site 1232381000235 Mg2+ binding site [ion binding]; other site 1232381000236 G-X-G motif; other site 1232381000237 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 1232381000238 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1232381000239 active site 1232381000240 phosphorylation site [posttranslational modification] 1232381000241 intermolecular recognition site; other site 1232381000242 dimerization interface [polypeptide binding]; other site 1232381000243 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 1232381000244 putative DNA binding site [nucleotide binding]; other site 1232381000245 putative Zn2+ binding site [ion binding]; other site 1232381000246 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1232381000247 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_2; cd12159 1232381000248 putative ligand binding site [chemical binding]; other site 1232381000249 putative NAD binding site [chemical binding]; other site 1232381000250 catalytic site [active] 1232381000251 biotin synthase; Validated; Region: PRK06256 1232381000252 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 1232381000253 FeS/SAM binding site; other site 1232381000254 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 1232381000255 Zinc finger domain containing protein (CHY type) [Function unknown]; Region: COG4357 1232381000256 CHY zinc finger; Region: zf-CHY; pfam05495 1232381000257 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1232381000258 cytosine deaminase; Provisional; Region: PRK09230 1232381000259 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 1232381000260 active site 1232381000261 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 1232381000262 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 1232381000263 Lipase (class 2); Region: Lipase_2; pfam01674 1232381000264 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 1232381000265 Lipase (class 2); Region: Lipase_2; pfam01674 1232381000266 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1232381000267 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 1232381000268 putative DNA binding site [nucleotide binding]; other site 1232381000269 putative Zn2+ binding site [ion binding]; other site 1232381000270 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 1232381000271 alpha-gamma subunit interface [polypeptide binding]; other site 1232381000272 beta-gamma subunit interface [polypeptide binding]; other site 1232381000273 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 1232381000274 gamma-beta subunit interface [polypeptide binding]; other site 1232381000275 alpha-beta subunit interface [polypeptide binding]; other site 1232381000276 urease subunit alpha; Reviewed; Region: ureC; PRK13207 1232381000277 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 1232381000278 subunit interactions [polypeptide binding]; other site 1232381000279 active site 1232381000280 flap region; other site 1232381000281 Urease accessory protein UreE [Posttranslational modification, protein turnover, chaperones]; Region: UreE; COG2371 1232381000282 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 1232381000283 dimer interface [polypeptide binding]; other site 1232381000284 catalytic residues [active] 1232381000285 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 1232381000286 UreF; Region: UreF; pfam01730 1232381000287 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 1232381000288 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 1232381000289 HSP90 family protein; Provisional; Region: PRK14083 1232381000290 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1232381000291 ATP binding site [chemical binding]; other site 1232381000292 Mg2+ binding site [ion binding]; other site 1232381000293 G-X-G motif; other site 1232381000294 AMP nucleosidase; Region: AMP-nucleosdse; TIGR01717 1232381000295 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 1232381000296 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 1232381000297 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1232381000298 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1232381000299 NAD(P) binding site [chemical binding]; other site 1232381000300 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1232381000301 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1232381000302 DNA binding site [nucleotide binding] 1232381000303 domain linker motif; other site 1232381000304 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 1232381000305 dimerization interface [polypeptide binding]; other site 1232381000306 ligand binding site [chemical binding]; other site 1232381000307 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 1232381000308 histidinol dehydrogenase; Region: hisD; TIGR00069 1232381000309 NAD binding site [chemical binding]; other site 1232381000310 dimerization interface [polypeptide binding]; other site 1232381000311 product binding site; other site 1232381000312 substrate binding site [chemical binding]; other site 1232381000313 zinc binding site [ion binding]; other site 1232381000314 catalytic residues [active] 1232381000315 Citrate transporter; Region: CitMHS; pfam03600 1232381000316 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1232381000317 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 1232381000318 Integrase core domain; Region: rve; pfam00665 1232381000319 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 1232381000320 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1232381000321 Multicopper oxidase; Region: Cu-oxidase; pfam00394 1232381000322 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1232381000323 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1232381000324 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1232381000325 active site 1232381000326 phosphorylation site [posttranslational modification] 1232381000327 intermolecular recognition site; other site 1232381000328 dimerization interface [polypeptide binding]; other site 1232381000329 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 1232381000330 DNA binding site [nucleotide binding] 1232381000331 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 1232381000332 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1232381000333 dimerization interface [polypeptide binding]; other site 1232381000334 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 1232381000335 dimer interface [polypeptide binding]; other site 1232381000336 phosphorylation site [posttranslational modification] 1232381000337 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1232381000338 ATP binding site [chemical binding]; other site 1232381000339 Mg2+ binding site [ion binding]; other site 1232381000340 G-X-G motif; other site 1232381000341 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 1232381000342 metal-binding site [ion binding] 1232381000343 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 1232381000344 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1232381000345 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 1232381000346 motif I; other site 1232381000347 motif II; other site 1232381000348 Protein of unknown function (DUF1541); Region: DUF1541; pfam07563 1232381000349 Protein of unknown function (DUF1541); Region: DUF1541; pfam07563 1232381000350 AsnC family; Region: AsnC_trans_reg; pfam01037 1232381000351 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1232381000352 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1232381000353 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1232381000354 NAD(P) binding site [chemical binding]; other site 1232381000355 multiple promoter invertase; Provisional; Region: mpi; PRK13413 1232381000356 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1232381000357 catalytic residues [active] 1232381000358 catalytic nucleophile [active] 1232381000359 Presynaptic Site I dimer interface [polypeptide binding]; other site 1232381000360 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1232381000361 Synaptic Flat tetramer interface [polypeptide binding]; other site 1232381000362 Synaptic Site I dimer interface [polypeptide binding]; other site 1232381000363 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 1232381000364 DNA-binding interface [nucleotide binding]; DNA binding site 1232381000365 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 1232381000366 dimerization interface [polypeptide binding]; other site 1232381000367 putative DNA binding site [nucleotide binding]; other site 1232381000368 putative Zn2+ binding site [ion binding]; other site 1232381000369 Predicted permease, cadmium resistance protein [Inorganic ion transport and metabolism]; Region: CadD; COG4300 1232381000370 Cadmium resistance transporter; Region: Cad; pfam03596 1232381000371 mercuric reductase; Region: MerA; TIGR02053 1232381000372 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1232381000373 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1232381000374 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 1232381000375 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1232381000376 DNA binding residues [nucleotide binding] 1232381000377 dimer interface [polypeptide binding]; other site 1232381000378 metal binding site [ion binding]; metal-binding site 1232381000379 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 1232381000380 salt bridge; other site 1232381000381 non-specific DNA binding site [nucleotide binding]; other site 1232381000382 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1232381000383 sequence-specific DNA binding site [nucleotide binding]; other site 1232381000384 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 1232381000385 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1232381000386 active site 1232381000387 catalytic tetrad [active] 1232381000388 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 1232381000389 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1232381000390 Walker A motif; other site 1232381000391 ATP binding site [chemical binding]; other site 1232381000392 Walker B motif; other site 1232381000393 arginine finger; other site 1232381000394 McrBC 5-methylcytosine restriction system component; Region: McrBC; cl01737 1232381000395 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 1232381000396 Integrase core domain; Region: rve; pfam00665 1232381000397 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 1232381000398 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1232381000399 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1232381000400 NAD(P) binding site [chemical binding]; other site 1232381000401 catalytic residues [active] 1232381000402 hypothetical protein; Validated; Region: PRK09039 1232381000403 Integrase core domain; Region: rve; pfam00665 1232381000404 Integrase core domain; Region: rve_3; pfam13683 1232381000405 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 1232381000406 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1232381000407 active site 1232381000408 catalytic tetrad [active] 1232381000409 Putative p-aminobenzoyl-glutamate transporter [Coenzyme metabolism]; Region: AbgT; COG2978 1232381000410 M20 Peptidase Aminoacylase 1-like protein 2-like, amidohydrolase subfamily; Region: M20_ACY1L2_like; cd05672 1232381000411 amidohydrolase; Region: amidohydrolases; TIGR01891 1232381000412 metal binding site [ion binding]; metal-binding site 1232381000413 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1232381000414 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 1232381000415 tetramer interface [polypeptide binding]; other site 1232381000416 active site 1232381000417 Mg2+/Mn2+ binding site [ion binding]; other site 1232381000418 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1232381000419 Cytochrome P450; Region: p450; cl12078 1232381000420 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1232381000421 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1232381000422 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 1232381000423 Protein of unknown function (DUF1271); Region: DUF1271; cl01443 1232381000424 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1232381000425 classical (c) SDRs; Region: SDR_c; cd05233 1232381000426 NAD(P) binding site [chemical binding]; other site 1232381000427 active site 1232381000428 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381000429 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1232381000430 putative substrate translocation pore; other site 1232381000431 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 1232381000432 Predicted oxidoreductase [General function prediction only]; Region: COG3573 1232381000433 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1232381000434 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 1232381000435 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1232381000436 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1232381000437 DNA-binding site [nucleotide binding]; DNA binding site 1232381000438 FCD domain; Region: FCD; pfam07729 1232381000439 Htaa; Region: HtaA; pfam04213 1232381000440 choline dehydrogenase; Validated; Region: PRK02106 1232381000441 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1232381000442 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1232381000443 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1232381000444 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1232381000445 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like and related proteins; Region: ALDH_CddD-AldA-like; cd07089 1232381000446 NAD binding site [chemical binding]; other site 1232381000447 catalytic residues [active] 1232381000448 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1232381000449 Cytochrome P450; Region: p450; cl12078 1232381000450 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1232381000451 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 1232381000452 DctM-like transporters; Region: DctM; pfam06808 1232381000453 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1232381000454 Htaa; Region: HtaA; pfam04213 1232381000455 Mycobacterium tuberculosis aldehyde dehydrogenase AldA-like; Region: ALDH_AldA-Rv0768; cd07139 1232381000456 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1232381000457 NAD binding site [chemical binding]; other site 1232381000458 catalytic residues [active] 1232381000459 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 1232381000460 Class III alcohol dehydrogenase; Region: Zn_ADH_class_III; cd08279 1232381000461 NAD binding site [chemical binding]; other site 1232381000462 catalytic Zn binding site [ion binding]; other site 1232381000463 substrate binding site [chemical binding]; other site 1232381000464 structural Zn binding site [ion binding]; other site 1232381000465 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 1232381000466 substrate binding pocket [chemical binding]; other site 1232381000467 dimerization interface [polypeptide binding]; other site 1232381000468 Predicted membrane protein [Function unknown]; Region: COG2149 1232381000469 Domain of unknown function (DUF202); Region: DUF202; pfam02656 1232381000470 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 1232381000471 non-specific DNA binding site [nucleotide binding]; other site 1232381000472 salt bridge; other site 1232381000473 sequence-specific DNA binding site [nucleotide binding]; other site 1232381000474 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1232381000475 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1232381000476 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1232381000477 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 1232381000478 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1232381000479 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 1232381000480 catalytic core [active] 1232381000481 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 1232381000482 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1232381000483 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1232381000484 polyol permease family; Region: 2A0118; TIGR00897 1232381000485 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381000486 putative substrate translocation pore; other site 1232381000487 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1232381000488 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1232381000489 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1232381000490 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1232381000491 D-xylulose kinase; Region: XylB; TIGR01312 1232381000492 nucleotide binding site [chemical binding]; other site 1232381000493 Pantoate-beta-alanine ligase; Region: PanC; cd00560 1232381000494 pantoate--beta-alanine ligase; Region: panC; TIGR00018 1232381000495 active site 1232381000496 ATP-binding site [chemical binding]; other site 1232381000497 pantoate-binding site; other site 1232381000498 HXXH motif; other site 1232381000499 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 1232381000500 oligomerization interface [polypeptide binding]; other site 1232381000501 active site 1232381000502 metal binding site [ion binding]; metal-binding site 1232381000503 Fic family protein [Function unknown]; Region: COG3177 1232381000504 Fic/DOC family; Region: Fic; pfam02661 1232381000505 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 1232381000506 active site 1232381000507 DNA binding site [nucleotide binding] 1232381000508 hypothetical protein; Provisional; Region: PRK07758 1232381000509 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 1232381000510 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1232381000511 substrate binding pocket [chemical binding]; other site 1232381000512 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 1232381000513 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 1232381000514 motif II; other site 1232381000515 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1232381000516 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 1232381000517 trimer interface [polypeptide binding]; other site 1232381000518 putative metal binding site [ion binding]; other site 1232381000519 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 1232381000520 putative DNA binding site [nucleotide binding]; other site 1232381000521 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1232381000522 enterobactin exporter EntS; Provisional; Region: PRK10489 1232381000523 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381000524 putative substrate translocation pore; other site 1232381000525 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1232381000526 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 1232381000527 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 1232381000528 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1232381000529 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1232381000530 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1232381000531 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 1232381000532 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1232381000533 active site 1232381000534 intersubunit interface [polypeptide binding]; other site 1232381000535 catalytic residue [active] 1232381000536 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381000537 D-galactonate transporter; Region: 2A0114; TIGR00893 1232381000538 putative substrate translocation pore; other site 1232381000539 Adenylate kinase and related kinases [Nucleotide transport and metabolism]; Region: Adk; COG0563 1232381000540 AAA domain; Region: AAA_17; pfam13207 1232381000541 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1232381000542 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1232381000543 Predicted membrane protein [Function unknown]; Region: COG2860 1232381000544 UPF0126 domain; Region: UPF0126; pfam03458 1232381000545 Heat shock protein [Posttranslational modification, protein turnover, chaperones]; Region: HslJ; COG3187 1232381000546 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 1232381000547 tetramerization interface [polypeptide binding]; other site 1232381000548 active site 1232381000549 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4805 1232381000550 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 1232381000551 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 1232381000552 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 1232381000553 hypothetical protein; Provisional; Region: PRK10621 1232381000554 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1232381000555 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 1232381000556 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 1232381000557 putative Mg++ binding site [ion binding]; other site 1232381000558 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 1232381000559 nucleotide binding region [chemical binding]; other site 1232381000560 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 1232381000561 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 1232381000562 maltose O-acetyltransferase; Provisional; Region: PRK10092 1232381000563 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 1232381000564 active site 1232381000565 substrate binding site [chemical binding]; other site 1232381000566 trimer interface [polypeptide binding]; other site 1232381000567 CoA binding site [chemical binding]; other site 1232381000568 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 1232381000569 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 1232381000570 potential frameshift: common BLAST hit: gi|62389040|ref|YP_224442.1| LysE type translocator 1232381000571 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 1232381000572 RNA binding surface [nucleotide binding]; other site 1232381000573 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 1232381000574 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1232381000575 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 1232381000576 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 1232381000577 DNA binding site [nucleotide binding] 1232381000578 active site 1232381000579 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 1232381000580 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 1232381000581 homotrimer interaction site [polypeptide binding]; other site 1232381000582 putative active site [active] 1232381000583 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1232381000584 DHHC palmitoyltransferase; Region: zf-DHHC; pfam01529 1232381000585 Histidine kinase; Region: HisKA_3; pfam07730 1232381000586 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1232381000587 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1232381000588 active site 1232381000589 phosphorylation site [posttranslational modification] 1232381000590 intermolecular recognition site; other site 1232381000591 dimerization interface [polypeptide binding]; other site 1232381000592 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 1232381000593 DNA binding residues [nucleotide binding] 1232381000594 dimerization interface [polypeptide binding]; other site 1232381000595 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 1232381000596 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 1232381000597 active site 1232381000598 Zn binding site [ion binding]; other site 1232381000599 Membrane proteinase, regulator of anti-sigma factor [Posttranslational modification, protein turnover, chaperones]; Region: prsW; COG2339 1232381000600 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1232381000601 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1232381000602 DNA-binding site [nucleotide binding]; DNA binding site 1232381000603 UTRA domain; Region: UTRA; pfam07702 1232381000604 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 1232381000605 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1232381000606 substrate binding site [chemical binding]; other site 1232381000607 ATP binding site [chemical binding]; other site 1232381000608 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1232381000609 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1232381000610 tetrameric interface [polypeptide binding]; other site 1232381000611 NAD binding site [chemical binding]; other site 1232381000612 catalytic residues [active] 1232381000613 KduI/IolB family; Region: KduI; cl01508 1232381000614 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 1232381000615 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1232381000616 PYR/PP interface [polypeptide binding]; other site 1232381000617 dimer interface [polypeptide binding]; other site 1232381000618 TPP binding site [chemical binding]; other site 1232381000619 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1232381000620 Thiamine pyrophosphate (TPP) family, IolD subfamily, TPP-binding module; composed of proteins similar to Rhizobium leguminosarum bv. viciae IolD. IolD plays an important role in myo-inositol catabolism; Region: TPP_IolD; cd02003 1232381000621 TPP-binding site; other site 1232381000622 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1232381000623 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1232381000624 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1232381000625 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1232381000626 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1232381000627 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381000628 putative transporter; Provisional; Region: PRK10504 1232381000629 putative substrate translocation pore; other site 1232381000630 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1232381000631 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1232381000632 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1232381000633 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 1232381000634 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1232381000635 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1232381000636 DNA binding site [nucleotide binding] 1232381000637 domain linker motif; other site 1232381000638 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 1232381000639 dimerization interface [polypeptide binding]; other site 1232381000640 ligand binding site [chemical binding]; other site 1232381000641 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1232381000642 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1232381000643 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1232381000644 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1232381000645 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 1232381000646 DNA-binding site [nucleotide binding]; DNA binding site 1232381000647 RNA-binding motif; other site 1232381000648 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1232381000649 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1232381000650 dimer interface [polypeptide binding]; other site 1232381000651 conserved gate region; other site 1232381000652 putative PBP binding loops; other site 1232381000653 ABC-ATPase subunit interface; other site 1232381000654 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1232381000655 dimer interface [polypeptide binding]; other site 1232381000656 conserved gate region; other site 1232381000657 putative PBP binding loops; other site 1232381000658 ABC-ATPase subunit interface; other site 1232381000659 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1232381000660 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1232381000661 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1232381000662 Walker A/P-loop; other site 1232381000663 ATP binding site [chemical binding]; other site 1232381000664 Q-loop/lid; other site 1232381000665 ABC transporter signature motif; other site 1232381000666 Walker B; other site 1232381000667 D-loop; other site 1232381000668 H-loop/switch region; other site 1232381000669 TOBE domain; Region: TOBE_2; pfam08402 1232381000670 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1232381000671 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 1232381000672 motif II; other site 1232381000673 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1232381000674 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1232381000675 DNA binding site [nucleotide binding] 1232381000676 domain linker motif; other site 1232381000677 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 1232381000678 dimerization interface [polypeptide binding]; other site 1232381000679 ligand binding site [chemical binding]; other site 1232381000680 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 1232381000681 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 1232381000682 S-adenosylmethionine binding site [chemical binding]; other site 1232381000683 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1232381000684 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1232381000685 Coenzyme A binding pocket [chemical binding]; other site 1232381000686 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1232381000687 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1232381000688 DNA binding site [nucleotide binding] 1232381000689 domain linker motif; other site 1232381000690 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 1232381000691 dimerization interface [polypeptide binding]; other site 1232381000692 ligand binding site [chemical binding]; other site 1232381000693 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 1232381000694 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381000695 putative substrate translocation pore; other site 1232381000696 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381000697 hypothetical protein; Validated; Region: PRK09039 1232381000698 Integrase core domain; Region: rve; pfam00665 1232381000699 Integrase core domain; Region: rve_3; pfam13683 1232381000700 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 1232381000701 PAS domain; Region: PAS_9; pfam13426 1232381000702 putative active site [active] 1232381000703 heme pocket [chemical binding]; other site 1232381000704 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 1232381000705 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 1232381000706 active site 1232381000707 dimer interface [polypeptide binding]; other site 1232381000708 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 1232381000709 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 1232381000710 active site 1232381000711 FMN binding site [chemical binding]; other site 1232381000712 substrate binding site [chemical binding]; other site 1232381000713 3Fe-4S cluster binding site [ion binding]; other site 1232381000714 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 1232381000715 domain interface; other site 1232381000716 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 1232381000717 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1232381000718 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 1232381000719 Mycobacterial cell wall arabinan synthesis protein; Region: Arabinose_trans; pfam04602 1232381000720 Arabinofuranosyltransferase N terminal; Region: AftA_N; pfam12250 1232381000721 Arabinofuranosyltransferase A C terminal; Region: AftA_C; pfam12249 1232381000722 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1232381000723 classical (c) SDRs; Region: SDR_c; cd05233 1232381000724 NAD(P) binding site [chemical binding]; other site 1232381000725 active site 1232381000726 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1232381000727 FAD binding domain; Region: FAD_binding_4; pfam01565 1232381000728 D-arabinono-1,4-lactone oxidase; Region: ALO; pfam04030 1232381000729 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 1232381000730 Predicted membrane protein [Function unknown]; Region: COG2246 1232381000731 GtrA-like protein; Region: GtrA; pfam04138 1232381000732 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 1232381000733 MOSC domain; Region: MOSC; pfam03473 1232381000734 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1232381000735 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 1232381000736 active site 1232381000737 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 1232381000738 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 1232381000739 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1232381000740 Walker A/P-loop; other site 1232381000741 ATP binding site [chemical binding]; other site 1232381000742 Q-loop/lid; other site 1232381000743 ABC transporter signature motif; other site 1232381000744 Walker B; other site 1232381000745 D-loop; other site 1232381000746 H-loop/switch region; other site 1232381000747 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1232381000748 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1232381000749 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1232381000750 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 1232381000751 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 1232381000752 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 1232381000753 NAD(P) binding site [chemical binding]; other site 1232381000754 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1232381000755 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 1232381000756 catalytic loop [active] 1232381000757 iron binding site [ion binding]; other site 1232381000758 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1232381000759 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 1232381000760 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 1232381000761 molybdopterin biosynthesis protein MoeB; Validated; Region: PRK05597 1232381000762 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 1232381000763 ATP binding site [chemical binding]; other site 1232381000764 substrate interface [chemical binding]; other site 1232381000765 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 1232381000766 active site residue [active] 1232381000767 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 1232381000768 MoaE homodimer interface [polypeptide binding]; other site 1232381000769 MoaD interaction [polypeptide binding]; other site 1232381000770 active site residues [active] 1232381000771 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 1232381000772 MPT binding site; other site 1232381000773 trimer interface [polypeptide binding]; other site 1232381000774 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 1232381000775 trimer interface [polypeptide binding]; other site 1232381000776 dimer interface [polypeptide binding]; other site 1232381000777 putative active site [active] 1232381000778 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1232381000779 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 1232381000780 dimer interface [polypeptide binding]; other site 1232381000781 putative functional site; other site 1232381000782 putative MPT binding site; other site 1232381000783 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1232381000784 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1232381000785 dimer interface [polypeptide binding]; other site 1232381000786 conserved gate region; other site 1232381000787 putative PBP binding loops; other site 1232381000788 ABC-ATPase subunit interface; other site 1232381000789 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1232381000790 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1232381000791 Ubiquitin-like proteins; Region: UBQ; cl00155 1232381000792 charged pocket; other site 1232381000793 hydrophobic patch; other site 1232381000794 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1232381000795 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1232381000796 Walker A/P-loop; other site 1232381000797 ATP binding site [chemical binding]; other site 1232381000798 Q-loop/lid; other site 1232381000799 ABC transporter signature motif; other site 1232381000800 Walker B; other site 1232381000801 D-loop; other site 1232381000802 H-loop/switch region; other site 1232381000803 Predicted membrane protein [Function unknown]; Region: COG1950 1232381000804 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 1232381000805 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 1232381000806 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1232381000807 homodimer interface [polypeptide binding]; other site 1232381000808 catalytic residue [active] 1232381000809 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 1232381000810 MgtE intracellular N domain; Region: MgtE_N; pfam03448 1232381000811 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 1232381000812 Divalent cation transporter; Region: MgtE; cl00786 1232381000813 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1232381000814 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 1232381000815 transmembrane helices; other site 1232381000816 prephenate dehydrogenase; Validated; Region: PRK06545 1232381000817 prephenate dehydrogenase; Validated; Region: PRK08507 1232381000818 putative tRNA adenosine deaminase-associated protein; Region: tRNA_deam_assoc; TIGR03941 1232381000819 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 1232381000820 nucleoside/Zn binding site; other site 1232381000821 dimer interface [polypeptide binding]; other site 1232381000822 catalytic motif [active] 1232381000823 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3237 1232381000824 MMPL family; Region: MMPL; pfam03176 1232381000825 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1232381000826 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 1232381000827 Uncharacterized member of the PurR regulon [General function prediction only]; Region: yhhQ; COG1738 1232381000828 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1232381000829 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1232381000830 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1232381000831 Q-loop/lid; other site 1232381000832 ABC transporter signature motif; other site 1232381000833 Walker B; other site 1232381000834 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 1232381000835 tRNA synthetases class I (E and Q), catalytic domain; Region: tRNA-synt_1c; pfam00749 1232381000836 active site 1232381000837 HIGH motif; other site 1232381000838 nucleotide binding site [chemical binding]; other site 1232381000839 active site 1232381000840 KMSKS motif; other site 1232381000841 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 1232381000842 Intradiol dioxygenase supgroup. Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. They break the catechol C1-C2 bond and utilize Fe3+, as opposed to the...; Region: intradiol_dioxygenase_like; cd03457 1232381000843 putative active site [active] 1232381000844 Alanine-glyoxylate amino-transferase; Region: Aminotran_MocR; pfam12897 1232381000845 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 1232381000846 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1232381000847 homodimer interface [polypeptide binding]; other site 1232381000848 catalytic residue [active] 1232381000849 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 1232381000850 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1232381000851 hypothetical protein; Validated; Region: PRK00153 1232381000852 recombination protein RecR; Reviewed; Region: recR; PRK00076 1232381000853 Helix-hairpin-helix DNA-binding motif class 1; Region: HhH1; smart00278 1232381000854 RecR protein; Region: RecR; pfam02132 1232381000855 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 1232381000856 putative active site [active] 1232381000857 putative metal-binding site [ion binding]; other site 1232381000858 tetramer interface [polypeptide binding]; other site 1232381000859 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1232381000860 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1232381000861 acyl-activating enzyme (AAE) consensus motif; other site 1232381000862 AMP binding site [chemical binding]; other site 1232381000863 active site 1232381000864 CoA binding site [chemical binding]; other site 1232381000865 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1232381000866 non-ribosomal peptide synthetase terminal domain of unknown function; Region: NRPS_term_dom; TIGR02353 1232381000867 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 1232381000868 putative trimer interface [polypeptide binding]; other site 1232381000869 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 1232381000870 putative CoA binding site [chemical binding]; other site 1232381000871 putative CoA binding site [chemical binding]; other site 1232381000872 putative trimer interface [polypeptide binding]; other site 1232381000873 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 1232381000874 putative trimer interface [polypeptide binding]; other site 1232381000875 putative CoA binding site [chemical binding]; other site 1232381000876 Predicted membrane protein [Function unknown]; Region: COG2311 1232381000877 Protein of unknown function (DUF418); Region: DUF418; pfam04235 1232381000878 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 1232381000879 catalytic triad [active] 1232381000880 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 1232381000881 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1232381000882 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 1232381000883 DNA polymerase III subunit epsilon; Validated; Region: PRK05601 1232381000884 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 1232381000885 active site 1232381000886 substrate binding site [chemical binding]; other site 1232381000887 2-isopropylmalate synthase; Validated; Region: PRK03739 1232381000888 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 1232381000889 active site 1232381000890 catalytic residues [active] 1232381000891 metal binding site [ion binding]; metal-binding site 1232381000892 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 1232381000893 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1232381000894 aspartate kinase; Reviewed; Region: PRK06635 1232381000895 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 1232381000896 putative nucleotide binding site [chemical binding]; other site 1232381000897 putative catalytic residues [active] 1232381000898 putative Mg ion binding site [ion binding]; other site 1232381000899 putative aspartate binding site [chemical binding]; other site 1232381000900 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 1232381000901 putative allosteric regulatory site; other site 1232381000902 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 1232381000903 putative allosteric regulatory residue; other site 1232381000904 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 1232381000905 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1232381000906 RNA polymerase sigma factor; Provisional; Region: PRK12535 1232381000907 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1232381000908 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 1232381000909 DNA binding residues [nucleotide binding] 1232381000910 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 1232381000911 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 1232381000912 heme binding pocket [chemical binding]; other site 1232381000913 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1232381000914 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 1232381000915 AsnC family; Region: AsnC_trans_reg; pfam01037 1232381000916 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 1232381000917 Predicted branched-chain amino acid permeases (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlD; COG1687 1232381000918 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 1232381000919 dimerization interface [polypeptide binding]; other site 1232381000920 putative DNA binding site [nucleotide binding]; other site 1232381000921 putative Zn2+ binding site [ion binding]; other site 1232381000922 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 1232381000923 arsenical-resistance protein; Region: acr3; TIGR00832 1232381000924 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1232381000925 Low molecular weight phosphatase family; Region: LMWPc; cl00105 1232381000926 active site 1232381000927 Multisubunit Na+/H+ antiporter, MnhG subunit [Inorganic ion transport and metabolism]; Region: MnhG; COG1320 1232381000928 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12612 1232381000929 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK12654 1232381000930 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 1232381000931 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1232381000932 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK07375 1232381000933 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12650 1232381000934 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1232381000935 Domain of unknown function (DUF4040); Region: DUF4040; pfam13244 1232381000936 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 1232381000937 Predicted membrane protein [Function unknown]; Region: COG1511 1232381000938 Malonate/sodium symporter MadM subunit; Region: MadM; cl04274 1232381000939 Malonate transporter MadL subunit; Region: MadL; cl04273 1232381000940 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1232381000941 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1232381000942 The 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 1232381000943 dimerization interface [polypeptide binding]; other site 1232381000944 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1232381000945 malonate decarboxylase, epsilon subunit; Region: malonate_mdcH; TIGR03131 1232381000946 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; pfam10620 1232381000947 phosphoribosyl-dephospho-CoA transferase; Provisional; Region: PRK01293; cl07913 1232381000948 malonate decarboxylase, gamma subunit; Region: malonate_gamma; TIGR03134 1232381000949 malonate decarboxylase acyl carrier protein; Region: malonate_delta; TIGR03130 1232381000950 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189 1232381000951 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; pfam01874 1232381000952 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 1232381000953 Coenzyme A transferase; Region: CoA_trans; cl17247 1232381000954 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1232381000955 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1232381000956 active site 1232381000957 phosphorylation site [posttranslational modification] 1232381000958 intermolecular recognition site; other site 1232381000959 dimerization interface [polypeptide binding]; other site 1232381000960 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 1232381000961 DNA binding site [nucleotide binding] 1232381000962 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1232381000963 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 1232381000964 dimerization interface [polypeptide binding]; other site 1232381000965 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 1232381000966 dimer interface [polypeptide binding]; other site 1232381000967 phosphorylation site [posttranslational modification] 1232381000968 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1232381000969 ATP binding site [chemical binding]; other site 1232381000970 Mg2+ binding site [ion binding]; other site 1232381000971 G-X-G motif; other site 1232381000972 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1232381000973 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1232381000974 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 1232381000975 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1232381000976 putative active site [active] 1232381000977 putative metal binding site [ion binding]; other site 1232381000978 Yqey-like protein; Region: YqeY; pfam09424 1232381000979 Transglycosylase; Region: Transgly; pfam00912 1232381000980 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1232381000981 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1232381000982 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 1232381000983 Transcription factor WhiB; Region: Whib; pfam02467 1232381000984 Domain of unknown function (DUF4177); Region: DUF4177; pfam13783 1232381000985 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 1232381000986 homotrimer interaction site [polypeptide binding]; other site 1232381000987 putative active site [active] 1232381000988 metabolite-proton symporter; Region: 2A0106; TIGR00883 1232381000989 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381000990 putative substrate translocation pore; other site 1232381000991 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 1232381000992 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1232381000993 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 1232381000994 acyl-activating enzyme (AAE) consensus motif; other site 1232381000995 acyl-activating enzyme (AAE) consensus motif; other site 1232381000996 putative AMP binding site [chemical binding]; other site 1232381000997 putative active site [active] 1232381000998 putative CoA binding site [chemical binding]; other site 1232381000999 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1232381001000 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 1232381001001 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1232381001002 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1232381001003 NAD(P) binding site [chemical binding]; other site 1232381001004 active site 1232381001005 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cd01292 1232381001006 active site 1232381001007 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1232381001008 acyl-coenzyme A oxidase; Region: PLN02526 1232381001009 active site 1232381001010 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 1232381001011 putative active site [active] 1232381001012 putative catalytic site [active] 1232381001013 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1232381001014 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1232381001015 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 1232381001016 ligand binding site [chemical binding]; other site 1232381001017 flexible hinge region; other site 1232381001018 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 1232381001019 putative switch regulator; other site 1232381001020 non-specific DNA interactions [nucleotide binding]; other site 1232381001021 DNA binding site [nucleotide binding] 1232381001022 sequence specific DNA binding site [nucleotide binding]; other site 1232381001023 putative cAMP binding site [chemical binding]; other site 1232381001024 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1232381001025 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1232381001026 minor groove reading motif; other site 1232381001027 helix-hairpin-helix signature motif; other site 1232381001028 substrate binding pocket [chemical binding]; other site 1232381001029 active site 1232381001030 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 1232381001031 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1232381001032 catalytic residues [active] 1232381001033 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 1232381001034 putative active site [active] 1232381001035 putative CoA binding site [chemical binding]; other site 1232381001036 nudix motif; other site 1232381001037 metal binding site [ion binding]; metal-binding site 1232381001038 Colicin V production protein; Region: Colicin_V; pfam02674 1232381001039 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 1232381001040 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1232381001041 active site 1232381001042 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1232381001043 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1232381001044 Protein of unknown function (DUF1469); Region: DUF1469; pfam07332 1232381001045 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1232381001046 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 1232381001047 motif II; other site 1232381001048 helicase/secretion neighborhood CpaE-like protein; Region: CpaE_hom_Actino; TIGR03815 1232381001049 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 1232381001050 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 1232381001051 ATP binding site [chemical binding]; other site 1232381001052 Walker A motif; other site 1232381001053 hexamer interface [polypeptide binding]; other site 1232381001054 Walker B motif; other site 1232381001055 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 1232381001056 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1232381001057 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 1232381001058 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1232381001059 Protein of unknown function (DUF4244); Region: DUF4244; pfam14029 1232381001060 helicase/secretion neighborhood putative DEAH-box helicase; Region: DECH_helic; TIGR03817 1232381001061 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 1232381001062 ATP binding site [chemical binding]; other site 1232381001063 putative Mg++ binding site [ion binding]; other site 1232381001064 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 1232381001065 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 1232381001066 DNA-binding site [nucleotide binding]; DNA binding site 1232381001067 RNA-binding motif; other site 1232381001068 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 1232381001069 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 1232381001070 active site 1232381001071 interdomain interaction site; other site 1232381001072 putative metal-binding site [ion binding]; other site 1232381001073 nucleotide binding site [chemical binding]; other site 1232381001074 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 1232381001075 domain I; other site 1232381001076 DNA binding groove [nucleotide binding] 1232381001077 phosphate binding site [ion binding]; other site 1232381001078 domain II; other site 1232381001079 domain III; other site 1232381001080 nucleotide binding site [chemical binding]; other site 1232381001081 catalytic site [active] 1232381001082 domain IV; other site 1232381001083 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 1232381001084 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 1232381001085 YhhN-like protein; Region: YhhN; pfam07947 1232381001086 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 1232381001087 dimerization interface [polypeptide binding]; other site 1232381001088 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1232381001089 cyclase homology domain; Region: CHD; cd07302 1232381001090 nucleotidyl binding site; other site 1232381001091 metal binding site [ion binding]; metal-binding site 1232381001092 dimer interface [polypeptide binding]; other site 1232381001093 DNA polymerase III subunit delta'; Validated; Region: PRK07940 1232381001094 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 1232381001095 Walker A motif; other site 1232381001096 ATP binding site [chemical binding]; other site 1232381001097 Walker B motif; other site 1232381001098 arginine finger; other site 1232381001099 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 1232381001100 Adenylate kinase and related kinases [Nucleotide transport and metabolism]; Region: Adk; COG0563 1232381001101 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; cd02019 1232381001102 active site 1232381001103 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1232381001104 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 1232381001105 RNA binding surface [nucleotide binding]; other site 1232381001106 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1232381001107 active site 1232381001108 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1232381001109 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 1232381001110 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 1232381001111 S-(hydroxymethyl)mycothiol dehydrogenase; Region: mycoS_dep_FDH; TIGR03451 1232381001112 Class III alcohol dehydrogenase; Region: Zn_ADH_class_III; cd08279 1232381001113 NAD binding site [chemical binding]; other site 1232381001114 catalytic Zn binding site [ion binding]; other site 1232381001115 substrate binding site [chemical binding]; other site 1232381001116 structural Zn binding site [ion binding]; other site 1232381001117 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1232381001118 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1232381001119 classical (c) SDRs; Region: SDR_c; cd05233 1232381001120 NAD(P) binding site [chemical binding]; other site 1232381001121 active site 1232381001122 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381001123 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1232381001124 putative substrate translocation pore; other site 1232381001125 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1232381001126 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1232381001127 NAD(P) binding site [chemical binding]; other site 1232381001128 active site 1232381001129 hypothetical protein; Validated; Region: PRK09039 1232381001130 Integrase core domain; Region: rve; pfam00665 1232381001131 Integrase core domain; Region: rve_3; pfam13683 1232381001132 Uncharacterized conserved protein (DUF2304); Region: DUF2304; cl01034 1232381001133 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 1232381001134 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1232381001135 Ligand binding site; other site 1232381001136 Putative Catalytic site; other site 1232381001137 DXD motif; other site 1232381001138 Ribonuclease HI [DNA replication, recombination, and repair]; Region: RnhA; COG0328 1232381001139 RNA/DNA hybrid binding site [nucleotide binding]; other site 1232381001140 active site 1232381001141 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1232381001142 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 1232381001143 Probable Catalytic site; other site 1232381001144 metal-binding site 1232381001145 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 1232381001146 Bacillus subtilis YhcR endonuclease and related proteins, N-terminal metallophosphatase domain; Region: MPP_YhcR_N; cd07412 1232381001147 putative active site [active] 1232381001148 putative metal binding site [ion binding]; other site 1232381001149 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1232381001150 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1232381001151 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 1232381001152 putative NAD(P) binding site [chemical binding]; other site 1232381001153 putative substrate binding site [chemical binding]; other site 1232381001154 catalytic Zn binding site [ion binding]; other site 1232381001155 structural Zn binding site [ion binding]; other site 1232381001156 dimer interface [polypeptide binding]; other site 1232381001157 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 1232381001158 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 1232381001159 substrate binding site; other site 1232381001160 tetramer interface; other site 1232381001161 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 1232381001162 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 1232381001163 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1232381001164 NADP binding site [chemical binding]; other site 1232381001165 active site 1232381001166 putative substrate binding site [chemical binding]; other site 1232381001167 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1232381001168 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 1232381001169 NAD binding site [chemical binding]; other site 1232381001170 substrate binding site [chemical binding]; other site 1232381001171 homodimer interface [polypeptide binding]; other site 1232381001172 active site 1232381001173 NADPH_oxidase. Nitroreductase family containing NADH oxidase and other, uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and nitroimidazoles; Region: NADH_oxidase; cd03370 1232381001174 dimer interface [polypeptide binding]; other site 1232381001175 FMN binding site [chemical binding]; other site 1232381001176 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 1232381001177 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1232381001178 siderophore binding site; other site 1232381001179 Protein of unknown function (DUF4230); Region: DUF4230; pfam14014 1232381001180 Aminopeptidase N [Amino acid transport and metabolism]; Region: PepN; COG0308 1232381001181 Peptidase M1 family Aminopeptidase N; Region: M1_APN_4; cd09603 1232381001182 Zn binding site [ion binding]; other site 1232381001183 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 1232381001184 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1232381001185 Excalibur calcium-binding domain; Region: Excalibur; smart00894 1232381001186 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 1232381001187 Putative esterase; Region: Esterase; pfam00756 1232381001188 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 1232381001189 Chain length determinant protein; Region: Wzz; cl15801 1232381001190 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 1232381001191 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 1232381001192 Low molecular weight phosphatase family; Region: LMWPc; cl00105 1232381001193 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1232381001194 active site 1232381001195 VPS10 domain; Region: VPS10; smart00602 1232381001196 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 1232381001197 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1232381001198 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1232381001199 NAD(P) binding site [chemical binding]; other site 1232381001200 homodimer interface [polypeptide binding]; other site 1232381001201 substrate binding site [chemical binding]; other site 1232381001202 active site 1232381001203 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 1232381001204 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 1232381001205 inhibitor-cofactor binding pocket; inhibition site 1232381001206 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1232381001207 catalytic residue [active] 1232381001208 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1232381001209 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 1232381001210 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 1232381001211 putative trimer interface [polypeptide binding]; other site 1232381001212 putative CoA binding site [chemical binding]; other site 1232381001213 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 1232381001214 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1232381001215 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1232381001216 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1232381001217 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 1232381001218 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1232381001219 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1232381001220 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK07818 1232381001221 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1232381001222 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1232381001223 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1232381001224 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1232381001225 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1232381001226 active site 1232381001227 tetramer interface; other site 1232381001228 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 1232381001229 putative deacylase active site [active] 1232381001230 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1232381001231 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 1232381001232 non-specific DNA binding site [nucleotide binding]; other site 1232381001233 salt bridge; other site 1232381001234 sequence-specific DNA binding site [nucleotide binding]; other site 1232381001235 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 1232381001236 Domain of unknown function (DUF955); Region: DUF955; pfam06114 1232381001237 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 1232381001238 Succinate:quinone oxidoreductase (SQR)-like Type B subfamily 2, transmembrane subunit; composed of proteins with similarity to the SQRs of Geobacter metallireducens and Corynebacterium glutamicum. SQR catalyzes the oxidation of succinate to fumarate...; Region: SQR_TypeB_2_TM; cd03498 1232381001239 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 1232381001240 putative Iron-sulfur protein interface [polypeptide binding]; other site 1232381001241 proximal heme binding site [chemical binding]; other site 1232381001242 distal heme binding site [chemical binding]; other site 1232381001243 putative dimer interface [polypeptide binding]; other site 1232381001244 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 1232381001245 L-aspartate oxidase; Provisional; Region: PRK06175 1232381001246 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1232381001247 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 1232381001248 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1232381001249 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 1232381001250 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 1232381001251 Predicted membrane protein [Function unknown]; Region: COG2733 1232381001252 Protein of unknown function (DUF2516); Region: DUF2516; pfam10724 1232381001253 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1232381001254 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1232381001255 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381001256 putative substrate translocation pore; other site 1232381001257 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381001258 putative substrate translocation pore; other site 1232381001259 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381001260 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1232381001261 putative substrate translocation pore; other site 1232381001262 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 1232381001263 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1232381001264 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1232381001265 putative active site [active] 1232381001266 putative substrate binding site [chemical binding]; other site 1232381001267 putative cosubstrate binding site; other site 1232381001268 catalytic site [active] 1232381001269 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 1232381001270 intersubunit interface [polypeptide binding]; other site 1232381001271 active site 1232381001272 catalytic residue [active] 1232381001273 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 1232381001274 putative homodimer interface [polypeptide binding]; other site 1232381001275 putative homotetramer interface [polypeptide binding]; other site 1232381001276 putative allosteric switch controlling residues; other site 1232381001277 putative metal binding site [ion binding]; other site 1232381001278 putative homodimer-homodimer interface [polypeptide binding]; other site 1232381001279 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1232381001280 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 1232381001281 metal-binding site [ion binding] 1232381001282 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1232381001283 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1232381001284 Intracellular septation protein A; Region: IspA; cl01098 1232381001285 Htaa; Region: HtaA; pfam04213 1232381001286 Htaa; Region: HtaA; pfam04213 1232381001287 ABC-type hemin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ChuT; COG4558 1232381001288 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 1232381001289 intersubunit interface [polypeptide binding]; other site 1232381001290 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 1232381001291 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 1232381001292 dimer interface [polypeptide binding]; other site 1232381001293 putative PBP binding regions; other site 1232381001294 ABC-ATPase subunit interface; other site 1232381001295 ABC-type hemin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG4559 1232381001296 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1232381001297 Walker A/P-loop; other site 1232381001298 ATP binding site [chemical binding]; other site 1232381001299 Q-loop/lid; other site 1232381001300 ABC transporter signature motif; other site 1232381001301 Walker B; other site 1232381001302 D-loop; other site 1232381001303 H-loop/switch region; other site 1232381001304 Htaa; Region: HtaA; pfam04213 1232381001305 Htaa; Region: HtaA; pfam04213 1232381001306 Protein of unknown function (DUF2993); Region: DUF2993; pfam11209 1232381001307 Protein of unknown function (DUF2505); Region: DUF2505; pfam10698 1232381001308 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13903 1232381001309 FAD binding domain; Region: FAD_binding_4; pfam01565 1232381001310 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1232381001311 hypothetical protein; Provisional; Region: PRK07758 1232381001312 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 1232381001313 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05605 1232381001314 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1232381001315 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1232381001316 acyl-activating enzyme (AAE) consensus motif; other site 1232381001317 AMP binding site [chemical binding]; other site 1232381001318 active site 1232381001319 CoA binding site [chemical binding]; other site 1232381001320 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 1232381001321 D-inositol-3-phosphate glycosyltransferase; Region: mycothiol_MshA; TIGR03449 1232381001322 putative ADP-binding pocket [chemical binding]; other site 1232381001323 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 1232381001324 catalytic core [active] 1232381001325 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 1232381001326 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1232381001327 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 1232381001328 dimer interface [polypeptide binding]; other site 1232381001329 phosphorylation site [posttranslational modification] 1232381001330 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1232381001331 ATP binding site [chemical binding]; other site 1232381001332 Mg2+ binding site [ion binding]; other site 1232381001333 G-X-G motif; other site 1232381001334 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1232381001335 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1232381001336 active site 1232381001337 phosphorylation site [posttranslational modification] 1232381001338 intermolecular recognition site; other site 1232381001339 dimerization interface [polypeptide binding]; other site 1232381001340 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 1232381001341 DNA binding site [nucleotide binding] 1232381001342 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1232381001343 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1232381001344 FtsX-like permease family; Region: FtsX; pfam02687 1232381001345 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1232381001346 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1232381001347 FtsX-like permease family; Region: FtsX; pfam02687 1232381001348 exopolyphosphatase; Region: exo_poly_only; TIGR03706 1232381001349 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1232381001350 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1232381001351 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1232381001352 DNA binding domain, excisionase family; Region: excise; TIGR01764 1232381001353 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1232381001354 HAD-superfamily subfamily IB hydrolase, TIGR01490; Region: HAD-SF-IB-hyp1 1232381001355 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 1232381001356 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 1232381001357 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 1232381001358 tRNA; other site 1232381001359 putative tRNA binding site [nucleotide binding]; other site 1232381001360 putative NADP binding site [chemical binding]; other site 1232381001361 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 1232381001362 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1232381001363 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cl17708 1232381001364 domain interfaces; other site 1232381001365 active site 1232381001366 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1232381001367 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1232381001368 The 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 1232381001369 dimerization interface [polypeptide binding]; other site 1232381001370 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381001371 metabolite-proton symporter; Region: 2A0106; TIGR00883 1232381001372 putative substrate translocation pore; other site 1232381001373 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1232381001374 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 1232381001375 AP (apurinic/apyrimidinic) site pocket; other site 1232381001376 DNA interaction; other site 1232381001377 Metal-binding active site; metal-binding site 1232381001378 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 1232381001379 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 1232381001380 active site 1232381001381 metal binding site [ion binding]; metal-binding site 1232381001382 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 1232381001383 active site 1232381001384 Fe binding site [ion binding]; other site 1232381001385 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 1232381001386 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1232381001387 active site 1232381001388 trimer interface [polypeptide binding]; other site 1232381001389 dimer interface [polypeptide binding]; other site 1232381001390 quinate/shikimate dehydrogenase; Provisional; Region: PRK14027 1232381001391 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1232381001392 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1232381001393 shikimate binding site; other site 1232381001394 NAD(P) binding site [chemical binding]; other site 1232381001395 Ribosomal protein L7/L12 [Translation, ribosomal structure and biogenesis]; Region: RplL; COG0222 1232381001396 L11 interface [polypeptide binding]; other site 1232381001397 putative EF-Tu interaction site [polypeptide binding]; other site 1232381001398 putative EF-G interaction site [polypeptide binding]; other site 1232381001399 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1232381001400 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1232381001401 Walker A/P-loop; other site 1232381001402 ATP binding site [chemical binding]; other site 1232381001403 Q-loop/lid; other site 1232381001404 ABC transporter signature motif; other site 1232381001405 Walker B; other site 1232381001406 D-loop; other site 1232381001407 H-loop/switch region; other site 1232381001408 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1232381001409 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1232381001410 dimer interface [polypeptide binding]; other site 1232381001411 conserved gate region; other site 1232381001412 putative PBP binding loops; other site 1232381001413 ABC-ATPase subunit interface; other site 1232381001414 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1232381001415 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1232381001416 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1232381001417 S-AdoMet dependent tetrapyrrole methylases; Region: TP_methylase; cd09815 1232381001418 active site 1232381001419 homodimer interface [polypeptide binding]; other site 1232381001420 SAM binding site [chemical binding]; other site 1232381001421 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 1232381001422 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 1232381001423 active site 1232381001424 Domain of unknown function (DUF3806); Region: DUF3806; pfam12713 1232381001425 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; cd00384 1232381001426 dimer interface [polypeptide binding]; other site 1232381001427 active site 1232381001428 Schiff base residues; other site 1232381001429 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1232381001430 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1232381001431 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 1232381001432 substrate binding site [chemical binding]; other site 1232381001433 active site 1232381001434 protoporphyrinogen oxidase; Reviewed; Region: PRK11883 1232381001435 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 1232381001436 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 1232381001437 inhibitor-cofactor binding pocket; inhibition site 1232381001438 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1232381001439 catalytic residue [active] 1232381001440 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 1232381001441 catalytic core [active] 1232381001442 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 1232381001443 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1232381001444 catalytic residues [active] 1232381001445 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 1232381001446 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1232381001447 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; COG1333 1232381001448 ResB-like family; Region: ResB; pfam05140 1232381001449 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 1232381001450 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1232381001451 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1232381001452 dimer interface [polypeptide binding]; other site 1232381001453 conserved gate region; other site 1232381001454 putative PBP binding loops; other site 1232381001455 ABC-ATPase subunit interface; other site 1232381001456 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 1232381001457 NMT1/THI5 like; Region: NMT1; pfam09084 1232381001458 ectoine/hydroxyectoine ABC transporter, ATP-binding protein; Region: ectoine_ehuA; TIGR03005 1232381001459 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1232381001460 Walker A/P-loop; other site 1232381001461 ATP binding site [chemical binding]; other site 1232381001462 Q-loop/lid; other site 1232381001463 ABC transporter signature motif; other site 1232381001464 Walker B; other site 1232381001465 D-loop; other site 1232381001466 H-loop/switch region; other site 1232381001467 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1232381001468 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 1232381001469 active site 1232381001470 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 1232381001471 homotrimer interaction site [polypeptide binding]; other site 1232381001472 putative active site [active] 1232381001473 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 1232381001474 putative DNA binding site [nucleotide binding]; other site 1232381001475 dimerization interface [polypeptide binding]; other site 1232381001476 putative Zn2+ binding site [ion binding]; other site 1232381001477 Protein of unknown function (DUF4229); Region: DUF4229; pfam14012 1232381001478 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 1232381001479 UbiA prenyltransferase family; Region: UbiA; pfam01040 1232381001480 acetolactate synthase catalytic subunit; Validated; Region: PRK08327 1232381001481 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK07824 1232381001482 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1232381001483 acyl-activating enzyme (AAE) consensus motif; other site 1232381001484 AMP binding site [chemical binding]; other site 1232381001485 active site 1232381001486 CoA binding site [chemical binding]; other site 1232381001487 Predicted membrane protein [Function unknown]; Region: COG2259 1232381001488 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1232381001489 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 1232381001490 dimer interface [polypeptide binding]; other site 1232381001491 NADP binding site [chemical binding]; other site 1232381001492 catalytic residues [active] 1232381001493 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 1232381001494 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1232381001495 putative active site [active] 1232381001496 catalytic residue [active] 1232381001497 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1232381001498 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1232381001499 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to regulators involved in the catabolism of aromatic compounds, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like_1; cd08447 1232381001500 putative dimerization interface [polypeptide binding]; other site 1232381001501 putative substrate binding pocket [chemical binding]; other site 1232381001502 Protein of unknown function (DUF3349); Region: DUF3349; pfam11829 1232381001503 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 1232381001504 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 1232381001505 active site 1232381001506 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; cd03440 1232381001507 active site 1 [active] 1232381001508 active site 2 [active] 1232381001509 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1232381001510 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1232381001511 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1232381001512 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 1232381001513 DDE domain; Region: DDE_Tnp_IS240; pfam13610 1232381001514 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 1232381001515 Uncharacterized conserved protein [Function unknown]; Region: COG1479 1232381001516 Protein of unknown function DUF262; Region: DUF262; pfam03235 1232381001517 Protein of unknown function DUF262; Region: DUF262; pfam03235 1232381001518 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 1232381001519 DDE domain; Region: DDE_Tnp_IS240; pfam13610 1232381001520 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1232381001521 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1232381001522 Protein of unknown function (DUF2872); Region: DUF2872; pfam11071 1232381001523 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1232381001524 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 1232381001525 dimerization interface [polypeptide binding]; other site 1232381001526 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 1232381001527 dimer interface [polypeptide binding]; other site 1232381001528 phosphorylation site [posttranslational modification] 1232381001529 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1232381001530 ATP binding site [chemical binding]; other site 1232381001531 Mg2+ binding site [ion binding]; other site 1232381001532 G-X-G motif; other site 1232381001533 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1232381001534 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1232381001535 active site 1232381001536 phosphorylation site [posttranslational modification] 1232381001537 intermolecular recognition site; other site 1232381001538 dimerization interface [polypeptide binding]; other site 1232381001539 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 1232381001540 DNA binding site [nucleotide binding] 1232381001541 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 1232381001542 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 1232381001543 active site 1232381001544 DDE domain; Region: DDE_Tnp_IS240; pfam13610 1232381001545 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 1232381001546 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 1232381001547 AAA domain; Region: AAA_23; pfam13476 1232381001548 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1232381001549 Walker A/P-loop; other site 1232381001550 ATP binding site [chemical binding]; other site 1232381001551 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 1232381001552 putative active site [active] 1232381001553 putative metal-binding site [ion binding]; other site 1232381001554 AAA domain; Region: AAA_30; pfam13604 1232381001555 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 1232381001556 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 1232381001557 Integrase core domain; Region: rve; pfam00665 1232381001558 Replicase family; Region: Replicase; pfam03090 1232381001559 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 1232381001560 Integrase core domain; Region: rve; pfam00665 1232381001561 Uncharacterized protein potentially involved in peptidoglycan biosynthesis [Cell envelope biogenesis, outer membrane]; Region: COG5479 1232381001562 LGFP repeat; Region: LGFP; pfam08310 1232381001563 LGFP repeat; Region: LGFP; pfam08310 1232381001564 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 1232381001565 Integrase core domain; Region: rve; pfam00665 1232381001566 Resolvase, N terminal domain; Region: Resolvase; pfam00239 1232381001567 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1232381001568 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 1232381001569 DNA-binding interface [nucleotide binding]; DNA binding site 1232381001570 DDE domain; Region: DDE_Tnp_IS240; pfam13610 1232381001571 Predicted membrane protein [Function unknown]; Region: COG4325 1232381001572 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 1232381001573 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 1232381001574 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 1232381001575 substrate binding site [chemical binding]; other site 1232381001576 oxyanion hole (OAH) forming residues; other site 1232381001577 trimer interface [polypeptide binding]; other site 1232381001578 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH; cd00488 1232381001579 aromatic arch; other site 1232381001580 DCoH dimer interaction site [polypeptide binding]; other site 1232381001581 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 1232381001582 DCoH tetramer interaction site [polypeptide binding]; other site 1232381001583 substrate binding site [chemical binding]; other site 1232381001584 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E_like proteins; Region: GAT1_Peptidase_E_like; cd03129 1232381001585 catalytic triad [active] 1232381001586 active site nucleophile [active] 1232381001587 O-succinylbenzoate synthase; Provisional; Region: PRK02901 1232381001588 o-Succinylbenzoate synthase (OSBS) catalyzes the conversion of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate (SHCHC) to 4-(2'-carboxyphenyl)-4-oxobutyrate (o-succinylbenzoate or OSB), a reaction in the menaquinone biosynthetic pathway; Region: OSBS; cd03320 1232381001589 active site 1232381001590 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase [Coenzyme metabolism]; Region: MenD; COG1165 1232381001591 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 1232381001592 dimer interface [polypeptide binding]; other site 1232381001593 tetramer interface [polypeptide binding]; other site 1232381001594 PYR/PP interface [polypeptide binding]; other site 1232381001595 TPP binding site [chemical binding]; other site 1232381001596 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 1232381001597 TPP-binding site; other site 1232381001598 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1232381001599 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 1232381001600 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 1232381001601 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1232381001602 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 1232381001603 S-adenosylmethionine binding site [chemical binding]; other site 1232381001604 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 1232381001605 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1232381001606 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1232381001607 substrate binding pocket [chemical binding]; other site 1232381001608 chain length determination region; other site 1232381001609 substrate-Mg2+ binding site; other site 1232381001610 catalytic residues [active] 1232381001611 aspartate-rich region 1; other site 1232381001612 active site lid residues [active] 1232381001613 aspartate-rich region 2; other site 1232381001614 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 1232381001615 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1232381001616 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1232381001617 putative homodimer interface [polypeptide binding]; other site 1232381001618 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1232381001619 heterodimer interface [polypeptide binding]; other site 1232381001620 homodimer interface [polypeptide binding]; other site 1232381001621 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1232381001622 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 1232381001623 23S rRNA interface [nucleotide binding]; other site 1232381001624 L7/L12 interface [polypeptide binding]; other site 1232381001625 putative thiostrepton binding site; other site 1232381001626 L25 interface [polypeptide binding]; other site 1232381001627 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 1232381001628 mRNA/rRNA interface [nucleotide binding]; other site 1232381001629 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 1232381001630 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1232381001631 4-aminobutyrate aminotransferase; Provisional; Region: PRK06058 1232381001632 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 1232381001633 inhibitor-cofactor binding pocket; inhibition site 1232381001634 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1232381001635 catalytic residue [active] 1232381001636 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1232381001637 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1232381001638 tetramerization interface [polypeptide binding]; other site 1232381001639 NAD(P) binding site [chemical binding]; other site 1232381001640 catalytic residues [active] 1232381001641 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 1232381001642 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 1232381001643 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 1232381001644 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1232381001645 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1232381001646 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 1232381001647 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1232381001648 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 1232381001649 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 1232381001650 23S rRNA interface [nucleotide binding]; other site 1232381001651 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1232381001652 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 1232381001653 core dimer interface [polypeptide binding]; other site 1232381001654 peripheral dimer interface [polypeptide binding]; other site 1232381001655 L10 interface [polypeptide binding]; other site 1232381001656 L11 interface [polypeptide binding]; other site 1232381001657 putative EF-Tu interaction site [polypeptide binding]; other site 1232381001658 putative EF-G interaction site [polypeptide binding]; other site 1232381001659 Protein of unknown function (DUF3068); Region: DUF3068; pfam11271 1232381001660 Tetraspanin family; Region: Tetraspannin; pfam00335 1232381001661 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1232381001662 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 1232381001663 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1232381001664 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cd00653 1232381001665 RPB1 interaction site [polypeptide binding]; other site 1232381001666 RPB10 interaction site [polypeptide binding]; other site 1232381001667 RPB11 interaction site [polypeptide binding]; other site 1232381001668 RPB3 interaction site [polypeptide binding]; other site 1232381001669 RPB12 interaction site [polypeptide binding]; other site 1232381001670 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1232381001671 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 1232381001672 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 1232381001673 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1232381001674 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1232381001675 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1232381001676 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1232381001677 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 1232381001678 G-loop; other site 1232381001679 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1232381001680 DNA binding site [nucleotide binding] 1232381001681 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1232381001682 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 1232381001683 salt bridge; other site 1232381001684 non-specific DNA binding site [nucleotide binding]; other site 1232381001685 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1232381001686 sequence-specific DNA binding site [nucleotide binding]; other site 1232381001687 Domain of unknown function (DUF1707); Region: DUF1707; pfam08044 1232381001688 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 1232381001689 S17 interaction site [polypeptide binding]; other site 1232381001690 S8 interaction site; other site 1232381001691 16S rRNA interaction site [nucleotide binding]; other site 1232381001692 streptomycin interaction site [chemical binding]; other site 1232381001693 23S rRNA interaction site [nucleotide binding]; other site 1232381001694 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1232381001695 30S ribosomal protein S7; Validated; Region: PRK05302 1232381001696 elongation factor G; Reviewed; Region: PRK00007 1232381001697 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1232381001698 G1 box; other site 1232381001699 putative GEF interaction site [polypeptide binding]; other site 1232381001700 GTP/Mg2+ binding site [chemical binding]; other site 1232381001701 Switch I region; other site 1232381001702 G2 box; other site 1232381001703 G3 box; other site 1232381001704 Switch II region; other site 1232381001705 G4 box; other site 1232381001706 G5 box; other site 1232381001707 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 1232381001708 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 1232381001709 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 1232381001710 elongation factor Tu; Reviewed; Region: PRK00049 1232381001711 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1232381001712 G1 box; other site 1232381001713 GEF interaction site [polypeptide binding]; other site 1232381001714 GTP/Mg2+ binding site [chemical binding]; other site 1232381001715 Switch I region; other site 1232381001716 G2 box; other site 1232381001717 G3 box; other site 1232381001718 Switch II region; other site 1232381001719 G4 box; other site 1232381001720 G5 box; other site 1232381001721 EFTU_II: Elongation factor Tu domain II. Elongation factors Tu (EF-Tu) are three-domain GTPases with an essential function in the elongation phase of mRNA translation. The GTPase center of EF-Tu is in the N-terminal domain (domain I), also known as the...; Region: EFTU_II; cd03697 1232381001722 Domain III of elongation factor (EF) Tu. Ef-Tu consists of three structural domains, designated I, II and III. Domain III adopts a beta barrel structure. Domain III is involved in binding to both charged tRNA and binding to elongation factor Ts (EF-Ts); Region: EFTU_III; cd03707 1232381001723 Antibiotic Binding Site [chemical binding]; other site 1232381001724 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1232381001725 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1232381001726 Walker A/P-loop; other site 1232381001727 ATP binding site [chemical binding]; other site 1232381001728 Q-loop/lid; other site 1232381001729 ABC transporter signature motif; other site 1232381001730 Walker B; other site 1232381001731 D-loop; other site 1232381001732 H-loop/switch region; other site 1232381001733 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 1232381001734 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 1232381001735 ABC-ATPase subunit interface; other site 1232381001736 dimer interface [polypeptide binding]; other site 1232381001737 putative PBP binding regions; other site 1232381001738 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 1232381001739 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 1232381001740 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 1232381001741 ABC-ATPase subunit interface; other site 1232381001742 dimer interface [polypeptide binding]; other site 1232381001743 putative PBP binding regions; other site 1232381001744 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1232381001745 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 1232381001746 conserved cys residue [active] 1232381001747 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1232381001748 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 1232381001749 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 1232381001750 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 1232381001751 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1232381001752 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1232381001753 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1232381001754 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1232381001755 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1232381001756 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1232381001757 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1232381001758 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1232381001759 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 1232381001760 putative translocon binding site; other site 1232381001761 protein-rRNA interface [nucleotide binding]; other site 1232381001762 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1232381001763 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 1232381001764 G-X-X-G motif; other site 1232381001765 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1232381001766 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 1232381001767 23S rRNA interface [nucleotide binding]; other site 1232381001768 5S rRNA interface [nucleotide binding]; other site 1232381001769 putative antibiotic binding site [chemical binding]; other site 1232381001770 L25 interface [polypeptide binding]; other site 1232381001771 L27 interface [polypeptide binding]; other site 1232381001772 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 1232381001773 putative translocon interaction site; other site 1232381001774 23S rRNA interface [nucleotide binding]; other site 1232381001775 signal recognition particle (SRP54) interaction site; other site 1232381001776 L23 interface [polypeptide binding]; other site 1232381001777 trigger factor interaction site; other site 1232381001778 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1232381001779 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1232381001780 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1232381001781 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1232381001782 RNA binding site [nucleotide binding]; other site 1232381001783 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1232381001784 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1232381001785 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1232381001786 SEST_like. A family of secreted SGNH-hydrolases similar to Streptomyces scabies esterase (SEST), a causal agent of the potato scab disease, which hydrolyzes a specific ester bond in suberin, a plant lipid. The tertiary fold of this enzyme is...; Region: SEST_like; cd01823 1232381001787 active site 1232381001788 catalytic triad [active] 1232381001789 oxyanion hole [active] 1232381001790 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 1232381001791 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1232381001792 active site 1232381001793 catalytic tetrad [active] 1232381001794 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 1232381001795 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 1232381001796 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 1232381001797 putative molybdopterin cofactor binding site [chemical binding]; other site 1232381001798 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 1232381001799 putative molybdopterin cofactor binding site; other site 1232381001800 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1232381001801 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1232381001802 Walker A/P-loop; other site 1232381001803 ATP binding site [chemical binding]; other site 1232381001804 Q-loop/lid; other site 1232381001805 ABC transporter signature motif; other site 1232381001806 Walker B; other site 1232381001807 D-loop; other site 1232381001808 H-loop/switch region; other site 1232381001809 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1232381001810 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1232381001811 Walker A/P-loop; other site 1232381001812 ATP binding site [chemical binding]; other site 1232381001813 Q-loop/lid; other site 1232381001814 ABC transporter signature motif; other site 1232381001815 Walker B; other site 1232381001816 D-loop; other site 1232381001817 H-loop/switch region; other site 1232381001818 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 1232381001819 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cd00688 1232381001820 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 1232381001821 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1232381001822 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1232381001823 Coenzyme A binding pocket [chemical binding]; other site 1232381001824 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1232381001825 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1232381001826 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1232381001827 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1232381001828 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 1232381001829 5S rRNA interface [nucleotide binding]; other site 1232381001830 L27 interface [polypeptide binding]; other site 1232381001831 23S rRNA interface [nucleotide binding]; other site 1232381001832 L5 interface [polypeptide binding]; other site 1232381001833 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1232381001834 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1232381001835 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1232381001836 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 1232381001837 23S rRNA binding site [nucleotide binding]; other site 1232381001838 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1232381001839 metabolite-proton symporter; Region: 2A0106; TIGR00883 1232381001840 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381001841 putative substrate translocation pore; other site 1232381001842 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1232381001843 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 1232381001844 acyl-activating enzyme (AAE) consensus motif; other site 1232381001845 AMP binding site [chemical binding]; other site 1232381001846 active site 1232381001847 CoA binding site [chemical binding]; other site 1232381001848 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1232381001849 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1232381001850 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 1232381001851 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 1232381001852 CoenzymeA binding site [chemical binding]; other site 1232381001853 subunit interaction site [polypeptide binding]; other site 1232381001854 PHB binding site; other site 1232381001855 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 1232381001856 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 1232381001857 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 1232381001858 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 1232381001859 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 1232381001860 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 1232381001861 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 1232381001862 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 1232381001863 FAD binding pocket [chemical binding]; other site 1232381001864 FAD binding motif [chemical binding]; other site 1232381001865 phosphate binding motif [ion binding]; other site 1232381001866 beta-alpha-beta structure motif; other site 1232381001867 NAD(p) ribose binding residues [chemical binding]; other site 1232381001868 NAD binding pocket [chemical binding]; other site 1232381001869 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 1232381001870 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 1232381001871 catalytic loop [active] 1232381001872 iron binding site [ion binding]; other site 1232381001873 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1232381001874 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 1232381001875 substrate binding site [chemical binding]; other site 1232381001876 oxyanion hole (OAH) forming residues; other site 1232381001877 trimer interface [polypeptide binding]; other site 1232381001878 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 1232381001879 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 1232381001880 dimer interface [polypeptide binding]; other site 1232381001881 active site 1232381001882 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 1232381001883 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 1232381001884 substrate binding site [chemical binding]; other site 1232381001885 oxyanion hole (OAH) forming residues; other site 1232381001886 trimer interface [polypeptide binding]; other site 1232381001887 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 1232381001888 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1232381001889 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1232381001890 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 1232381001891 CoenzymeA binding site [chemical binding]; other site 1232381001892 subunit interaction site [polypeptide binding]; other site 1232381001893 PHB binding site; other site 1232381001894 bifunctional aldehyde dehydrogenase/enoyl-CoA hydratase; Provisional; Region: PRK11563 1232381001895 N-terminal domain of the monoamine oxidase C dehydratase; Region: ALDH_MaoC-N; cd07128 1232381001896 substrate binding site [chemical binding]; other site 1232381001897 dimer interface [polypeptide binding]; other site 1232381001898 NADP binding site [chemical binding]; other site 1232381001899 catalytic residues [active] 1232381001900 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 1232381001901 active site 2 [active] 1232381001902 active site 1 [active] 1232381001903 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1232381001904 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like and related proteins; Region: ALDH_CddD-AldA-like; cd07089 1232381001905 NAD binding site [chemical binding]; other site 1232381001906 catalytic residues [active] 1232381001907 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1232381001908 Zn2+ binding site [ion binding]; other site 1232381001909 Mg2+ binding site [ion binding]; other site 1232381001910 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 1232381001911 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1232381001912 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1232381001913 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1232381001914 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 1232381001915 catalytic loop [active] 1232381001916 iron binding site [ion binding]; other site 1232381001917 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1232381001918 classical (c) SDRs; Region: SDR_c; cd05233 1232381001919 NAD(P) binding site [chemical binding]; other site 1232381001920 active site 1232381001921 hypothetical protein; Provisional; Region: PRK08296 1232381001922 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1232381001923 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1232381001924 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1232381001925 Cytochrome P450; Region: p450; cl12078 1232381001926 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1232381001927 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1232381001928 Bacterial transcriptional regulator; Region: IclR; pfam01614 1232381001929 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1232381001930 SecY translocase; Region: SecY; pfam00344 1232381001931 adenylate kinase; Reviewed; Region: adk; PRK00279 1232381001932 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 1232381001933 AMP-binding site [chemical binding]; other site 1232381001934 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1232381001935 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 1232381001936 active site 1232381001937 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1232381001938 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1232381001939 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 1232381001940 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1232381001941 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1232381001942 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1232381001943 Right handed beta helix region; Region: Beta_helix; pfam13229 1232381001944 Right handed beta helix region; Region: Beta_helix; pfam13229 1232381001945 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 1232381001946 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1232381001947 NAD binding site [chemical binding]; other site 1232381001948 homodimer interface [polypeptide binding]; other site 1232381001949 active site 1232381001950 substrate binding site [chemical binding]; other site 1232381001951 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 1232381001952 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 1232381001953 DXD motif; other site 1232381001954 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1232381001955 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1232381001956 NAD(P) binding site [chemical binding]; other site 1232381001957 active site 1232381001958 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 1232381001959 rRNA binding site [nucleotide binding]; other site 1232381001960 predicted 30S ribosome binding site; other site 1232381001961 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 1232381001962 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1232381001963 30S ribosomal protein S11; Validated; Region: PRK05309 1232381001964 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1232381001965 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1232381001966 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 1232381001967 RNA binding surface [nucleotide binding]; other site 1232381001968 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1232381001969 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1232381001970 alphaNTD - beta interaction site [polypeptide binding]; other site 1232381001971 alphaNTD homodimer interface [polypeptide binding]; other site 1232381001972 alphaNTD - beta' interaction site [polypeptide binding]; other site 1232381001973 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1232381001974 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1232381001975 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1232381001976 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1232381001977 dimerization interface 3.5A [polypeptide binding]; other site 1232381001978 active site 1232381001979 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1232381001980 type VII secretion protein EccB, Actinobacterial; Region: T7SS_EccB; TIGR03919 1232381001981 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1232381001982 FAD binding domain; Region: FAD_binding_4; pfam01565 1232381001983 Catalytic domain of glycoside hydrolase (GH) families 38 and 57, lactam utilization protein LamB/YcsF family proteins, YdjC-family proteins, and similar proteins; Region: GH38-57_N_LamB_YdjC_SF; cl17191 1232381001984 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 1232381001985 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 1232381001986 S-adenosylmethionine binding site [chemical binding]; other site 1232381001987 TIGR02611 family protein; Region: TIGR02611 1232381001988 type VII secretion-associated serine protease mycosin; Region: T7SS_mycosin; TIGR03921 1232381001989 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cd00306 1232381001990 active site 1232381001991 catalytic residues [active] 1232381001992 type VII secretion integral membrane protein EccD; Region: T7SS_EccD; TIGR03920 1232381001993 type VII secretion protein EccCa; Region: T7SS_EccC_a; TIGR03924 1232381001994 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1232381001995 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 1232381001996 catalytic residues [active] 1232381001997 catalytic nucleophile [active] 1232381001998 Recombinase; Region: Recombinase; pfam07508 1232381001999 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 1232381002000 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 1232381002001 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1232381002002 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 1232381002003 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1232381002004 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1232381002005 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 1232381002006 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 1232381002007 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 1232381002008 ATP binding site [chemical binding]; other site 1232381002009 putative Mg++ binding site [ion binding]; other site 1232381002010 Domain of unknown function (DUF4411); Region: DUF4411; pfam14367 1232381002011 Domain of unknown function (DUF955); Region: DUF955; cl01076 1232381002012 multiple promoter invertase; Provisional; Region: mpi; PRK13413 1232381002013 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1232381002014 catalytic residues [active] 1232381002015 catalytic nucleophile [active] 1232381002016 Presynaptic Site I dimer interface [polypeptide binding]; other site 1232381002017 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1232381002018 Synaptic Flat tetramer interface [polypeptide binding]; other site 1232381002019 Synaptic Site I dimer interface [polypeptide binding]; other site 1232381002020 DNA binding site [nucleotide binding] 1232381002021 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 1232381002022 DNA-binding interface [nucleotide binding]; DNA binding site 1232381002023 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1232381002024 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1232381002025 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1232381002026 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1232381002027 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1232381002028 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1232381002029 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1232381002030 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1232381002031 DDE superfamily endonuclease; Region: DDE_5; pfam13546 1232381002032 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1232381002033 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; cl17722 1232381002034 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1232381002035 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1232381002036 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1232381002037 Integrase core domain; Region: rve; pfam00665 1232381002038 Copper resistance protein D; Region: CopD; pfam05425 1232381002039 DDE domain; Region: DDE_Tnp_IS240; pfam13610 1232381002040 DNA polymerase I - 3'-5' exonuclease and polymerase domains [DNA replication, recombination, and repair]; Region: PolA; COG0749 1232381002041 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 1232381002042 active site 1232381002043 substrate binding site [chemical binding]; other site 1232381002044 catalytic site [active] 1232381002045 Family A polymerase primarily fills DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A; cl02626 1232381002046 active site 1232381002047 DNA binding site [nucleotide binding] 1232381002048 catalytic site [active] 1232381002049 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1232381002050 type VII secretion protein EccCb; Region: T7SS_EccC_b; TIGR03925 1232381002051 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1232381002052 type VII secretion-associated protein, Rv3446c family, C-terminal domain; Region: T7SS_Rv3446c; TIGR03931 1232381002053 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4842 1232381002054 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4842 1232381002055 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 1232381002056 23S rRNA interface [nucleotide binding]; other site 1232381002057 L3 interface [polypeptide binding]; other site 1232381002058 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1232381002059 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14318 1232381002060 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 1232381002061 active site 1232381002062 substrate binding site [chemical binding]; other site 1232381002063 metal binding site [ion binding]; metal-binding site 1232381002064 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1232381002065 alanine racemase; Reviewed; Region: alr; PRK00053 1232381002066 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 1232381002067 active site 1232381002068 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1232381002069 dimer interface [polypeptide binding]; other site 1232381002070 substrate binding site [chemical binding]; other site 1232381002071 catalytic residues [active] 1232381002072 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 1232381002073 Predicted permease [General function prediction only]; Region: COG2985 1232381002074 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 1232381002075 TrkA-C domain; Region: TrkA_C; pfam02080 1232381002076 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 1232381002077 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 1232381002078 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 1232381002079 Glycoprotease family; Region: Peptidase_M22; pfam00814 1232381002080 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1232381002081 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1232381002082 Coenzyme A binding pocket [chemical binding]; other site 1232381002083 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1232381002084 UGMP family protein; Validated; Region: PRK09604 1232381002085 Uncharacterized conserved protein [Function unknown]; Region: COG0062 1232381002086 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 1232381002087 putative substrate binding site [chemical binding]; other site 1232381002088 putative ATP binding site [chemical binding]; other site 1232381002089 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 1232381002090 oligomerisation interface [polypeptide binding]; other site 1232381002091 mobile loop; other site 1232381002092 roof hairpin; other site 1232381002093 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1232381002094 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 1232381002095 ring oligomerisation interface [polypeptide binding]; other site 1232381002096 ATP/Mg binding site [chemical binding]; other site 1232381002097 stacking interactions; other site 1232381002098 hinge regions; other site 1232381002099 Transcription factor WhiB; Region: Whib; pfam02467 1232381002100 RNA polymerase sigma factor SigD; Reviewed; Region: PRK09648 1232381002101 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1232381002102 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 1232381002103 DNA binding residues [nucleotide binding] 1232381002104 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1232381002105 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 1232381002106 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 1232381002107 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 1232381002108 active site 1232381002109 IMP dehydrogenase family protein; Region: IMP_DH_rel_2; TIGR01304 1232381002110 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 1232381002111 phosphate binding site [ion binding]; other site 1232381002112 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 1232381002113 EamA-like transporter family; Region: EamA; pfam00892 1232381002114 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1232381002115 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1232381002116 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_6; cd08423 1232381002117 putative dimerization interface [polypeptide binding]; other site 1232381002118 GMP synthase; Reviewed; Region: guaA; PRK00074 1232381002119 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1232381002120 AMP/PPi binding site [chemical binding]; other site 1232381002121 candidate oxyanion hole; other site 1232381002122 catalytic triad [active] 1232381002123 potential glutamine specificity residues [chemical binding]; other site 1232381002124 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 1232381002125 ATP Binding subdomain [chemical binding]; other site 1232381002126 Ligand Binding sites [chemical binding]; other site 1232381002127 Dimerization subdomain; other site 1232381002128 Putative stress-responsive transcriptional regulator [Transcription / Signal transduction mechanisms]; Region: PspC; COG1983 1232381002129 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 1232381002130 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1232381002131 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1232381002132 ATP binding site [chemical binding]; other site 1232381002133 Mg2+ binding site [ion binding]; other site 1232381002134 G-X-G motif; other site 1232381002135 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1232381002136 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1232381002137 active site 1232381002138 phosphorylation site [posttranslational modification] 1232381002139 intermolecular recognition site; other site 1232381002140 dimerization interface [polypeptide binding]; other site 1232381002141 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 1232381002142 dimerization interface [polypeptide binding]; other site 1232381002143 DNA binding residues [nucleotide binding] 1232381002144 DNA Polymerase Y-family; Region: PolY_like; cd03468 1232381002145 active site 1232381002146 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 1232381002147 DNA binding site [nucleotide binding] 1232381002148 TRX-like [2Fe-2S] Ferredoxin (Fd) family, Sucrase subfamily; composed of proteins with similarity to a novel plant enzyme, isolated from potato, which contains a Fd-like domain and exhibits sucrolytic activity. The putative active site of the Fd-like...; Region: TRX_Fd_Sucrase; cd03062 1232381002149 putative dimer interface [polypeptide binding]; other site 1232381002150 putative [2Fe-2S] cluster binding site [ion binding]; other site 1232381002151 prenyltransferase; Reviewed; Region: ubiA; PRK13105 1232381002152 UbiA prenyltransferase family; Region: UbiA; pfam01040 1232381002153 lycopene cyclase domain; Region: CarR_dom_SF; TIGR03462 1232381002154 lycopene cyclase domain; Region: CarR_dom_SF; TIGR03462 1232381002155 phytoene desaturase; Region: crtI_fam; TIGR02734 1232381002156 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1232381002157 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 1232381002158 active site lid residues [active] 1232381002159 substrate binding pocket [chemical binding]; other site 1232381002160 catalytic residues [active] 1232381002161 substrate-Mg2+ binding site; other site 1232381002162 aspartate-rich region 1; other site 1232381002163 aspartate-rich region 2; other site 1232381002164 MMPL family; Region: MMPL; pfam03176 1232381002165 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1232381002166 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1232381002167 substrate binding pocket [chemical binding]; other site 1232381002168 chain length determination region; other site 1232381002169 substrate-Mg2+ binding site; other site 1232381002170 catalytic residues [active] 1232381002171 aspartate-rich region 1; other site 1232381002172 active site lid residues [active] 1232381002173 aspartate-rich region 2; other site 1232381002174 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1232381002175 MarR family; Region: MarR_2; pfam12802 1232381002176 Bacterial lipocalin [Cell envelope biogenesis, outer membrane]; Region: Blc; COG3040 1232381002177 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 1232381002178 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1232381002179 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1232381002180 NAD(P) binding site [chemical binding]; other site 1232381002181 active site 1232381002182 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 1232381002183 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 1232381002184 DNA photolyase; Region: DNA_photolyase; pfam00875 1232381002185 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1232381002186 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 1232381002187 active site 1232381002188 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 1232381002189 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 1232381002190 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1232381002191 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1232381002192 Walker A/P-loop; other site 1232381002193 ATP binding site [chemical binding]; other site 1232381002194 Q-loop/lid; other site 1232381002195 ABC transporter signature motif; other site 1232381002196 Walker B; other site 1232381002197 D-loop; other site 1232381002198 H-loop/switch region; other site 1232381002199 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1232381002200 dimer interface [polypeptide binding]; other site 1232381002201 conserved gate region; other site 1232381002202 putative PBP binding loops; other site 1232381002203 ABC-ATPase subunit interface; other site 1232381002204 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 1232381002205 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1232381002206 Walker A/P-loop; other site 1232381002207 ATP binding site [chemical binding]; other site 1232381002208 Q-loop/lid; other site 1232381002209 ABC transporter signature motif; other site 1232381002210 Walker B; other site 1232381002211 D-loop; other site 1232381002212 H-loop/switch region; other site 1232381002213 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 1232381002214 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1232381002215 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1232381002216 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 1232381002217 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; Region: PHP_PolIIIA; cd07431 1232381002218 active site 1232381002219 PHP Thumb interface [polypeptide binding]; other site 1232381002220 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 1232381002221 generic binding surface II; other site 1232381002222 generic binding surface I; other site 1232381002223 Uncharacterized conserved protein [Function unknown]; Region: COG3402 1232381002224 Predicted membrane protein [Function unknown]; Region: COG3428 1232381002225 Bacterial PH domain; Region: DUF304; pfam03703 1232381002226 Bacterial PH domain; Region: DUF304; cl01348 1232381002227 Bacterial PH domain; Region: DUF304; pfam03703 1232381002228 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 1232381002229 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 1232381002230 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 1232381002231 FeoA domain; Region: FeoA; pfam04023 1232381002232 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 1232381002233 NAD-dependent deacetylase; Provisional; Region: PRK00481 1232381002234 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 1232381002235 NAD+ binding site [chemical binding]; other site 1232381002236 substrate binding site [chemical binding]; other site 1232381002237 Zn binding site [ion binding]; other site 1232381002238 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 1232381002239 nucleoside/Zn binding site; other site 1232381002240 dimer interface [polypeptide binding]; other site 1232381002241 catalytic motif [active] 1232381002242 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 1232381002243 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1232381002244 siderophore binding site; other site 1232381002245 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 1232381002246 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14193 1232381002247 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1232381002248 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1232381002249 homodimer interface [polypeptide binding]; other site 1232381002250 NADP binding site [chemical binding]; other site 1232381002251 substrate binding site [chemical binding]; other site 1232381002252 Protein of unknown function (DUF3017); Region: DUF3017; pfam11222 1232381002253 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 1232381002254 Band_7_flotillin: a subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. These two proteins are lipid raft-associated. Individual proteins of...; Region: Band_7_flotillin; cd03399 1232381002255 GrpE is the adenine nucleotide exchange factor of DnaK (Hsp70)-type ATPases. The GrpE dimer binds to the ATPase domain of Hsp70 catalyzing the dissociation of ADP, which enables rebinding of ATP, one step in the Hsp70 reaction cycle in protein folding; Region: GrpE; cl03075 1232381002256 Protein of unknown function (DUF3500); Region: DUF3500; pfam12006 1232381002257 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1232381002258 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1232381002259 The 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 1232381002260 dimerization interface [polypeptide binding]; other site 1232381002261 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381002262 metabolite-proton symporter; Region: 2A0106; TIGR00883 1232381002263 putative substrate translocation pore; other site 1232381002264 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1232381002265 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1232381002266 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 1232381002267 putative substrate binding pocket [chemical binding]; other site 1232381002268 dimerization interface [polypeptide binding]; other site 1232381002269 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 1232381002270 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1232381002271 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 1232381002272 homotrimer interaction site [polypeptide binding]; other site 1232381002273 putative active site [active] 1232381002274 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 1232381002275 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1232381002276 M20 Peptidase Aminoacylase 1-like protein 2-like, amidohydrolase subfamily; Region: M20_ACY1L2_like; cd05672 1232381002277 metal binding site [ion binding]; metal-binding site 1232381002278 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 1232381002279 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 1232381002280 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK05613 1232381002281 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 1232381002282 homodimer interface [polypeptide binding]; other site 1232381002283 substrate-cofactor binding pocket; other site 1232381002284 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1232381002285 catalytic residue [active] 1232381002286 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 1232381002287 Carbon starvation protein CstA; Region: CstA; pfam02554 1232381002288 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 1232381002289 Protein of unknown function (DUF466); Region: DUF466; pfam04328 1232381002290 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 1232381002291 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1232381002292 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 1232381002293 tetramer interface [polypeptide binding]; other site 1232381002294 active site 1232381002295 Mg2+/Mn2+ binding site [ion binding]; other site 1232381002296 citrate synthase; Provisional; Region: PRK14033 1232381002297 Cold-active citrate synthase (CS) from an Antarctic bacterial strain DS2-3R (Ds)-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...; Region: DsCS_like; cd06111 1232381002298 dimer interface [polypeptide binding]; other site 1232381002299 active site 1232381002300 citrylCoA binding site [chemical binding]; other site 1232381002301 oxalacetate/citrate binding site [chemical binding]; other site 1232381002302 coenzyme A binding site [chemical binding]; other site 1232381002303 catalytic triad [active] 1232381002304 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1232381002305 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 1232381002306 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1232381002307 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1232381002308 DNA-binding site [nucleotide binding]; DNA binding site 1232381002309 FCD domain; Region: FCD; pfam07729 1232381002310 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 1232381002311 Citrate transporter; Region: CitMHS; pfam03600 1232381002312 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1232381002313 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 1232381002314 NAD(P) binding site [chemical binding]; other site 1232381002315 catalytic residues [active] 1232381002316 Cupin domain; Region: Cupin_2; pfam07883 1232381002317 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 1232381002318 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 1232381002319 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 1232381002320 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 1232381002321 FAD binding pocket [chemical binding]; other site 1232381002322 FAD binding motif [chemical binding]; other site 1232381002323 phosphate binding motif [ion binding]; other site 1232381002324 NAD binding pocket [chemical binding]; other site 1232381002325 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1232381002326 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1232381002327 Walker A/P-loop; other site 1232381002328 ATP binding site [chemical binding]; other site 1232381002329 Q-loop/lid; other site 1232381002330 ABC transporter signature motif; other site 1232381002331 Walker B; other site 1232381002332 D-loop; other site 1232381002333 H-loop/switch region; other site 1232381002334 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 1232381002335 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 1232381002336 ABC-ATPase subunit interface; other site 1232381002337 dimer interface [polypeptide binding]; other site 1232381002338 putative PBP binding regions; other site 1232381002339 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1232381002340 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 1232381002341 ABC-ATPase subunit interface; other site 1232381002342 dimer interface [polypeptide binding]; other site 1232381002343 putative PBP binding regions; other site 1232381002344 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 1232381002345 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1232381002346 siderophore binding site; other site 1232381002347 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1232381002348 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381002349 putative substrate translocation pore; other site 1232381002350 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1232381002351 putative catalytic site [active] 1232381002352 putative metal binding site [ion binding]; other site 1232381002353 putative phosphate binding site [ion binding]; other site 1232381002354 Predicted membrane protein [Function unknown]; Region: COG2860 1232381002355 UPF0126 domain; Region: UPF0126; pfam03458 1232381002356 UPF0126 domain; Region: UPF0126; pfam03458 1232381002357 Integrase core domain; Region: rve; pfam00665 1232381002358 Integrase core domain; Region: rve_3; pfam13683 1232381002359 hypothetical protein; Validated; Region: PRK09039 1232381002360 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 1232381002361 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1232381002362 intersubunit interface [polypeptide binding]; other site 1232381002363 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1232381002364 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1232381002365 Walker A/P-loop; other site 1232381002366 ATP binding site [chemical binding]; other site 1232381002367 Q-loop/lid; other site 1232381002368 ABC transporter signature motif; other site 1232381002369 Walker B; other site 1232381002370 D-loop; other site 1232381002371 H-loop/switch region; other site 1232381002372 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1232381002373 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 1232381002374 ABC-ATPase subunit interface; other site 1232381002375 dimer interface [polypeptide binding]; other site 1232381002376 putative PBP binding regions; other site 1232381002377 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1232381002378 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1232381002379 active site 1232381002380 HIGH motif; other site 1232381002381 dimer interface [polypeptide binding]; other site 1232381002382 KMSKS motif; other site 1232381002383 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 1232381002384 RDD family; Region: RDD; pfam06271 1232381002385 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1232381002386 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1232381002387 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1232381002388 NlpC/P60 family; Region: NLPC_P60; pfam00877 1232381002389 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1232381002390 active site 1232381002391 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1232381002392 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 1232381002393 non-specific DNA binding site [nucleotide binding]; other site 1232381002394 salt bridge; other site 1232381002395 sequence-specific DNA binding site [nucleotide binding]; other site 1232381002396 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1232381002397 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 1232381002398 active site 1232381002399 substrate binding site [chemical binding]; other site 1232381002400 metal binding site [ion binding]; metal-binding site 1232381002401 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1232381002402 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like4; cd08014 1232381002403 metal binding site [ion binding]; metal-binding site 1232381002404 putative dimer interface [polypeptide binding]; other site 1232381002405 flavoprotein disulfide reductase; Reviewed; Region: PRK07845 1232381002406 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1232381002407 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1232381002408 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1232381002409 pyruvate carboxylase; Reviewed; Region: PRK12999 1232381002410 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1232381002411 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1232381002412 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1232381002413 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 1232381002414 active site 1232381002415 catalytic residues [active] 1232381002416 metal binding site [ion binding]; metal-binding site 1232381002417 homodimer binding site [polypeptide binding]; other site 1232381002418 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 1232381002419 carboxyltransferase (CT) interaction site; other site 1232381002420 biotinylation site [posttranslational modification]; other site 1232381002421 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 1232381002422 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1232381002423 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 1232381002424 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 1232381002425 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1232381002426 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1232381002427 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 1232381002428 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 1232381002429 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 1232381002430 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1232381002431 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 1232381002432 tetramer interface [polypeptide binding]; other site 1232381002433 active site 1232381002434 Mg2+/Mn2+ binding site [ion binding]; other site 1232381002435 citrate synthase; Provisional; Region: PRK14033 1232381002436 Cold-active citrate synthase (CS) from an Antarctic bacterial strain DS2-3R (Ds)-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...; Region: DsCS_like; cd06111 1232381002437 dimer interface [polypeptide binding]; other site 1232381002438 active site 1232381002439 citrylCoA binding site [chemical binding]; other site 1232381002440 oxalacetate/citrate binding site [chemical binding]; other site 1232381002441 coenzyme A binding site [chemical binding]; other site 1232381002442 catalytic triad [active] 1232381002443 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1232381002444 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 1232381002445 non-specific DNA binding site [nucleotide binding]; other site 1232381002446 salt bridge; other site 1232381002447 sequence-specific DNA binding site [nucleotide binding]; other site 1232381002448 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 1232381002449 Domain of unknown function (DUF955); Region: DUF955; pfam06114 1232381002450 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 1232381002451 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 1232381002452 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1232381002453 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1232381002454 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1232381002455 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 1232381002456 carboxyltransferase (CT) interaction site; other site 1232381002457 biotinylation site [posttranslational modification]; other site 1232381002458 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 1232381002459 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 1232381002460 active site residue [active] 1232381002461 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 1232381002462 active site residue [active] 1232381002463 Protein of unknown function (DUF3151); Region: DUF3151; pfam11349 1232381002464 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1232381002465 Maf-like protein; Region: Maf; pfam02545 1232381002466 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 1232381002467 active site 1232381002468 dimer interface [polypeptide binding]; other site 1232381002469 Acyl-CoA carboxylase epsilon subunit; Region: ACC_epsilon; pfam13822 1232381002470 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 1232381002471 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1232381002472 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1232381002473 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 1232381002474 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1232381002475 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1232381002476 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 1232381002477 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 1232381002478 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1232381002479 ATP-grasp domain; Region: ATP-grasp; pfam02222 1232381002480 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 1232381002481 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 1232381002482 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1232381002483 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 1232381002484 putative active site [active] 1232381002485 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 1232381002486 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 1232381002487 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 1232381002488 active site 1232381002489 non-prolyl cis peptide bond; other site 1232381002490 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08642 1232381002491 putative beta-ketoacyl acyl carrier protein [ACP]reductase (BKR), subgroup 2, classical (c) SDR; Region: BKR_2_SDR_c; cd05349 1232381002492 putative NAD(P) binding site [chemical binding]; other site 1232381002493 active site 1232381002494 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 1232381002495 RibD C-terminal domain; Region: RibD_C; cl17279 1232381002496 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_7; cd08353 1232381002497 putative dimer interface [polypeptide binding]; other site 1232381002498 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1232381002499 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1232381002500 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1232381002501 dimer interface [polypeptide binding]; other site 1232381002502 conserved gate region; other site 1232381002503 putative PBP binding loops; other site 1232381002504 ABC-ATPase subunit interface; other site 1232381002505 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1232381002506 dimer interface [polypeptide binding]; other site 1232381002507 conserved gate region; other site 1232381002508 putative PBP binding loops; other site 1232381002509 ABC-ATPase subunit interface; other site 1232381002510 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_8; cd08901 1232381002511 putative hydrophobic ligand binding site [chemical binding]; other site 1232381002512 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1232381002513 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1232381002514 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1232381002515 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1232381002516 Walker A/P-loop; other site 1232381002517 ATP binding site [chemical binding]; other site 1232381002518 Q-loop/lid; other site 1232381002519 ABC transporter signature motif; other site 1232381002520 Walker B; other site 1232381002521 D-loop; other site 1232381002522 H-loop/switch region; other site 1232381002523 TOBE domain; Region: TOBE_2; pfam08402 1232381002524 TIGR03089 family protein; Region: TIGR03089 1232381002525 Transcriptional regulator [Transcription]; Region: LytR; COG1316 1232381002526 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 1232381002527 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1232381002528 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 1232381002529 Probable Catalytic site; other site 1232381002530 metal-binding site 1232381002531 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 1232381002532 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 1232381002533 active site 1232381002534 Substrate binding site; other site 1232381002535 Mg++ binding site; other site 1232381002536 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 1232381002537 putative trimer interface [polypeptide binding]; other site 1232381002538 putative CoA binding site [chemical binding]; other site 1232381002539 Transcription factor WhiB; Region: Whib; pfam02467 1232381002540 Minimal MMP-like domain found in a group of hypothetical proteins from alphaproteobacteria and actinobacteria; Region: MMP_TTHA0227_like_1; cd12954 1232381002541 Protein of unknown function (DUF3499); Region: DUF3499; pfam12005 1232381002542 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 1232381002543 phosphomannomutase/phosphoglucomutase; Reviewed; Region: manB; PRK09542 1232381002544 active site 1232381002545 substrate binding site [chemical binding]; other site 1232381002546 metal binding site [ion binding]; metal-binding site 1232381002547 mannose-6-phosphate isomerase; Provisional; Region: PRK15131 1232381002548 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 1232381002549 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 1232381002550 Domain of unknown function (DUF4259); Region: DUF4259; pfam14078 1232381002551 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 1232381002552 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 1232381002553 homotetramer interface [polypeptide binding]; other site 1232381002554 ligand binding site [chemical binding]; other site 1232381002555 catalytic site [active] 1232381002556 NAD binding site [chemical binding]; other site 1232381002557 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 1232381002558 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 1232381002559 TMP-binding site; other site 1232381002560 ATP-binding site [chemical binding]; other site 1232381002561 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1232381002562 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1232381002563 active site 1232381002564 phosphorylation site [posttranslational modification] 1232381002565 intermolecular recognition site; other site 1232381002566 dimerization interface [polypeptide binding]; other site 1232381002567 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 1232381002568 DNA binding site [nucleotide binding] 1232381002569 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1232381002570 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 1232381002571 dimerization interface [polypeptide binding]; other site 1232381002572 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 1232381002573 dimer interface [polypeptide binding]; other site 1232381002574 phosphorylation site [posttranslational modification] 1232381002575 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1232381002576 ATP binding site [chemical binding]; other site 1232381002577 Mg2+ binding site [ion binding]; other site 1232381002578 G-X-G motif; other site 1232381002579 lipoprotein LpqB; Provisional; Region: PRK13616 1232381002580 Sporulation and spore germination; Region: Germane; pfam10646 1232381002581 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 1232381002582 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1232381002583 active site 1232381002584 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 1232381002585 30S subunit binding site; other site 1232381002586 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1232381002587 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 1232381002588 ATP binding site [chemical binding]; other site 1232381002589 putative Mg++ binding site [ion binding]; other site 1232381002590 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1232381002591 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 1232381002592 nucleotide binding region [chemical binding]; other site 1232381002593 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 1232381002594 REG-2-like, HAD superfamily (subfamily IA) hydrolase; Region: DREG-2; TIGR02252 1232381002595 Predicted GTPases [General function prediction only]; Region: COG1162 1232381002596 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1232381002597 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1232381002598 GTP/Mg2+ binding site [chemical binding]; other site 1232381002599 G4 box; other site 1232381002600 G1 box; other site 1232381002601 Switch I region; other site 1232381002602 G2 box; other site 1232381002603 G3 box; other site 1232381002604 Switch II region; other site 1232381002605 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1232381002606 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 1232381002607 active site 1232381002608 hinge; other site 1232381002609 Uncharacterized conserved protein [Function unknown]; Region: COG2135 1232381002610 RNA polymerase sigma-70 factor, TIGR02947 family; Region: SigH_actino 1232381002611 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1232381002612 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 1232381002613 DNA binding residues [nucleotide binding] 1232381002614 mycothiol system anti-sigma-R factor; Region: antisig_RsrA; TIGR03988 1232381002615 Transcription factor WhiB; Region: Whib; pfam02467 1232381002616 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 1232381002617 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1232381002618 ATP binding site [chemical binding]; other site 1232381002619 Mg++ binding site [ion binding]; other site 1232381002620 motif III; other site 1232381002621 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 1232381002622 nucleotide binding region [chemical binding]; other site 1232381002623 ATP-binding site [chemical binding]; other site 1232381002624 Protein of unknown function (DUF3107); Region: DUF3107; pfam11305 1232381002625 Protein of unknown function (DUF3152); Region: DUF3152; pfam11350 1232381002626 TIGR02569 family protein; Region: TIGR02569_actnb 1232381002627 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1232381002628 RecB family exonuclease [DNA replication, recombination, and repair]; Region: COG2887 1232381002629 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1232381002630 Family description; Region: UvrD_C_2; pfam13538 1232381002631 RecB family exonuclease [DNA replication, recombination, and repair]; Region: COG2887 1232381002632 Ion channel; Region: Ion_trans_2; pfam07885 1232381002633 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 1232381002634 TrkA-N domain; Region: TrkA_N; pfam02254 1232381002635 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]; Region: NPY1; COG2816 1232381002636 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 1232381002637 putative NADH binding site [chemical binding]; other site 1232381002638 putative active site [active] 1232381002639 nudix motif; other site 1232381002640 putative metal binding site [ion binding]; other site 1232381002641 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1232381002642 Part of AAA domain; Region: AAA_19; pfam13245 1232381002643 Family description; Region: UvrD_C_2; pfam13538 1232381002644 HRDC domain; Region: HRDC; pfam00570 1232381002645 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 1232381002646 Uncharacterized conserved protein [Function unknown]; Region: COG5282 1232381002647 uncharacterized protein, coenzyme F420 biosynthesis associated; Region: DUF2342_F420; TIGR03883 1232381002648 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 1232381002649 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 1232381002650 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1232381002651 hypothetical protein; Validated; Region: PRK00068 1232381002652 Uncharacterized conserved protein [Function unknown]; Region: COG1615 1232381002653 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 1232381002654 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1232381002655 DNA-binding site [nucleotide binding]; DNA binding site 1232381002656 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 1232381002657 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1232381002658 homodimer interface [polypeptide binding]; other site 1232381002659 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 1232381002660 PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some...; Region: pdxS; cd04727 1232381002661 active site 1232381002662 multimer interface [polypeptide binding]; other site 1232381002663 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 1232381002664 predicted active site [active] 1232381002665 catalytic triad [active] 1232381002666 SdpI/YhfL protein family; Region: SdpI; pfam13630 1232381002667 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 1232381002668 substrate binding sites [chemical binding]; other site 1232381002669 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1232381002670 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 1232381002671 active site 1232381002672 Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1; Region: IMPase_like; cd01637 1232381002673 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1232381002674 active site 1232381002675 peptide chain release factor 2; Validated; Region: prfB; PRK00578 1232381002676 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1232381002677 RF-1 domain; Region: RF-1; pfam00472 1232381002678 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1232381002679 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1232381002680 Walker A/P-loop; other site 1232381002681 ATP binding site [chemical binding]; other site 1232381002682 Q-loop/lid; other site 1232381002683 ABC transporter signature motif; other site 1232381002684 Walker B; other site 1232381002685 D-loop; other site 1232381002686 H-loop/switch region; other site 1232381002687 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 1232381002688 FtsX-like permease family; Region: FtsX; pfam02687 1232381002689 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 1232381002690 SmpB-tmRNA interface; other site 1232381002691 Uncharacterized conserved protein [Function unknown]; Region: COG3189 1232381002692 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 1232381002693 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 1232381002694 active site 1232381002695 catalytic residues [active] 1232381002696 DNA binding site [nucleotide binding] 1232381002697 Int/Topo IB signature motif; other site 1232381002698 Helix-turn-helix domain; Region: HTH_17; cl17695 1232381002699 Prim_Pol: Primase-polymerase (primpol) domain of the type found in bifunctional replicases from archaeal plasmids, including ORF904 protein of the crenarchaeal plasmid pRN1 from Sulfolobus islandicus (pRN1 primpol). These primpol domains belong to the...; Region: Prim_Pol; cd04859 1232381002700 polymerase nucleotide-binding site; other site 1232381002701 DNA-binding residues [nucleotide binding]; DNA binding site 1232381002702 nucleotide binding site [chemical binding]; other site 1232381002703 primase nucleotide-binding site [nucleotide binding]; other site 1232381002704 Primase C terminal 1 (PriCT-1); Region: PriCT_1; smart00942 1232381002705 Virulence-associated protein E; Region: VirE; pfam05272 1232381002706 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1232381002707 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 1232381002708 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1232381002709 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1232381002710 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1232381002711 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 1232381002712 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 1232381002713 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria and archaea; Region: GIY-YIG_unchar_2; cd10447 1232381002714 GIY-YIG motif/motif A; other site 1232381002715 putative active site [active] 1232381002716 putative metal binding site [ion binding]; other site 1232381002717 Domain of unknown function (DUF4357); Region: DUF4357; pfam14267 1232381002718 P22_AR N-terminal domain; Region: P22_AR_N; pfam10547 1232381002719 cytidine deaminase; Validated; Region: PRK08298 1232381002720 active site 1232381002721 Zn binding site [ion binding]; other site 1232381002722 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1232381002723 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1232381002724 dimer interface [polypeptide binding]; other site 1232381002725 conserved gate region; other site 1232381002726 putative PBP binding loops; other site 1232381002727 ABC-ATPase subunit interface; other site 1232381002728 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1232381002729 dimer interface [polypeptide binding]; other site 1232381002730 conserved gate region; other site 1232381002731 putative PBP binding loops; other site 1232381002732 ABC-ATPase subunit interface; other site 1232381002733 maltose ABC transporter periplasmic protein; Reviewed; Region: malE; PRK09474 1232381002734 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1232381002735 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1232381002736 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1232381002737 Walker A/P-loop; other site 1232381002738 ATP binding site [chemical binding]; other site 1232381002739 Q-loop/lid; other site 1232381002740 ABC transporter signature motif; other site 1232381002741 Walker B; other site 1232381002742 D-loop; other site 1232381002743 H-loop/switch region; other site 1232381002744 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 1232381002745 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 1232381002746 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 1232381002747 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 1232381002748 cofactor binding site; other site 1232381002749 DNA binding site [nucleotide binding] 1232381002750 substrate interaction site [chemical binding]; other site 1232381002751 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 1232381002752 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 1232381002753 FAD binding pocket [chemical binding]; other site 1232381002754 FAD binding motif [chemical binding]; other site 1232381002755 phosphate binding motif [ion binding]; other site 1232381002756 NAD binding pocket [chemical binding]; other site 1232381002757 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 1232381002758 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1232381002759 siderophore binding site; other site 1232381002760 Vitamin K epoxide reductase family in bacteria; Region: VKOR_5; cd12922 1232381002761 putative active site [active] 1232381002762 redox center [active] 1232381002763 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 1232381002764 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 1232381002765 intersubunit interface [polypeptide binding]; other site 1232381002766 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1232381002767 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 1232381002768 ABC-ATPase subunit interface; other site 1232381002769 dimer interface [polypeptide binding]; other site 1232381002770 putative PBP binding regions; other site 1232381002771 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 1232381002772 ABC-ATPase subunit interface; other site 1232381002773 dimer interface [polypeptide binding]; other site 1232381002774 putative PBP binding regions; other site 1232381002775 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 1232381002776 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1232381002777 Walker A/P-loop; other site 1232381002778 ATP binding site [chemical binding]; other site 1232381002779 Q-loop/lid; other site 1232381002780 ABC transporter signature motif; other site 1232381002781 Walker B; other site 1232381002782 D-loop; other site 1232381002783 H-loop/switch region; other site 1232381002784 aminotransferase; Validated; Region: PRK07777 1232381002785 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 1232381002786 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1232381002787 homodimer interface [polypeptide binding]; other site 1232381002788 catalytic residue [active] 1232381002789 Protein of unknown function (DUF3239); Region: DUF3239; pfam11580 1232381002790 Helicase conserved C-terminal domain; Region: Helicase_C_3; pfam13625 1232381002791 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 1232381002792 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 1232381002793 ATP binding site [chemical binding]; other site 1232381002794 putative Mg++ binding site [ion binding]; other site 1232381002795 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1232381002796 Helicase conserved C-terminal domain; Region: Helicase_C_3; pfam13625 1232381002797 Transglycosylase-like domain; Region: Transglycosylas; pfam06737 1232381002798 Protein of unknown function (DUF3235); Region: DUF3235; pfam11574 1232381002799 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 1232381002800 DNA-binding site [nucleotide binding]; DNA binding site 1232381002801 RNA-binding motif; other site 1232381002802 Protein of unknown function (DUF2771); Region: DUF2771; pfam10969 1232381002803 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 1232381002804 substrate-cofactor binding pocket; other site 1232381002805 homodimer interface [polypeptide binding]; other site 1232381002806 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1232381002807 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 1232381002808 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1232381002809 catalytic residue [active] 1232381002810 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1232381002811 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1232381002812 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 1232381002813 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1232381002814 Protein of unknown function (DUF3071); Region: DUF3071; pfam11268 1232381002815 phosphoserine aminotransferase, putative; Region: serC_3; TIGR01366 1232381002816 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1232381002817 catalytic residue [active] 1232381002818 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 1232381002819 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1232381002820 dimer interface [polypeptide binding]; other site 1232381002821 active site 1232381002822 citrylCoA binding site [chemical binding]; other site 1232381002823 NADH binding [chemical binding]; other site 1232381002824 cationic pore residues; other site 1232381002825 oxalacetate/citrate binding site [chemical binding]; other site 1232381002826 coenzyme A binding site [chemical binding]; other site 1232381002827 catalytic triad [active] 1232381002828 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 1232381002829 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1232381002830 Acetyl-CoA carboxylase beta subunit [Lipid metabolism]; Region: AccD; COG0777 1232381002831 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1232381002832 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1232381002833 Predicted membrane protein [Function unknown]; Region: COG3162 1232381002834 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1232381002835 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 1232381002836 Na binding site [ion binding]; other site 1232381002837 Domain of unknown function (DUF1906); Region: DUF1906; pfam08924 1232381002838 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1232381002839 Enoyl reductase domain of yeast-type FAS1 [Lipid metabolism]; Region: COG4981 1232381002840 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 1232381002841 phosphate binding site [ion binding]; other site 1232381002842 Domain of unknown function (DUF1729); Region: DUF1729; pfam08354 1232381002843 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 1232381002844 active site 2 [active] 1232381002845 active site 1 [active] 1232381002846 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1232381002847 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1232381002848 3-oxoacyl-[acyl-carrier protein]; Region: COG4982 1232381002849 ketoacyl reductase (KR) domain of fungal-type fatty acid synthase (fFAS), classical (c)-like SDRs; Region: KR_fFAS_SDR_c_like; cd08950 1232381002850 putative NAD(P) binding site [chemical binding]; other site 1232381002851 active site 1232381002852 "elongating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type I and II and polyketide synthases.They are characterized by the utlization of acyl carrier protein (ACP)...; Region: elong_cond_enzymes; cd00828 1232381002853 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 1232381002854 active site 1232381002855 Septum formation; Region: Septum_form; pfam13845 1232381002856 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 1232381002857 hypothetical protein; Validated; Region: PRK07581 1232381002858 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 1232381002859 catalytic residues [active] 1232381002860 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1232381002861 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 1232381002862 folate binding site [chemical binding]; other site 1232381002863 NADP+ binding site [chemical binding]; other site 1232381002864 thymidylate synthase; Reviewed; Region: thyA; PRK01827 1232381002865 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 1232381002866 dimerization interface [polypeptide binding]; other site 1232381002867 active site 1232381002868 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 1232381002869 active site 1232381002870 putative ATP-dependent helicase Lhr; Provisional; Region: PRK09751 1232381002871 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 1232381002872 ATP binding site [chemical binding]; other site 1232381002873 putative Mg++ binding site [ion binding]; other site 1232381002874 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 1232381002875 nucleotide binding region [chemical binding]; other site 1232381002876 ATP-binding site [chemical binding]; other site 1232381002877 DEAD/H associated; Region: DEAD_assoc; pfam08494 1232381002878 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 1232381002879 N-terminal domain of the actinomycetal Nei2 and related DNA glycosylases; Region: AcNei2_N; cd08971 1232381002880 putative DNA binding site [nucleotide binding]; other site 1232381002881 catalytic residue [active] 1232381002882 putative H2TH interface [polypeptide binding]; other site 1232381002883 putative catalytic residues [active] 1232381002884 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1232381002885 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1232381002886 Predicted membrane protein [Function unknown]; Region: COG3304 1232381002887 Domain of unknown function (DUF307); Region: DUF307; pfam03733 1232381002888 Domain of unknown function (DUF307); Region: DUF307; pfam03733 1232381002889 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1232381002890 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1232381002891 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 1232381002892 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381002893 putative substrate translocation pore; other site 1232381002894 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 1232381002895 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 1232381002896 active site 1232381002897 dimer interface [polypeptide binding]; other site 1232381002898 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 1232381002899 dimer interface [polypeptide binding]; other site 1232381002900 active site 1232381002901 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 1232381002902 active site 1232381002903 hypothetical protein; Provisional; Region: PRK07857 1232381002904 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 1232381002905 Part of AAA domain; Region: AAA_19; pfam13245 1232381002906 Family description; Region: UvrD_C_2; pfam13538 1232381002907 FtsX-like permease family; Region: FtsX; pfam02687 1232381002908 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1232381002909 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1232381002910 Walker A/P-loop; other site 1232381002911 ATP binding site [chemical binding]; other site 1232381002912 Q-loop/lid; other site 1232381002913 ABC transporter signature motif; other site 1232381002914 Walker B; other site 1232381002915 D-loop; other site 1232381002916 H-loop/switch region; other site 1232381002917 Predicted transcriptional regulators [Transcription]; Region: COG1695 1232381002918 Transcriptional regulator PadR-like family; Region: PadR; cl17335 1232381002919 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1232381002920 Peptidase family M23; Region: Peptidase_M23; pfam01551 1232381002921 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1232381002922 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1232381002923 active site 1232381002924 substrate binding site [chemical binding]; other site 1232381002925 cosubstrate binding site; other site 1232381002926 catalytic site [active] 1232381002927 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1232381002928 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 1232381002929 purine monophosphate binding site [chemical binding]; other site 1232381002930 dimer interface [polypeptide binding]; other site 1232381002931 putative catalytic residues [active] 1232381002932 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1232381002933 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1232381002934 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 1232381002935 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1232381002936 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1232381002937 30S ribosomal protein S18; Provisional; Region: PRK13401 1232381002938 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1232381002939 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1232381002940 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1232381002941 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1232381002942 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1232381002943 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1232381002944 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 1232381002945 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 1232381002946 dimerization interface [polypeptide binding]; other site 1232381002947 putative DNA binding site [nucleotide binding]; other site 1232381002948 putative Zn2+ binding site [ion binding]; other site 1232381002949 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 1232381002950 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 1232381002951 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1232381002952 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1232381002953 active site 1232381002954 phosphorylation site [posttranslational modification] 1232381002955 intermolecular recognition site; other site 1232381002956 dimerization interface [polypeptide binding]; other site 1232381002957 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 1232381002958 DNA binding site [nucleotide binding] 1232381002959 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1232381002960 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 1232381002961 dimerization interface [polypeptide binding]; other site 1232381002962 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 1232381002963 dimer interface [polypeptide binding]; other site 1232381002964 phosphorylation site [posttranslational modification] 1232381002965 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1232381002966 ATP binding site [chemical binding]; other site 1232381002967 Mg2+ binding site [ion binding]; other site 1232381002968 G-X-G motif; other site 1232381002969 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 1232381002970 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1232381002971 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 1232381002972 protein binding site [polypeptide binding]; other site 1232381002973 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 1232381002974 MPT binding site; other site 1232381002975 trimer interface [polypeptide binding]; other site 1232381002976 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1232381002977 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 1232381002978 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 1232381002979 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 1232381002980 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 1232381002981 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1232381002982 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1232381002983 active site 1232381002984 tetramer interface; other site 1232381002985 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1232381002986 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 1232381002987 dimer interface [polypeptide binding]; other site 1232381002988 putative functional site; other site 1232381002989 putative MPT binding site; other site 1232381002990 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1232381002991 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1232381002992 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 1232381002993 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381002994 putative substrate translocation pore; other site 1232381002995 Predicted membrane protein [Function unknown]; Region: COG2259 1232381002996 Predicted integral membrane protein [Function unknown]; Region: COG5660 1232381002997 Putative zinc-finger; Region: zf-HC2; pfam13490 1232381002998 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like; cd11354 1232381002999 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1232381003000 active site 1232381003001 catalytic site [active] 1232381003002 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 1232381003003 Predicted methyltransferases [General function prediction only]; Region: COG0313 1232381003004 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1232381003005 putative SAM binding site [chemical binding]; other site 1232381003006 putative homodimer interface [polypeptide binding]; other site 1232381003007 Choline-glycine betaine transporter [Cell envelope biogenesis, outer membrane]; Region: BetT; COG1292 1232381003008 methionyl-tRNA synthetase; Reviewed; Region: PRK12268 1232381003009 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1232381003010 active site 1232381003011 HIGH motif; other site 1232381003012 KMSKS motif; other site 1232381003013 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1232381003014 tRNA binding surface [nucleotide binding]; other site 1232381003015 anticodon binding site; other site 1232381003016 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 1232381003017 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 1232381003018 ATP binding site [chemical binding]; other site 1232381003019 putative Mg++ binding site [ion binding]; other site 1232381003020 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 1232381003021 nucleotide binding region [chemical binding]; other site 1232381003022 ATP-binding site [chemical binding]; other site 1232381003023 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 1232381003024 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1232381003025 active site 1232381003026 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3583 1232381003027 Domain of unknown function (DUF348); Region: DUF348; pfam03990 1232381003028 Domain of unknown function (DUF348); Region: DUF348; pfam03990 1232381003029 G5 domain; Region: G5; pfam07501 1232381003030 Transglycosylase-like domain; Region: Transglycosylas; pfam06737 1232381003031 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1232381003032 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 1232381003033 S-adenosylmethionine binding site [chemical binding]; other site 1232381003034 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK03188 1232381003035 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1232381003036 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1232381003037 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1232381003038 ABC transporter; Region: ABC_tran_2; pfam12848 1232381003039 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1232381003040 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 1232381003041 dimer interface [polypeptide binding]; other site 1232381003042 pyridoxal binding site [chemical binding]; other site 1232381003043 ATP binding site [chemical binding]; other site 1232381003044 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 1232381003045 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1232381003046 catalytic residues [active] 1232381003047 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1232381003048 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1232381003049 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 1232381003050 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 1232381003051 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 1232381003052 active site 1232381003053 motif I; other site 1232381003054 motif II; other site 1232381003055 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 1232381003056 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 1232381003057 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 1232381003058 substrate binding site [chemical binding]; other site 1232381003059 oxyanion hole (OAH) forming residues; other site 1232381003060 trimer interface [polypeptide binding]; other site 1232381003061 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 1232381003062 Predicted membrane protein [General function prediction only]; Region: COG4194 1232381003063 Predicted esterase [General function prediction only]; Region: COG0627 1232381003064 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1232381003065 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 1232381003066 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 1232381003067 Uncharacterized protein conserved in bacteria (DUF2199); Region: DUF2199; cl02048 1232381003068 Domain of unknown function (DUF222); Region: DUF222; pfam02720 1232381003069 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 1232381003070 active site 1232381003071 Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]; Region: PrfC; COG4108 1232381003072 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1232381003073 G1 box; other site 1232381003074 putative GEF interaction site [polypeptide binding]; other site 1232381003075 GTP/Mg2+ binding site [chemical binding]; other site 1232381003076 Switch I region; other site 1232381003077 G2 box; other site 1232381003078 G3 box; other site 1232381003079 Switch II region; other site 1232381003080 G4 box; other site 1232381003081 G5 box; other site 1232381003082 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 1232381003083 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1232381003084 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 1232381003085 putative ligand binding site [chemical binding]; other site 1232381003086 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 1232381003087 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1232381003088 TM-ABC transporter signature motif; other site 1232381003089 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1232381003090 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 1232381003091 TM-ABC transporter signature motif; other site 1232381003092 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 1232381003093 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1232381003094 Walker A/P-loop; other site 1232381003095 ATP binding site [chemical binding]; other site 1232381003096 Q-loop/lid; other site 1232381003097 ABC transporter signature motif; other site 1232381003098 Walker B; other site 1232381003099 D-loop; other site 1232381003100 H-loop/switch region; other site 1232381003101 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 1232381003102 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1232381003103 Walker A/P-loop; other site 1232381003104 ATP binding site [chemical binding]; other site 1232381003105 Q-loop/lid; other site 1232381003106 ABC transporter signature motif; other site 1232381003107 Walker B; other site 1232381003108 D-loop; other site 1232381003109 H-loop/switch region; other site 1232381003110 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 1232381003111 putative active site [active] 1232381003112 catalytic residue [active] 1232381003113 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1232381003114 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 1232381003115 FMN binding site [chemical binding]; other site 1232381003116 substrate binding site [chemical binding]; other site 1232381003117 putative catalytic residue [active] 1232381003118 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 1232381003119 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1232381003120 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1232381003121 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 1232381003122 putative active site [active] 1232381003123 catalytic residue [active] 1232381003124 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 1232381003125 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1232381003126 5S rRNA interface [nucleotide binding]; other site 1232381003127 CTC domain interface [polypeptide binding]; other site 1232381003128 L16 interface [polypeptide binding]; other site 1232381003129 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 1232381003130 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1232381003131 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 1232381003132 A new structural DNA glycosylase containing HEAT-like repeats; Region: AlkD_like_1; cd07064 1232381003133 active site 1232381003134 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1232381003135 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK03092 1232381003136 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1232381003137 active site 1232381003138 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14352 1232381003139 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1232381003140 Substrate binding site; other site 1232381003141 Mg++ binding site; other site 1232381003142 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 1232381003143 active site 1232381003144 substrate binding site [chemical binding]; other site 1232381003145 CoA binding site [chemical binding]; other site 1232381003146 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1232381003147 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 1232381003148 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1232381003149 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1232381003150 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1232381003151 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1232381003152 Walker A/P-loop; other site 1232381003153 ATP binding site [chemical binding]; other site 1232381003154 Q-loop/lid; other site 1232381003155 ABC transporter signature motif; other site 1232381003156 Walker B; other site 1232381003157 D-loop; other site 1232381003158 H-loop/switch region; other site 1232381003159 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1232381003160 Histidine kinase; Region: HisKA_3; pfam07730 1232381003161 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1232381003162 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1232381003163 active site 1232381003164 phosphorylation site [posttranslational modification] 1232381003165 intermolecular recognition site; other site 1232381003166 dimerization interface [polypeptide binding]; other site 1232381003167 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 1232381003168 DNA binding residues [nucleotide binding] 1232381003169 dimerization interface [polypeptide binding]; other site 1232381003170 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 1232381003171 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1232381003172 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1232381003173 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1232381003174 ABC transporter signature motif; other site 1232381003175 Walker B; other site 1232381003176 D-loop; other site 1232381003177 H-loop/switch region; other site 1232381003178 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1232381003179 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1232381003180 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1232381003181 Walker A/P-loop; other site 1232381003182 ATP binding site [chemical binding]; other site 1232381003183 Q-loop/lid; other site 1232381003184 ABC transporter signature motif; other site 1232381003185 Walker B; other site 1232381003186 D-loop; other site 1232381003187 H-loop/switch region; other site 1232381003188 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1232381003189 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1232381003190 UTP:GlnB (protein PII) uridylyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: GlnD; COG2844 1232381003191 Excalibur calcium-binding domain; Region: Excalibur; pfam05901 1232381003192 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1232381003193 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1232381003194 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1232381003195 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1232381003196 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 1232381003197 ATP binding site [chemical binding]; other site 1232381003198 putative Mg++ binding site [ion binding]; other site 1232381003199 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 1232381003200 nucleotide binding region [chemical binding]; other site 1232381003201 ATP-binding site [chemical binding]; other site 1232381003202 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1232381003203 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1232381003204 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1232381003205 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 1232381003206 Walker A/P-loop; other site 1232381003207 ATP binding site [chemical binding]; other site 1232381003208 Q-loop/lid; other site 1232381003209 ABC transporter signature motif; other site 1232381003210 Walker B; other site 1232381003211 D-loop; other site 1232381003212 H-loop/switch region; other site 1232381003213 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1232381003214 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1232381003215 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1232381003216 Walker A/P-loop; other site 1232381003217 ATP binding site [chemical binding]; other site 1232381003218 Q-loop/lid; other site 1232381003219 ABC transporter signature motif; other site 1232381003220 Walker B; other site 1232381003221 D-loop; other site 1232381003222 H-loop/switch region; other site 1232381003223 Uncharacterized conserved protein [Function unknown]; Region: COG2898 1232381003224 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 1232381003225 Predicted esterase [General function prediction only]; Region: COG0627 1232381003226 transporter, basic amino acid/polyamine antiporter (APA) family; Region: 2A0302; TIGR00905 1232381003227 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 1232381003228 MT0933-like antitoxin protein; Region: MT0933_antitox; pfam14013 1232381003229 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 1232381003230 homodimer interface [polypeptide binding]; other site 1232381003231 metal binding site [ion binding]; metal-binding site 1232381003232 Alpha helical Porin B; Region: PorB; pfam11565 1232381003233 Alpha helical Porin B; Region: PorB; pfam11565 1232381003234 Membrane-bound lytic murein transglycosylase B [Cell envelope biogenesis, outer membrane]; Region: MltB; COG2951 1232381003235 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 1232381003236 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1232381003237 enolase; Provisional; Region: eno; PRK00077 1232381003238 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 1232381003239 dimer interface [polypeptide binding]; other site 1232381003240 metal binding site [ion binding]; metal-binding site 1232381003241 substrate binding pocket [chemical binding]; other site 1232381003242 Septum formation initiator; Region: DivIC; pfam04977 1232381003243 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1232381003244 Uncharacterized conserved protein [Function unknown]; Region: COG1507 1232381003245 exopolyphosphatase; Region: exo_poly_only; TIGR03706 1232381003246 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1232381003247 potential frameshift: common BLAST hit: gi|62389871|ref|YP_225273.1| pyrimidine reductase, riboflavin biosynthesis 1232381003248 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1232381003249 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1232381003250 Predicted membrane protein [Function unknown]; Region: COG4760 1232381003251 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1232381003252 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1232381003253 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1232381003254 Domain of unknown function (DUF4307); Region: DUF4307; pfam14155 1232381003255 mycothiol conjugate amidase Mca; Region: mycothiol_Mca; TIGR03446 1232381003256 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 1232381003257 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1232381003258 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14828 1232381003259 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 1232381003260 catalytic residue [active] 1232381003261 putative FPP diphosphate binding site; other site 1232381003262 putative FPP binding hydrophobic cleft; other site 1232381003263 dimer interface [polypeptide binding]; other site 1232381003264 putative IPP diphosphate binding site; other site 1232381003265 Flavodoxin domain; Region: Flavodoxin_5; pfam12724 1232381003266 pantothenate kinase; Provisional; Region: PRK05439 1232381003267 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point...; Region: PanK; cd02025 1232381003268 ATP-binding site [chemical binding]; other site 1232381003269 CoA-binding site [chemical binding]; other site 1232381003270 Mg2+-binding site [ion binding]; other site 1232381003271 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1232381003272 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 1232381003273 dimer interface [polypeptide binding]; other site 1232381003274 active site 1232381003275 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1232381003276 folate binding site [chemical binding]; other site 1232381003277 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1232381003278 Glutamine amidotransferase class-I; Region: GATase; pfam00117 1232381003279 glutamine binding [chemical binding]; other site 1232381003280 catalytic triad [active] 1232381003281 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1232381003282 aminodeoxychorismate synthase, component I, clade 2; Region: PabB-clade2; TIGR01824 1232381003283 chorismate binding enzyme; Region: Chorismate_bind; cl10555 1232381003284 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1232381003285 substrate-cofactor binding pocket; other site 1232381003286 homodimer interface [polypeptide binding]; other site 1232381003287 Aminotransferase class IV; Region: Aminotran_4; pfam01063 1232381003288 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1232381003289 catalytic residue [active] 1232381003290 The 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 1232381003291 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1232381003292 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1232381003293 Coenzyme A binding pocket [chemical binding]; other site 1232381003294 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 1232381003295 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 1232381003296 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 1232381003297 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 1232381003298 putative active site [active] 1232381003299 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 1232381003300 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1232381003301 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1232381003302 DNA-binding site [nucleotide binding]; DNA binding site 1232381003303 FCD domain; Region: FCD; pfam07729 1232381003304 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1232381003305 Class II fumarases; Region: Fumarase_classII; cd01362 1232381003306 active site 1232381003307 tetramer interface [polypeptide binding]; other site 1232381003308 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 1232381003309 Predicted flavoprotein [General function prediction only]; Region: COG0431 1232381003310 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1232381003311 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 1232381003312 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 1232381003313 putative active site [active] 1232381003314 Protein of unknown function (DUF4245); Region: DUF4245; pfam14030 1232381003315 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381003316 MFS transport protein AraJ; Provisional; Region: PRK10091 1232381003317 putative substrate translocation pore; other site 1232381003318 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1232381003319 MarR family; Region: MarR_2; pfam12802 1232381003320 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1232381003321 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1232381003322 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 1232381003323 generic binding surface II; other site 1232381003324 generic binding surface I; other site 1232381003325 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 1232381003326 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 1232381003327 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1232381003328 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1232381003329 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1232381003330 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 1232381003331 Na2 binding site [ion binding]; other site 1232381003332 putative substrate binding site 1 [chemical binding]; other site 1232381003333 Na binding site 1 [ion binding]; other site 1232381003334 putative substrate binding site 2 [chemical binding]; other site 1232381003335 Putative esterase; Region: Esterase; pfam00756 1232381003336 GTP-binding protein YchF; Reviewed; Region: PRK09601 1232381003337 YchF GTPase; Region: YchF; cd01900 1232381003338 G1 box; other site 1232381003339 GTP/Mg2+ binding site [chemical binding]; other site 1232381003340 Switch I region; other site 1232381003341 G2 box; other site 1232381003342 Switch II region; other site 1232381003343 G3 box; other site 1232381003344 G4 box; other site 1232381003345 G5 box; other site 1232381003346 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 1232381003347 short chain dehydrogenase; Validated; Region: PRK06182 1232381003348 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 1232381003349 NADP binding site [chemical binding]; other site 1232381003350 active site 1232381003351 steroid binding site; other site 1232381003352 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1232381003353 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1232381003354 potential frameshift: common BLAST hit: gi|62389921|ref|YP_225323.1| ornithine carbamoyltransferase 1232381003355 MASE1; Region: MASE1; pfam05231 1232381003356 PAS domain S-box; Region: sensory_box; TIGR00229 1232381003357 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 1232381003358 putative active site [active] 1232381003359 heme pocket [chemical binding]; other site 1232381003360 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1232381003361 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1232381003362 metal binding site [ion binding]; metal-binding site 1232381003363 active site 1232381003364 I-site; other site 1232381003365 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1232381003366 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1232381003367 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 1232381003368 DXD motif; other site 1232381003369 NNMT/PNMT/TEMT family; Region: NNMT_PNMT_TEMT; pfam01234 1232381003370 potential frameshift: common BLAST hit: gi|227832538|ref|YP_002834245.1| L-aspartate dehydrogenase 1232381003371 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1232381003372 Domain of unknown function DUF108; Region: DUF108; pfam01958 1232381003373 Protein of unknown function (DUF2872); Region: DUF2872; pfam11071 1232381003374 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1232381003375 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 1232381003376 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 1232381003377 nudix motif; other site 1232381003378 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 1232381003379 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 1232381003380 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 1232381003381 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381003382 putative substrate translocation pore; other site 1232381003383 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1232381003384 MarR family; Region: MarR_2; pfam12802 1232381003385 Protein of unknown function (DUF2945); Region: DUF2945; pfam11160 1232381003386 Protein of unknown function, DUF488; Region: DUF488; pfam04343 1232381003387 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 1232381003388 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1232381003389 NAD(P) binding site [chemical binding]; other site 1232381003390 putative active site [active] 1232381003391 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1232381003392 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1232381003393 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1232381003394 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 1232381003395 Uncharacterized protein with a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG4867 1232381003396 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 1232381003397 metal ion-dependent adhesion site (MIDAS); other site 1232381003398 Mg-chelatase subunit ChlI [Coenzyme metabolism]; Region: ChlI; COG1239 1232381003399 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 1232381003400 catalytic core [active] 1232381003401 conserved hypothetical protein; Region: TIGR03843 1232381003402 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 1232381003403 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1232381003404 tetramer interface [polypeptide binding]; other site 1232381003405 active site 1232381003406 Mg2+/Mn2+ binding site [ion binding]; other site 1232381003407 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1232381003408 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1232381003409 Walker A/P-loop; other site 1232381003410 ATP binding site [chemical binding]; other site 1232381003411 Q-loop/lid; other site 1232381003412 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1232381003413 ABC transporter signature motif; other site 1232381003414 Walker B; other site 1232381003415 D-loop; other site 1232381003416 ABC transporter; Region: ABC_tran_2; pfam12848 1232381003417 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1232381003418 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 1232381003419 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 1232381003420 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 1232381003421 PhnA protein; Region: PhnA; pfam03831 1232381003422 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 1232381003423 putative DNA binding site [nucleotide binding]; other site 1232381003424 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1232381003425 putative Zn2+ binding site [ion binding]; other site 1232381003426 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381003427 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1232381003428 putative substrate translocation pore; other site 1232381003429 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1232381003430 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1232381003431 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1232381003432 catalytic residue [active] 1232381003433 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06543 1232381003434 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 1232381003435 dimerization interface [polypeptide binding]; other site 1232381003436 active site 1232381003437 quinolinate synthetase; Provisional; Region: PRK09375 1232381003438 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 1232381003439 nudix motif; other site 1232381003440 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 1232381003441 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3238 1232381003442 Protein of unknown function, DUF606; Region: DUF606; pfam04657 1232381003443 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1232381003444 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1232381003445 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 1232381003446 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 1232381003447 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 1232381003448 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1232381003449 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 1232381003450 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1232381003451 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1232381003452 The 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 1232381003453 dimerization interface [polypeptide binding]; other site 1232381003454 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1232381003455 Cytochrome P450; Region: p450; cl12078 1232381003456 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 1232381003457 dimer interface [polypeptide binding]; other site 1232381003458 putative hydrolase, CocE/NonD family; Region: /NonD; TIGR00976 1232381003459 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1232381003460 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; cl08482 1232381003461 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1232381003462 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381003463 phosphoglycerate transporter family protein; Region: 2A0104; TIGR00881 1232381003464 putative substrate translocation pore; other site 1232381003465 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 1232381003466 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1232381003467 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1232381003468 hypothetical protein; Provisional; Region: PRK06847 1232381003469 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 1232381003470 active site 1232381003471 Phosphotriesterase family; Region: PTE; cl17343 1232381003472 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1232381003473 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1232381003474 DNA-binding site [nucleotide binding]; DNA binding site 1232381003475 UTRA domain; Region: UTRA; pfam07702 1232381003476 benzoate transport; Region: 2A0115; TIGR00895 1232381003477 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381003478 putative substrate translocation pore; other site 1232381003479 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381003480 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 1232381003481 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1232381003482 ABC-type cobalt transport system, predicted permease component [Inorganic ion transport and metabolism]; Region: COG4721 1232381003483 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1232381003484 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1232381003485 Walker A/P-loop; other site 1232381003486 ATP binding site [chemical binding]; other site 1232381003487 Q-loop/lid; other site 1232381003488 ABC transporter signature motif; other site 1232381003489 Walker B; other site 1232381003490 D-loop; other site 1232381003491 H-loop/switch region; other site 1232381003492 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1232381003493 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 1232381003494 Walker A/P-loop; other site 1232381003495 ATP binding site [chemical binding]; other site 1232381003496 Q-loop/lid; other site 1232381003497 ABC transporter signature motif; other site 1232381003498 Walker B; other site 1232381003499 D-loop; other site 1232381003500 H-loop/switch region; other site 1232381003501 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 1232381003502 hypothetical protein; Provisional; Region: PRK06547 1232381003503 Adenylate kinase and related kinases [Nucleotide transport and metabolism]; Region: Adk; COG0563 1232381003504 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 1232381003505 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1232381003506 Uncharacterized proteins, LmbE homologs [Function unknown]; Region: COG2120 1232381003507 Predicted integral membrane protein [Function unknown]; Region: COG5522 1232381003508 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1232381003509 Walker A/P-loop; other site 1232381003510 ATP binding site [chemical binding]; other site 1232381003511 Q-loop/lid; other site 1232381003512 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 1232381003513 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1232381003514 ABC transporter signature motif; other site 1232381003515 Walker B; other site 1232381003516 D-loop; other site 1232381003517 H-loop/switch region; other site 1232381003518 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1232381003519 Walker A/P-loop; other site 1232381003520 ATP binding site [chemical binding]; other site 1232381003521 Q-loop/lid; other site 1232381003522 ABC transporter signature motif; other site 1232381003523 Walker B; other site 1232381003524 D-loop; other site 1232381003525 H-loop/switch region; other site 1232381003526 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 1232381003527 dimer interface [polypeptide binding]; other site 1232381003528 catalytic triad [active] 1232381003529 peroxidatic and resolving cysteines [active] 1232381003530 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2354 1232381003531 2-dehydropantoate 2-reductase; Region: apbA_panE; TIGR00745 1232381003532 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1232381003533 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1232381003534 Uncharacterized protein conserved in bacteria (DUF2218); Region: DUF2218; cl01424 1232381003535 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 1232381003536 nudix motif; other site 1232381003537 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 1232381003538 Trypsin; Region: Trypsin; pfam00089 1232381003539 active site 1232381003540 substrate binding sites [chemical binding]; other site 1232381003541 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 1232381003542 ArsC family; Region: ArsC; pfam03960 1232381003543 catalytic residues [active] 1232381003544 Uncharacterized membrane protein [Function unknown]; Region: COG3949 1232381003545 Predicted RNA-binding protein, associated with RNAses E/G family [General function prediction only]; Region: COG2306 1232381003546 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1232381003547 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1232381003548 G1 box; other site 1232381003549 GTP/Mg2+ binding site [chemical binding]; other site 1232381003550 G2 box; other site 1232381003551 Switch I region; other site 1232381003552 G3 box; other site 1232381003553 Switch II region; other site 1232381003554 G4 box; other site 1232381003555 G5 box; other site 1232381003556 BipA_TypA_II: domain II of BipA (also called TypA) having homology to domain II of the elongation factors (EFs) EF-G and EF-Tu. BipA is a highly conserved protein with global regulatory properties in Escherichia coli. BipA is phosphorylated on a...; Region: BipA_TypA_II; cd03691 1232381003557 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 1232381003558 The substrate-binding domain of mycobacterial lipoprotein Lpqw contains type 2 periplasmic binding fold; Region: PBP2_Lpqw; cd08501 1232381003559 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1232381003560 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 1232381003561 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 1232381003562 Ferredoxin [Energy production and conversion]; Region: COG1146 1232381003563 4Fe-4S binding domain; Region: Fer4; pfam00037 1232381003564 N-succinyldiaminopimelate aminotransferase; Reviewed; Region: PRK07865 1232381003565 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 1232381003566 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1232381003567 homodimer interface [polypeptide binding]; other site 1232381003568 catalytic residue [active] 1232381003569 Predicted membrane protein [Function unknown]; Region: COG2246 1232381003570 GtrA-like protein; Region: GtrA; pfam04138 1232381003571 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 1232381003572 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 1232381003573 active site 1232381003574 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: DapD_actino; TIGR03535 1232381003575 Putative 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (THP succinyltransferase), C-terminal left-handed parallel alpha-helix (LbH) domain: This group is composed of mostly uncharacterized proteins containing an N-terminal...; Region: LbH_THP_succinylT_putative; cd04649 1232381003576 putative trimer interface [polypeptide binding]; other site 1232381003577 putative CoA binding site [chemical binding]; other site 1232381003578 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 1232381003579 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 1232381003580 Tetrahydrodipicolinate N-succinyltransferase [Amino acid transport and metabolism]; Region: DapD; COG2171 1232381003581 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 1232381003582 putative trimer interface [polypeptide binding]; other site 1232381003583 putative CoA binding site [chemical binding]; other site 1232381003584 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13007 1232381003585 M20 Peptidase actinobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_actinobac; cd05647 1232381003586 metal binding site [ion binding]; metal-binding site 1232381003587 putative dimer interface [polypeptide binding]; other site 1232381003588 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1232381003589 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 1232381003590 dihydropteroate synthase; Region: DHPS; TIGR01496 1232381003591 substrate binding pocket [chemical binding]; other site 1232381003592 dimer interface [polypeptide binding]; other site 1232381003593 inhibitor binding site; inhibition site 1232381003594 putative glucosyl-3-phosphoglycerate synthase; Provisional; Region: PRK13915 1232381003595 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1232381003596 Protein of unknown function (DUF3117); Region: DUF3117; pfam11314 1232381003597 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 1232381003598 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 1232381003599 S-adenosylmethionine binding site [chemical binding]; other site 1232381003600 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 1232381003601 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 1232381003602 active site 1232381003603 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 1232381003604 glycogen synthase, Corynebacterium family; Region: glgA_Coryne; TIGR02149 1232381003605 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 1232381003606 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00844 1232381003607 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 1232381003608 ligand binding site; other site 1232381003609 oligomer interface; other site 1232381003610 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 1232381003611 sulfate 1 binding site; other site 1232381003612 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 1232381003613 Methyltransferase domain; Region: Methyltransf_24; pfam13578 1232381003614 RNA polymerase sigma factor SigE; Reviewed; Region: PRK09647 1232381003615 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1232381003616 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 1232381003617 DNA binding residues [nucleotide binding] 1232381003618 mycothiol system anti-sigma-R factor; Region: antisig_RsrA; cl15806 1232381003619 sec-independent translocase; Provisional; Region: tatB; PRK00182 1232381003620 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 1232381003621 Domain of unknown function DUF59; Region: DUF59; pfam01883 1232381003622 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 1232381003623 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 1232381003624 Predicted membrane protein [Function unknown]; Region: COG4420 1232381003625 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 1232381003626 MgtE intracellular N domain; Region: MgtE_N; smart00924 1232381003627 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 1232381003628 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 1232381003629 alpha-ketoglutarate decarboxylase; Reviewed; Region: kgd; PRK12270 1232381003630 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1232381003631 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 1232381003632 TPP-binding site [chemical binding]; other site 1232381003633 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 1232381003634 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1232381003635 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1232381003636 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1232381003637 Walker A/P-loop; other site 1232381003638 ATP binding site [chemical binding]; other site 1232381003639 Q-loop/lid; other site 1232381003640 ABC transporter signature motif; other site 1232381003641 Walker B; other site 1232381003642 D-loop; other site 1232381003643 H-loop/switch region; other site 1232381003644 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1232381003645 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1232381003646 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1232381003647 Walker A/P-loop; other site 1232381003648 ATP binding site [chemical binding]; other site 1232381003649 Q-loop/lid; other site 1232381003650 ABC transporter signature motif; other site 1232381003651 Walker B; other site 1232381003652 D-loop; other site 1232381003653 H-loop/switch region; other site 1232381003654 shikimate 5-dehydrogenase; Reviewed; Region: PRK12550 1232381003655 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1232381003656 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1232381003657 shikimate binding site; other site 1232381003658 NAD(P) binding site [chemical binding]; other site 1232381003659 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 1232381003660 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 1232381003661 substrate binding pocket [chemical binding]; other site 1232381003662 catalytic triad [active] 1232381003663 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 1232381003664 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381003665 putative substrate translocation pore; other site 1232381003666 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1232381003667 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381003668 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381003669 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1232381003670 putative substrate translocation pore; other site 1232381003671 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 1232381003672 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 1232381003673 THF binding site; other site 1232381003674 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 1232381003675 substrate binding site [chemical binding]; other site 1232381003676 THF binding site; other site 1232381003677 zinc-binding site [ion binding]; other site 1232381003678 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 1232381003679 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1232381003680 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 1232381003681 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 1232381003682 active site 1232381003683 nucleophile elbow; other site 1232381003684 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1232381003685 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1232381003686 thiol reductant ABC exporter, CydC subunit; Region: CydC; TIGR02868 1232381003687 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1232381003688 Q-loop/lid; other site 1232381003689 ABC transporter signature motif; other site 1232381003690 Walker B; other site 1232381003691 D-loop; other site 1232381003692 H-loop/switch region; other site 1232381003693 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 1232381003694 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1232381003695 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1232381003696 Walker A/P-loop; other site 1232381003697 ATP binding site [chemical binding]; other site 1232381003698 Q-loop/lid; other site 1232381003699 ABC transporter signature motif; other site 1232381003700 Walker B; other site 1232381003701 D-loop; other site 1232381003702 H-loop/switch region; other site 1232381003703 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1232381003704 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1232381003705 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 1232381003706 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_b2; cd09204 1232381003707 PLD-like domain; Region: PLDc_2; pfam13091 1232381003708 putative homodimer interface [polypeptide binding]; other site 1232381003709 putative active site [active] 1232381003710 catalytic site [active] 1232381003711 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 1232381003712 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 1232381003713 ATP binding site [chemical binding]; other site 1232381003714 putative Mg++ binding site [ion binding]; other site 1232381003715 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 1232381003716 nucleotide binding region [chemical binding]; other site 1232381003717 ATP-binding site [chemical binding]; other site 1232381003718 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 1232381003719 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 1232381003720 active site 1232381003721 8-oxo-dGMP binding site [chemical binding]; other site 1232381003722 nudix motif; other site 1232381003723 metal binding site [ion binding]; metal-binding site 1232381003724 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1232381003725 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 1232381003726 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 1232381003727 ATP binding site [chemical binding]; other site 1232381003728 Mg++ binding site [ion binding]; other site 1232381003729 motif III; other site 1232381003730 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 1232381003731 nucleotide binding region [chemical binding]; other site 1232381003732 ATP-binding site [chemical binding]; other site 1232381003733 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 1232381003734 putative RNA binding site [nucleotide binding]; other site 1232381003735 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1232381003736 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1232381003737 3-(3-hydroxyphenyl)propionate hydroxylase; Validated; Region: mhpA; PRK06183 1232381003738 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1232381003739 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1232381003740 Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes; Region: MAR; cd08177 1232381003741 active site 1232381003742 dimer interface [polypeptide binding]; other site 1232381003743 metal binding site [ion binding]; metal-binding site 1232381003744 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 1232381003745 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 1232381003746 active site 1232381003747 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 1232381003748 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1232381003749 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 1232381003750 Na binding site [ion binding]; other site 1232381003751 SNF2 Helicase protein; Region: DUF3670; pfam12419 1232381003752 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 1232381003753 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 1232381003754 putative Mg++ binding site [ion binding]; other site 1232381003755 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 1232381003756 nucleotide binding region [chemical binding]; other site 1232381003757 ATP-binding site [chemical binding]; other site 1232381003758 Uncharacterized conserved protein [Function unknown]; Region: COG4279 1232381003759 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 1232381003760 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 1232381003761 DNA binding site [nucleotide binding] 1232381003762 active site 1232381003763 metal binding site [ion binding]; metal-binding site 1232381003764 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 1232381003765 AAA domain; Region: AAA_27; pfam13514 1232381003766 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1232381003767 Short chain fatty acid transporter; Region: SCFA_trans; cl17380 1232381003768 Short chain fatty acid transporter; Region: SCFA_trans; cl17380 1232381003769 Uncharacterized conserved protein [Function unknown]; Region: COG2353 1232381003770 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1232381003771 MarR family; Region: MarR_2; pfam12802 1232381003772 Putative stress-responsive transcriptional regulator [Transcription / Signal transduction mechanisms]; Region: PspC; COG1983 1232381003773 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1232381003774 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 1232381003775 ligand binding site [chemical binding]; other site 1232381003776 flexible hinge region; other site 1232381003777 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 1232381003778 non-specific DNA interactions [nucleotide binding]; other site 1232381003779 DNA binding site [nucleotide binding] 1232381003780 sequence specific DNA binding site [nucleotide binding]; other site 1232381003781 putative cAMP binding site [chemical binding]; other site 1232381003782 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 1232381003783 metal-binding site [ion binding] 1232381003784 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 1232381003785 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1232381003786 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 1232381003787 motif II; other site 1232381003788 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1232381003789 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1232381003790 synthetase active site [active] 1232381003791 NTP binding site [chemical binding]; other site 1232381003792 metal binding site [ion binding]; metal-binding site 1232381003793 TAP-like protein; Region: Abhydrolase_4; pfam08386 1232381003794 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 1232381003795 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 1232381003796 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1232381003797 active site 1232381003798 HIGH motif; other site 1232381003799 KMSK motif region; other site 1232381003800 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1232381003801 tRNA binding surface [nucleotide binding]; other site 1232381003802 anticodon binding site; other site 1232381003803 diaminopimelate decarboxylase; Region: lysA; TIGR01048 1232381003804 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1232381003805 active site 1232381003806 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1232381003807 substrate binding site [chemical binding]; other site 1232381003808 catalytic residues [active] 1232381003809 dimer interface [polypeptide binding]; other site 1232381003810 homoserine dehydrogenase; Provisional; Region: PRK06349 1232381003811 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1232381003812 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1232381003813 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 1232381003814 homoserine kinase; Provisional; Region: PRK01212 1232381003815 Predicted transcriptional regulator [Transcription]; Region: COG2345 1232381003816 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 1232381003817 Nitrate reductase delta subunit [Energy production and conversion]; Region: NarJ; COG2180 1232381003818 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 1232381003819 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 1232381003820 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 1232381003821 [4Fe-4S] binding site [ion binding]; other site 1232381003822 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 1232381003823 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 1232381003824 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 1232381003825 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 1232381003826 molybdopterin cofactor binding site; other site 1232381003827 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 1232381003828 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 1232381003829 MPT binding site; other site 1232381003830 trimer interface [polypeptide binding]; other site 1232381003831 potential frameshift: common BLAST hit: gi|19552416|ref|NP_600418.1| serine protease 1232381003832 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1232381003833 Domain of unknown function DUF21; Region: DUF21; pfam01595 1232381003834 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 1232381003835 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1232381003836 Domain of unknown function DUF21; Region: DUF21; pfam01595 1232381003837 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 1232381003838 Transporter associated domain; Region: CorC_HlyC; pfam03471 1232381003839 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 1232381003840 GTP binding site; other site 1232381003841 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1232381003842 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 1232381003843 dimer interface [polypeptide binding]; other site 1232381003844 putative functional site; other site 1232381003845 putative MPT binding site; other site 1232381003846 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 1232381003847 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 1232381003848 FeS/SAM binding site; other site 1232381003849 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1232381003850 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05620 1232381003851 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 1232381003852 dimer interface [polypeptide binding]; other site 1232381003853 acyl-activating enzyme (AAE) consensus motif; other site 1232381003854 putative active site [active] 1232381003855 AMP binding site [chemical binding]; other site 1232381003856 putative CoA binding site [chemical binding]; other site 1232381003857 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 1232381003858 transcription termination factor Rho; Provisional; Region: PRK12608 1232381003859 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 1232381003860 RNA binding site [nucleotide binding]; other site 1232381003861 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 1232381003862 multimer interface [polypeptide binding]; other site 1232381003863 Walker A motif; other site 1232381003864 ATP binding site [chemical binding]; other site 1232381003865 Walker B motif; other site 1232381003866 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1232381003867 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1232381003868 RF-1 domain; Region: RF-1; pfam00472 1232381003869 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 1232381003870 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 1232381003871 S-adenosylmethionine binding site [chemical binding]; other site 1232381003872 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 1232381003873 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 1232381003874 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 1232381003875 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 1232381003876 Mg++ binding site [ion binding]; other site 1232381003877 putative catalytic motif [active] 1232381003878 substrate binding site [chemical binding]; other site 1232381003879 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1232381003880 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1232381003881 F0F1 ATP synthase subunit C; Validated; Region: PRK07874 1232381003882 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 1232381003883 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1232381003884 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13430 1232381003885 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1232381003886 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1232381003887 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1232381003888 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 1232381003889 beta subunit interaction interface [polypeptide binding]; other site 1232381003890 Walker A motif; other site 1232381003891 ATP binding site [chemical binding]; other site 1232381003892 Walker B motif; other site 1232381003893 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1232381003894 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1232381003895 core domain interface [polypeptide binding]; other site 1232381003896 delta subunit interface [polypeptide binding]; other site 1232381003897 epsilon subunit interface [polypeptide binding]; other site 1232381003898 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1232381003899 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1232381003900 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 1232381003901 alpha subunit interaction interface [polypeptide binding]; other site 1232381003902 Walker A motif; other site 1232381003903 ATP binding site [chemical binding]; other site 1232381003904 Walker B motif; other site 1232381003905 inhibitor binding site; inhibition site 1232381003906 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1232381003907 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 1232381003908 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1232381003909 gamma subunit interface [polypeptide binding]; other site 1232381003910 epsilon subunit interface [polypeptide binding]; other site 1232381003911 LBP interface [polypeptide binding]; other site 1232381003912 Protein of unknown function (DUF2550); Region: DUF2550; pfam10739 1232381003913 Predicted nuclease of the RecB family [DNA replication, recombination, and repair]; Region: COG1637 1232381003914 hypothetical protein; Provisional; Region: PRK03298 1232381003915 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 1232381003916 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1232381003917 dimer interface [polypeptide binding]; other site 1232381003918 substrate binding site [chemical binding]; other site 1232381003919 metal binding site [ion binding]; metal-binding site 1232381003920 Uncharacterized conserved protein [Function unknown]; Region: COG0011 1232381003921 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 1232381003922 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 1232381003923 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 1232381003924 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 1232381003925 dimer interface [polypeptide binding]; other site 1232381003926 active site 1232381003927 non-prolyl cis peptide bond; other site 1232381003928 insertion regions; other site 1232381003929 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1232381003930 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1232381003931 dimer interface [polypeptide binding]; other site 1232381003932 conserved gate region; other site 1232381003933 putative PBP binding loops; other site 1232381003934 ABC-ATPase subunit interface; other site 1232381003935 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1232381003936 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1232381003937 Walker A/P-loop; other site 1232381003938 ATP binding site [chemical binding]; other site 1232381003939 Q-loop/lid; other site 1232381003940 ABC transporter signature motif; other site 1232381003941 Walker B; other site 1232381003942 D-loop; other site 1232381003943 H-loop/switch region; other site 1232381003944 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1232381003945 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 1232381003946 substrate binding pocket [chemical binding]; other site 1232381003947 membrane-bound complex binding site; other site 1232381003948 hinge residues; other site 1232381003949 Domain of unknown function (DUF4303); Region: DUF4303; pfam14136 1232381003950 glycogen branching enzyme; Provisional; Region: PRK05402 1232381003951 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 1232381003952 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 1232381003953 active site 1232381003954 catalytic site [active] 1232381003955 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 1232381003956 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 1232381003957 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1232381003958 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1232381003959 active site 1232381003960 catalytic site [active] 1232381003961 ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]; Region: ModF; COG1119 1232381003962 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1232381003963 Walker A/P-loop; other site 1232381003964 ATP binding site [chemical binding]; other site 1232381003965 Q-loop/lid; other site 1232381003966 ABC transporter signature motif; other site 1232381003967 Walker B; other site 1232381003968 D-loop; other site 1232381003969 H-loop/switch region; other site 1232381003970 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 1232381003971 Ligand binding site [chemical binding]; other site 1232381003972 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1232381003973 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1232381003974 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 1232381003975 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1232381003976 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1232381003977 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1232381003978 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1232381003979 catalytic residue [active] 1232381003980 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 1232381003981 HipA N-terminal domain; Region: couple_hipA; TIGR03071 1232381003982 HipA-like N-terminal domain; Region: HipA_N; pfam07805 1232381003983 HipA-like C-terminal domain; Region: HipA_C; pfam07804 1232381003984 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 1232381003985 salt bridge; other site 1232381003986 non-specific DNA binding site [nucleotide binding]; other site 1232381003987 sequence-specific DNA binding site [nucleotide binding]; other site 1232381003988 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1232381003989 Coenzyme A binding pocket [chemical binding]; other site 1232381003990 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 1232381003991 S-adenosylmethionine binding site [chemical binding]; other site 1232381003992 AAA ATPase domain; Region: AAA_16; pfam13191 1232381003993 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 1232381003994 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 1232381003995 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 1232381003996 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 1232381003997 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381003998 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1232381003999 putative substrate translocation pore; other site 1232381004000 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381004001 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1232381004002 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1232381004003 active site 1232381004004 catalytic site [active] 1232381004005 substrate binding site [chemical binding]; other site 1232381004006 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1232381004007 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 1232381004008 nucleotide binding pocket [chemical binding]; other site 1232381004009 K-X-D-G motif; other site 1232381004010 catalytic site [active] 1232381004011 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1232381004012 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1232381004013 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 1232381004014 Dimer interface [polypeptide binding]; other site 1232381004015 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1232381004016 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 1232381004017 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1232381004018 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1232381004019 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 1232381004020 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 1232381004021 FAD binding pocket [chemical binding]; other site 1232381004022 FAD binding motif [chemical binding]; other site 1232381004023 phosphate binding motif [ion binding]; other site 1232381004024 NAD binding pocket [chemical binding]; other site 1232381004025 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 1232381004026 phosphofructokinase; Region: PFK_mixed; TIGR02483 1232381004027 active site 1232381004028 ADP/pyrophosphate binding site [chemical binding]; other site 1232381004029 dimerization interface [polypeptide binding]; other site 1232381004030 allosteric effector site; other site 1232381004031 fructose-1,6-bisphosphate binding site; other site 1232381004032 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1232381004033 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1232381004034 DNA binding site [nucleotide binding] 1232381004035 domain linker motif; other site 1232381004036 Ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia; Region: PBP1_LacI_like_13; cd06299 1232381004037 dimerization interface [polypeptide binding]; other site 1232381004038 putative ligand binding site [chemical binding]; other site 1232381004039 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1232381004040 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1232381004041 Walker A/P-loop; other site 1232381004042 ATP binding site [chemical binding]; other site 1232381004043 Q-loop/lid; other site 1232381004044 ABC transporter signature motif; other site 1232381004045 Walker B; other site 1232381004046 D-loop; other site 1232381004047 H-loop/switch region; other site 1232381004048 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1232381004049 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1232381004050 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1232381004051 TM-ABC transporter signature motif; other site 1232381004052 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 1232381004053 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1232381004054 ligand binding site [chemical binding]; other site 1232381004055 dimerization interface [polypeptide binding]; other site 1232381004056 D-ribose pyranase; Provisional; Region: PRK11797 1232381004057 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1232381004058 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1232381004059 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 1232381004060 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1232381004061 siderophore binding site; other site 1232381004062 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1232381004063 Sodium Bile acid symporter family; Region: SBF; pfam01758 1232381004064 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1232381004065 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1232381004066 GatB domain; Region: GatB_Yqey; pfam02637 1232381004067 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 1232381004068 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1232381004069 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 1232381004070 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1232381004071 active site 1232381004072 catalytic tetrad [active] 1232381004073 L-lysine exporter; Region: 2a75; TIGR00948 1232381004074 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 1232381004075 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1232381004076 The 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 1232381004077 dimerization interface [polypeptide binding]; other site 1232381004078 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 1232381004079 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 1232381004080 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 1232381004081 putative dimer interface [polypeptide binding]; other site 1232381004082 N-terminal domain interface [polypeptide binding]; other site 1232381004083 putative substrate binding pocket (H-site) [chemical binding]; other site 1232381004084 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 1232381004085 Predicted membrane protein [Function unknown]; Region: COG2259 1232381004086 hypothetical protein; Validated; Region: PRK09039 1232381004087 Integrase core domain; Region: rve; pfam00665 1232381004088 Integrase core domain; Region: rve_3; pfam13683 1232381004089 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 1232381004090 Protein of unknown function (DUF2581); Region: DUF2581; pfam10756 1232381004091 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1232381004092 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1232381004093 acetolactate synthase 1 catalytic subunit; Validated; Region: PRK07789 1232381004094 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1232381004095 PYR/PP interface [polypeptide binding]; other site 1232381004096 dimer interface [polypeptide binding]; other site 1232381004097 TPP binding site [chemical binding]; other site 1232381004098 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1232381004099 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 1232381004100 TPP-binding site [chemical binding]; other site 1232381004101 dimer interface [polypeptide binding]; other site 1232381004102 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1232381004103 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1232381004104 putative valine binding site [chemical binding]; other site 1232381004105 dimer interface [polypeptide binding]; other site 1232381004106 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1232381004107 ketol-acid reductoisomerase; Provisional; Region: PRK05479 1232381004108 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1232381004109 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1232381004110 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1232381004111 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1232381004112 ABC transporter signature motif; other site 1232381004113 Walker B; other site 1232381004114 D-loop; other site 1232381004115 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1232381004116 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1232381004117 Walker A/P-loop; other site 1232381004118 ATP binding site [chemical binding]; other site 1232381004119 Q-loop/lid; other site 1232381004120 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1232381004121 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1232381004122 dimer interface [polypeptide binding]; other site 1232381004123 conserved gate region; other site 1232381004124 putative PBP binding loops; other site 1232381004125 ABC-ATPase subunit interface; other site 1232381004126 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1232381004127 NMT1-like family; Region: NMT1_2; pfam13379 1232381004128 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1232381004129 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 1232381004130 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1232381004131 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1232381004132 Uncharacterized conserved protein [Function unknown]; Region: COG1479 1232381004133 Protein of unknown function DUF262; Region: DUF262; pfam03235 1232381004134 Uncharacterized conserved protein [Function unknown]; Region: COG3472 1232381004135 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 1232381004136 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 1232381004137 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 1232381004138 ligand binding site [chemical binding]; other site 1232381004139 NAD binding site [chemical binding]; other site 1232381004140 dimerization interface [polypeptide binding]; other site 1232381004141 catalytic site [active] 1232381004142 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 1232381004143 putative L-serine binding site [chemical binding]; other site 1232381004144 3-isopropylmalate dehydrogenase; Provisional; Region: PRK03437 1232381004145 tartrate dehydrogenase; Region: TTC; TIGR02089 1232381004146 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1232381004147 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 1232381004148 substrate binding pocket [chemical binding]; other site 1232381004149 membrane-bound complex binding site; other site 1232381004150 hinge residues; other site 1232381004151 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 1232381004152 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 1232381004153 ligand binding site [chemical binding]; other site 1232381004154 flexible hinge region; other site 1232381004155 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 1232381004156 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1232381004157 metal binding triad; other site 1232381004158 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1232381004159 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1232381004160 active site 1232381004161 catalytic site [active] 1232381004162 substrate binding site [chemical binding]; other site 1232381004163 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 1232381004164 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 1232381004165 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1232381004166 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1232381004167 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 1232381004168 S-adenosylmethionine binding site [chemical binding]; other site 1232381004169 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 1232381004170 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1232381004171 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1232381004172 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1232381004173 active site 1232381004174 HIGH motif; other site 1232381004175 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1232381004176 active site 1232381004177 KMSKS motif; other site 1232381004178 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 1232381004179 salt bridge; other site 1232381004180 non-specific DNA binding site [nucleotide binding]; other site 1232381004181 sequence-specific DNA binding site [nucleotide binding]; other site 1232381004182 Protein of unknown function (DUF3036); Region: DUF3036; pfam11234 1232381004183 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_4; cd07822 1232381004184 putative hydrophobic ligand binding site [chemical binding]; other site 1232381004185 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 1232381004186 WHG domain; Region: WHG; pfam13305 1232381004187 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_4; cd07822 1232381004188 putative hydrophobic ligand binding site [chemical binding]; other site 1232381004189 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 1232381004190 ThiC-associated domain; Region: ThiC-associated; pfam13667 1232381004191 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 1232381004192 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 1232381004193 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 1232381004194 homodimer interface [polypeptide binding]; other site 1232381004195 active site pocket [active] 1232381004196 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1232381004197 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 1232381004198 active site residue [active] 1232381004199 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1232381004200 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1232381004201 HD domain; Region: HD_4; pfam13328 1232381004202 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1232381004203 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1232381004204 Bacterial transcriptional regulator; Region: IclR; pfam01614 1232381004205 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1232381004206 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1232381004207 substrate binding site [chemical binding]; other site 1232381004208 ligand binding site [chemical binding]; other site 1232381004209 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 1232381004210 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 1232381004211 substrate binding site [chemical binding]; other site 1232381004212 Diadenosine hexaphosphate (Ap6A) hydrolase is a member of the Nudix hydrolase superfamily. Ap6A hydrolase specifically hydrolyzes diadenosine polyphosphates, but not ATP or diadenosine triphosphate, and it generates ATP as the product. Ap6A, the most...; Region: Ap6A_hydrolase; cd03673 1232381004213 active site 1232381004214 Ap6A binding site [chemical binding]; other site 1232381004215 nudix motif; other site 1232381004216 metal binding site [ion binding]; metal-binding site 1232381004217 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 1232381004218 catalytic core [active] 1232381004219 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1232381004220 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1232381004221 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1232381004222 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 1232381004223 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1232381004224 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1232381004225 Protein of unknown function (DUF3515); Region: DUF3515; pfam12028 1232381004226 Protein of unknown function (DUF3515); Region: DUF3515; pfam12028 1232381004227 thiamine monophosphate kinase; Provisional; Region: PRK05731 1232381004228 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 1232381004229 ATP binding site [chemical binding]; other site 1232381004230 dimerization interface [polypeptide binding]; other site 1232381004231 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1232381004232 ligand binding site [chemical binding]; other site 1232381004233 active site 1232381004234 UGI interface [polypeptide binding]; other site 1232381004235 catalytic site [active] 1232381004236 Predicted kinase related to dihydroxyacetone kinase [General function prediction only]; Region: COG1461 1232381004237 DAK2 domain; Region: Dak2; pfam02734 1232381004238 RecG-like helicase [DNA replication, recombination, and repair / Transcription]; Region: RecG; COG1200 1232381004239 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 1232381004240 generic binding surface II; other site 1232381004241 ssDNA binding site; other site 1232381004242 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 1232381004243 ATP binding site [chemical binding]; other site 1232381004244 putative Mg++ binding site [ion binding]; other site 1232381004245 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 1232381004246 nucleotide binding region [chemical binding]; other site 1232381004247 ATP-binding site [chemical binding]; other site 1232381004248 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 1232381004249 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 1232381004250 carboxyltransferase (CT) interaction site; other site 1232381004251 biotinylation site [posttranslational modification]; other site 1232381004252 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 1232381004253 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 1232381004254 S-adenosylmethionine binding site [chemical binding]; other site 1232381004255 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1232381004256 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1232381004257 active site 1232381004258 (T/H)XGH motif; other site 1232381004259 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1232381004260 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1232381004261 Walker A/P-loop; other site 1232381004262 ATP binding site [chemical binding]; other site 1232381004263 Q-loop/lid; other site 1232381004264 ABC transporter signature motif; other site 1232381004265 Walker B; other site 1232381004266 D-loop; other site 1232381004267 H-loop/switch region; other site 1232381004268 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1232381004269 dimer interface [polypeptide binding]; other site 1232381004270 conserved gate region; other site 1232381004271 putative PBP binding loops; other site 1232381004272 ABC-ATPase subunit interface; other site 1232381004273 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 1232381004274 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1232381004275 substrate binding pocket [chemical binding]; other site 1232381004276 membrane-bound complex binding site; other site 1232381004277 hinge residues; other site 1232381004278 Protein of unknown function (DUF1266); Region: DUF1266; pfam06889 1232381004279 Domain of unknown function (DUF368); Region: DUF368; pfam04018 1232381004280 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1232381004281 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 1232381004282 active site 1232381004283 DNA binding site [nucleotide binding] 1232381004284 Int/Topo IB signature motif; other site 1232381004285 Uncharacterized protein potentially involved in peptidoglycan biosynthesis [Cell envelope biogenesis, outer membrane]; Region: COG5479 1232381004286 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4815 1232381004287 putative transposase OrfB; Reviewed; Region: PHA02517 1232381004288 HTH-like domain; Region: HTH_21; pfam13276 1232381004289 Integrase core domain; Region: rve; pfam00665 1232381004290 Integrase core domain; Region: rve_3; pfam13683 1232381004291 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1232381004292 Transposase; Region: HTH_Tnp_1; pfam01527 1232381004293 Domain of unknown function (DUF4258); Region: DUF4258; pfam14076 1232381004294 Uncharacterized conserved small protein [Function unknown]; Region: COG5428 1232381004295 Integrase core domain; Region: rve_3; cl15866 1232381004296 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 1232381004297 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 1232381004298 DNA polymerase I; Provisional; Region: PRK05755 1232381004299 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1232381004300 active site 1232381004301 metal binding site 1 [ion binding]; metal-binding site 1232381004302 putative 5' ssDNA interaction site; other site 1232381004303 metal binding site 3; metal-binding site 1232381004304 metal binding site 2 [ion binding]; metal-binding site 1232381004305 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1232381004306 putative DNA binding site [nucleotide binding]; other site 1232381004307 putative metal binding site [ion binding]; other site 1232381004308 inactive DEDDy 3'-5' exonuclease domain of Bacillus stearothermophilus DNA polymerase I and similar family-A DNA polymerases; Region: DNA_polA_I_Bacillus_like_exo; cd06140 1232381004309 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1232381004310 active site 1232381004311 DNA binding site [nucleotide binding] 1232381004312 catalytic site [active] 1232381004313 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381004314 Helix-turn-helix domain; Region: HTH_31; pfam13560 1232381004315 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 1232381004316 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1232381004317 active site 1232381004318 catalytic tetrad [active] 1232381004319 Thiopurine S-methyltransferase (TPMT); Region: TPMT; pfam05724 1232381004320 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 1232381004321 S-adenosylmethionine binding site [chemical binding]; other site 1232381004322 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK07899 1232381004323 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 1232381004324 RNA binding site [nucleotide binding]; other site 1232381004325 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 1232381004326 RNA binding site [nucleotide binding]; other site 1232381004327 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 1232381004328 RNA binding site [nucleotide binding]; other site 1232381004329 S1 RNA binding domain; Region: S1; pfam00575 1232381004330 RNA binding site [nucleotide binding]; other site 1232381004331 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 1232381004332 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 1232381004333 active site turn [active] 1232381004334 phosphorylation site [posttranslational modification] 1232381004335 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1232381004336 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 1232381004337 HPr interaction site; other site 1232381004338 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1232381004339 active site 1232381004340 phosphorylation site [posttranslational modification] 1232381004341 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1232381004342 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 1232381004343 CoA-binding site [chemical binding]; other site 1232381004344 ATP-binding [chemical binding]; other site 1232381004345 DNA polymerase III subunit epsilon; Validated; Region: PRK06195 1232381004346 an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III; Region: DNA_pol_III_epsilon_like; cd06130 1232381004347 active site 1232381004348 catalytic site [active] 1232381004349 substrate binding site [chemical binding]; other site 1232381004350 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; cl00038 1232381004351 Dimer interface [polypeptide binding]; other site 1232381004352 BRCT sequence motif; other site 1232381004353 Domain of unknown function (DUF4259); Region: DUF4259; pfam14078 1232381004354 nitrobindin heme-binding domain; Region: nitrobindin; cd07828 1232381004355 heme-binding site [chemical binding]; other site 1232381004356 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 1232381004357 active site 1232381004358 tetramer interface [polypeptide binding]; other site 1232381004359 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381004360 putative substrate translocation pore; other site 1232381004361 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1232381004362 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 1232381004363 substrate binding site [chemical binding]; other site 1232381004364 dimer interface [polypeptide binding]; other site 1232381004365 ATP binding site [chemical binding]; other site 1232381004366 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1232381004367 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1232381004368 DNA binding site [nucleotide binding] 1232381004369 domain linker motif; other site 1232381004370 Ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia; Region: PBP1_LacI_like_13; cd06299 1232381004371 dimerization interface [polypeptide binding]; other site 1232381004372 putative ligand binding site [chemical binding]; other site 1232381004373 excinuclease ABC subunit B; Provisional; Region: PRK05298 1232381004374 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 1232381004375 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 1232381004376 nucleotide binding region [chemical binding]; other site 1232381004377 ATP-binding site [chemical binding]; other site 1232381004378 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1232381004379 UvrB/uvrC motif; Region: UVR; pfam02151 1232381004380 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 1232381004381 Ligand Binding Site [chemical binding]; other site 1232381004382 Predicted transcriptional regulators [Transcription]; Region: COG1733 1232381004383 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1232381004384 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1232381004385 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 1232381004386 NADP binding site [chemical binding]; other site 1232381004387 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 1232381004388 Part of AAA domain; Region: AAA_19; pfam13245 1232381004389 Family description; Region: UvrD_C_2; pfam13538 1232381004390 Predicted membrane protein [Function unknown]; Region: COG2259 1232381004391 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1232381004392 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1232381004393 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1232381004394 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1232381004395 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1232381004396 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 1232381004397 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1232381004398 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1232381004399 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1232381004400 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1232381004401 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1232381004402 23S rRNA binding site [nucleotide binding]; other site 1232381004403 L21 binding site [polypeptide binding]; other site 1232381004404 L13 binding site [polypeptide binding]; other site 1232381004405 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1232381004406 dimer interface [polypeptide binding]; other site 1232381004407 conserved gate region; other site 1232381004408 putative PBP binding loops; other site 1232381004409 ABC-ATPase subunit interface; other site 1232381004410 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1232381004411 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1232381004412 dimer interface [polypeptide binding]; other site 1232381004413 conserved gate region; other site 1232381004414 putative PBP binding loops; other site 1232381004415 ABC-ATPase subunit interface; other site 1232381004416 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1232381004417 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1232381004418 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1232381004419 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1232381004420 Walker A/P-loop; other site 1232381004421 ATP binding site [chemical binding]; other site 1232381004422 Q-loop/lid; other site 1232381004423 ABC transporter signature motif; other site 1232381004424 Walker B; other site 1232381004425 D-loop; other site 1232381004426 H-loop/switch region; other site 1232381004427 TOBE domain; Region: TOBE_2; pfam08402 1232381004428 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1232381004429 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 1232381004430 active site 1232381004431 catalytic site [active] 1232381004432 metal binding site [ion binding]; metal-binding site 1232381004433 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1232381004434 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 1232381004435 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1232381004436 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1232381004437 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1232381004438 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 1232381004439 dimer interface [polypeptide binding]; other site 1232381004440 motif 1; other site 1232381004441 active site 1232381004442 motif 2; other site 1232381004443 motif 3; other site 1232381004444 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1232381004445 tRNA-binding-domain-containing prokaryotic phenylalanly tRNA synthetase (PheRS) beta chain. PheRS aminoacylate phenylalanine transfer RNAs (tRNAphe). PheRSs belong structurally to class II aminoacyl tRNA synthetases (aaRSs) but, as they aminoacylate...; Region: tRNA_bind_bactPheRS; cd02796 1232381004446 putative tRNA-binding site [nucleotide binding]; other site 1232381004447 B3/4 domain; Region: B3_4; pfam03483 1232381004448 tRNA synthetase B5 domain; Region: B5; smart00874 1232381004449 Phenylalanyl-tRNA synthetase (PheRS) beta chain core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure. While class II aaRSs generally aminoacylate the 3'-OH ribose of the appropriate tRNA, PheRS is an...; Region: PheRS_beta_core; cd00769 1232381004450 dimer interface [polypeptide binding]; other site 1232381004451 motif 1; other site 1232381004452 motif 3; other site 1232381004453 motif 2; other site 1232381004454 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1232381004455 SEST_like. A family of secreted SGNH-hydrolases similar to Streptomyces scabies esterase (SEST), a causal agent of the potato scab disease, which hydrolyzes a specific ester bond in suberin, a plant lipid. The tertiary fold of this enzyme is...; Region: SEST_like; cd01823 1232381004456 active site 1232381004457 catalytic triad [active] 1232381004458 oxyanion hole [active] 1232381004459 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1232381004460 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 1232381004461 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1232381004462 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 1232381004463 heterotetramer interface [polypeptide binding]; other site 1232381004464 active site pocket [active] 1232381004465 cleavage site 1232381004466 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 1232381004467 feedback inhibition sensing region; other site 1232381004468 homohexameric interface [polypeptide binding]; other site 1232381004469 nucleotide binding site [chemical binding]; other site 1232381004470 N-acetyl-L-glutamate binding site [chemical binding]; other site 1232381004471 acetylornithine aminotransferase; Provisional; Region: argD; PRK03244 1232381004472 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 1232381004473 inhibitor-cofactor binding pocket; inhibition site 1232381004474 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1232381004475 catalytic residue [active] 1232381004476 ornithine carbamoyltransferase; Provisional; Region: PRK00779 1232381004477 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1232381004478 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1232381004479 arginine repressor; Provisional; Region: PRK03341 1232381004480 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1232381004481 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 1232381004482 argininosuccinate synthase; Provisional; Region: PRK13820 1232381004483 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 1232381004484 ANP binding site [chemical binding]; other site 1232381004485 Substrate Binding Site II [chemical binding]; other site 1232381004486 Substrate Binding Site I [chemical binding]; other site 1232381004487 argininosuccinate lyase; Provisional; Region: PRK00855 1232381004488 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1232381004489 active sites [active] 1232381004490 tetramer interface [polypeptide binding]; other site 1232381004491 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 1232381004492 metal ion-dependent adhesion site (MIDAS); other site 1232381004493 Uncharacterized conserved protein [Function unknown]; Region: COG2835 1232381004494 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1232381004495 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1232381004496 active site 1232381004497 HIGH motif; other site 1232381004498 dimer interface [polypeptide binding]; other site 1232381004499 KMSKS motif; other site 1232381004500 S4 RNA-binding domain; Region: S4; smart00363 1232381004501 RNA binding surface [nucleotide binding]; other site 1232381004502 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 1232381004503 Ligand Binding Site [chemical binding]; other site 1232381004504 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 1232381004505 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 1232381004506 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 1232381004507 active site 1232381004508 motif I; other site 1232381004509 motif II; other site 1232381004510 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 1232381004511 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 1232381004512 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 1232381004513 RNA binding surface [nucleotide binding]; other site 1232381004514 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 1232381004515 S-adenosylmethionine binding site [chemical binding]; other site 1232381004516 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03372 1232381004517 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 1232381004518 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1232381004519 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1232381004520 Walker A/P-loop; other site 1232381004521 ATP binding site [chemical binding]; other site 1232381004522 Q-loop/lid; other site 1232381004523 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1232381004524 ABC transporter signature motif; other site 1232381004525 Walker B; other site 1232381004526 D-loop; other site 1232381004527 H-loop/switch region; other site 1232381004528 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4825 1232381004529 Thiamine pyrophosphokinase; Region: TPK; cl08415 1232381004530 Protein of unknown function (DUF3186); Region: DUF3186; pfam11382 1232381004531 CTP synthetase; Validated; Region: pyrG; PRK05380 1232381004532 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 1232381004533 Catalytic site [active] 1232381004534 active site 1232381004535 UTP binding site [chemical binding]; other site 1232381004536 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1232381004537 active site 1232381004538 putative oxyanion hole; other site 1232381004539 catalytic triad [active] 1232381004540 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 1232381004541 dimer interface [polypeptide binding]; other site 1232381004542 ADP-ribose binding site [chemical binding]; other site 1232381004543 active site 1232381004544 nudix motif; other site 1232381004545 metal binding site [ion binding]; metal-binding site 1232381004546 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 1232381004547 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 1232381004548 active site 1232381004549 Int/Topo IB signature motif; other site 1232381004550 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1232381004551 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1232381004552 Walker A/P-loop; other site 1232381004553 ATP binding site [chemical binding]; other site 1232381004554 Q-loop/lid; other site 1232381004555 ABC transporter signature motif; other site 1232381004556 Walker B; other site 1232381004557 D-loop; other site 1232381004558 H-loop/switch region; other site 1232381004559 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1232381004560 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1232381004561 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 1232381004562 P-loop; other site 1232381004563 Magnesium ion binding site [ion binding]; other site 1232381004564 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 1232381004565 Magnesium ion binding site [ion binding]; other site 1232381004566 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 1232381004567 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1232381004568 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 1232381004569 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 1232381004570 active site residue [active] 1232381004571 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 1232381004572 active site residue [active] 1232381004573 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 1232381004574 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1232381004575 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 1232381004576 RNA binding surface [nucleotide binding]; other site 1232381004577 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 1232381004578 active site 1232381004579 cytidylate kinase; Provisional; Region: cmk; PRK00023 1232381004580 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 1232381004581 CMP-binding site; other site 1232381004582 The sites determining sugar specificity; other site 1232381004583 GTP-binding protein Der; Reviewed; Region: PRK03003 1232381004584 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1232381004585 G1 box; other site 1232381004586 GTP/Mg2+ binding site [chemical binding]; other site 1232381004587 Switch I region; other site 1232381004588 G2 box; other site 1232381004589 Switch II region; other site 1232381004590 G3 box; other site 1232381004591 G4 box; other site 1232381004592 G5 box; other site 1232381004593 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1232381004594 G1 box; other site 1232381004595 GTP/Mg2+ binding site [chemical binding]; other site 1232381004596 Switch I region; other site 1232381004597 G2 box; other site 1232381004598 G3 box; other site 1232381004599 Switch II region; other site 1232381004600 G4 box; other site 1232381004601 G5 box; other site 1232381004602 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1232381004603 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1232381004604 Transcriptional regulator, effector-binding domain/component [Transcription / Signal transduction mechanisms]; Region: COG4978 1232381004605 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 1232381004606 S-adenosylmethionine binding site [chemical binding]; other site 1232381004607 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1232381004608 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1232381004609 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1232381004610 Walker B; other site 1232381004611 D-loop; other site 1232381004612 H-loop/switch region; other site 1232381004613 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1232381004614 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1232381004615 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1232381004616 Walker A/P-loop; other site 1232381004617 ATP binding site [chemical binding]; other site 1232381004618 Q-loop/lid; other site 1232381004619 ABC transporter signature motif; other site 1232381004620 Walker B; other site 1232381004621 D-loop; other site 1232381004622 H-loop/switch region; other site 1232381004623 zinc transporter ZupT; Provisional; Region: PRK04201 1232381004624 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1232381004625 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3012 1232381004626 SEC-C motif; Region: SEC-C; pfam02810 1232381004627 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1232381004628 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 1232381004629 preprotein translocase subunit SecA; Reviewed; Region: PRK12326 1232381004630 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 1232381004631 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 1232381004632 nucleotide binding region [chemical binding]; other site 1232381004633 ATP-binding site [chemical binding]; other site 1232381004634 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 1232381004635 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 1232381004636 phosphopeptide binding site; other site 1232381004637 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 1232381004638 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1232381004639 DNA binding residues [nucleotide binding] 1232381004640 Uncharacterized conserved protein [Function unknown]; Region: COG1259 1232381004641 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1232381004642 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1232381004643 DNA binding residues [nucleotide binding] 1232381004644 Domain of unknown function (DUF1707); Region: DUF1707; pfam08044 1232381004645 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1232381004646 Domain of unknown function DUF21; Region: DUF21; pfam01595 1232381004647 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 1232381004648 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1232381004649 Domain of unknown function DUF21; Region: DUF21; pfam01595 1232381004650 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 1232381004651 Transporter associated domain; Region: CorC_HlyC; smart01091 1232381004652 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 1232381004653 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1232381004654 ATP binding site [chemical binding]; other site 1232381004655 putative Mg++ binding site [ion binding]; other site 1232381004656 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 1232381004657 nucleotide binding region [chemical binding]; other site 1232381004658 ATP-binding site [chemical binding]; other site 1232381004659 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 1232381004660 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 1232381004661 FAD binding pocket [chemical binding]; other site 1232381004662 FAD binding motif [chemical binding]; other site 1232381004663 phosphate binding motif [ion binding]; other site 1232381004664 NAD binding pocket [chemical binding]; other site 1232381004665 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1232381004666 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 1232381004667 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 1232381004668 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 1232381004669 CoenzymeA binding site [chemical binding]; other site 1232381004670 subunit interaction site [polypeptide binding]; other site 1232381004671 PHB binding site; other site 1232381004672 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1232381004673 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 1232381004674 S-adenosylmethionine binding site [chemical binding]; other site 1232381004675 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1232381004676 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1232381004677 Walker A/P-loop; other site 1232381004678 ATP binding site [chemical binding]; other site 1232381004679 Q-loop/lid; other site 1232381004680 ABC transporter signature motif; other site 1232381004681 Walker B; other site 1232381004682 D-loop; other site 1232381004683 H-loop/switch region; other site 1232381004684 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1232381004685 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1232381004686 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1232381004687 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1232381004688 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 1232381004689 putative active site [active] 1232381004690 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 1232381004691 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1232381004692 dimer interface [polypeptide binding]; other site 1232381004693 conserved gate region; other site 1232381004694 ABC-ATPase subunit interface; other site 1232381004695 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 1232381004696 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1232381004697 dimer interface [polypeptide binding]; other site 1232381004698 conserved gate region; other site 1232381004699 ABC-ATPase subunit interface; other site 1232381004700 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 1232381004701 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 1232381004702 Walker A/P-loop; other site 1232381004703 ATP binding site [chemical binding]; other site 1232381004704 Q-loop/lid; other site 1232381004705 ABC transporter signature motif; other site 1232381004706 Walker B; other site 1232381004707 D-loop; other site 1232381004708 H-loop/switch region; other site 1232381004709 potential frameshift: common BLAST hit: gi|62390344|ref|YP_225746.1| alkylphosphonate ABC transporter phosphate-binding protein 1232381004710 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 1232381004711 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 1232381004712 motif I; other site 1232381004713 active site 1232381004714 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 1232381004715 motif II; other site 1232381004716 multifunctional thiamine-phosphate pyrophosphorylase/synthase/phosphomethylpyrimidine kinase; Provisional; Region: PRK09517 1232381004717 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 1232381004718 thiamine phosphate binding site [chemical binding]; other site 1232381004719 active site 1232381004720 pyrophosphate binding site [ion binding]; other site 1232381004721 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 1232381004722 dimer interface [polypeptide binding]; other site 1232381004723 substrate binding site [chemical binding]; other site 1232381004724 ATP binding site [chemical binding]; other site 1232381004725 Putative transcription activator [Transcription]; Region: TenA; COG0819 1232381004726 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 1232381004727 substrate binding site [chemical binding]; other site 1232381004728 multimerization interface [polypeptide binding]; other site 1232381004729 ATP binding site [chemical binding]; other site 1232381004730 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1232381004731 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1232381004732 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1232381004733 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 1232381004734 metabolite-proton symporter; Region: 2A0106; TIGR00883 1232381004735 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381004736 putative substrate translocation pore; other site 1232381004737 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 1232381004738 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1232381004739 active site 1232381004740 Predicted membrane protein [Function unknown]; Region: COG1971 1232381004741 Domain of unknown function DUF; Region: DUF204; pfam02659 1232381004742 Domain of unknown function DUF; Region: DUF204; pfam02659 1232381004743 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 1232381004744 Sodium Bile acid symporter family; Region: SBF; cl17470 1232381004745 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 1232381004746 A new structural DNA glycosylase; Region: AlkD_like; cd06561 1232381004747 active site 1232381004748 high affinity sulphate transporter 1; Region: sulP; TIGR00815 1232381004749 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1232381004750 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1232381004751 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 1232381004752 Uncharacterized protein potentially involved in peptidoglycan biosynthesis [Cell envelope biogenesis, outer membrane]; Region: COG5479 1232381004753 Uncharacterized conserved protein [Function unknown]; Region: COG2353 1232381004754 Domain of unknown function (DUF4109); Region: DUF4109; pfam13397 1232381004755 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 1232381004756 Ligand binding site; other site 1232381004757 Putative Catalytic site; other site 1232381004758 DXD motif; other site 1232381004759 Apolipoprotein N-acyltransferase [Cell envelope biogenesis, outer membrane]; Region: Lnt; COG0815 1232381004760 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1232381004761 putative active site [active] 1232381004762 catalytic triad [active] 1232381004763 putative dimer interface [polypeptide binding]; other site 1232381004764 phage T7 F exclusion suppressor FxsA; Reviewed; Region: fxsA; PRK11463 1232381004765 Secretory lipase; Region: LIP; pfam03583 1232381004766 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 1232381004767 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1232381004768 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 1232381004769 active site 1232381004770 putative homodimer interface [polypeptide binding]; other site 1232381004771 SAM binding site [chemical binding]; other site 1232381004772 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 1232381004773 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 1232381004774 AAA domain; Region: AAA_13; pfam13166 1232381004775 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1232381004776 ABC transporter signature motif; other site 1232381004777 Walker B; other site 1232381004778 D-loop; other site 1232381004779 H-loop/switch region; other site 1232381004780 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1232381004781 classical (c) SDRs; Region: SDR_c; cd05233 1232381004782 NAD(P) binding site [chemical binding]; other site 1232381004783 active site 1232381004784 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1232381004785 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1232381004786 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 1232381004787 active site 1232381004788 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 1232381004789 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1232381004790 Superfamily II RNA helicase [DNA replication, recombination, and repair]; Region: COG4581 1232381004791 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 1232381004792 ATP binding site [chemical binding]; other site 1232381004793 putative Mg++ binding site [ion binding]; other site 1232381004794 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 1232381004795 nucleotide binding region [chemical binding]; other site 1232381004796 ATP-binding site [chemical binding]; other site 1232381004797 DSHCT (NUC185) domain; Region: DSHCT; pfam08148 1232381004798 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 1232381004799 twin arginine translocase protein A; Provisional; Region: tatA; PRK00191 1232381004800 mttA/Hcf106 family; Region: MttA_Hcf106; pfam02416 1232381004801 Predicted transcriptional regulator [Transcription]; Region: COG2378 1232381004802 WYL domain; Region: WYL; pfam13280 1232381004803 Predicted transcriptional regulator [Transcription]; Region: COG2378 1232381004804 WYL domain; Region: WYL; pfam13280 1232381004805 proteasome accessory factor PafA; Region: pupylate_PafA; TIGR03686 1232381004806 Pup-like protein; Region: Pup; pfam05639 1232381004807 proteasome accessory factor PafA2; Region: pupylate_PafA2; TIGR03688 1232381004808 proteasome ATPase; Region: pup_AAA; TIGR03689 1232381004809 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 1232381004810 Walker A motif; other site 1232381004811 ATP binding site [chemical binding]; other site 1232381004812 Walker B motif; other site 1232381004813 arginine finger; other site 1232381004814 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]; Region: GCD14; COG2519 1232381004815 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 1232381004816 S-adenosylmethionine binding site [chemical binding]; other site 1232381004817 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 1232381004818 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 1232381004819 active site 1232381004820 metal binding site [ion binding]; metal-binding site 1232381004821 RecB family exonuclease [DNA replication, recombination, and repair]; Region: COG2887 1232381004822 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 1232381004823 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 1232381004824 non-specific DNA binding site [nucleotide binding]; other site 1232381004825 salt bridge; other site 1232381004826 sequence-specific DNA binding site [nucleotide binding]; other site 1232381004827 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381004828 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1232381004829 putative substrate translocation pore; other site 1232381004830 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 1232381004831 Aspartase; Region: Aspartase; cd01357 1232381004832 active sites [active] 1232381004833 tetramer interface [polypeptide binding]; other site 1232381004834 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 1232381004835 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 1232381004836 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 1232381004837 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Mycobacterium tuberculosis phosphoribosyl-ATP pyrophosphohydrolase (HisE or PRATP-PH) and its bacterial homologs; Region: NTP-PPase_HisE; cd11547 1232381004838 homodimer interface [polypeptide binding]; other site 1232381004839 putative metal binding site [ion binding]; other site 1232381004840 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1232381004841 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 1232381004842 motif II; other site 1232381004843 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 1232381004844 5-methyltetrahydrofolate--homocysteine methyltransferase; Region: metH; TIGR02082 1232381004845 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 1232381004846 substrate binding pocket [chemical binding]; other site 1232381004847 dimer interface [polypeptide binding]; other site 1232381004848 inhibitor binding site; inhibition site 1232381004849 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 1232381004850 B12 binding site [chemical binding]; other site 1232381004851 cobalt ligand [ion binding]; other site 1232381004852 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 1232381004853 putative bacillithiol system oxidoreductase, YpdA family; Region: Bthiol_YpdA; TIGR04018 1232381004854 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 1232381004855 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 1232381004856 dimerization interface [polypeptide binding]; other site 1232381004857 putative DNA binding site [nucleotide binding]; other site 1232381004858 putative Zn2+ binding site [ion binding]; other site 1232381004859 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 1232381004860 arsenical-resistance protein; Region: acr3; TIGR00832 1232381004861 Low molecular weight phosphatase family; Region: LMWPc; cl00105 1232381004862 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1232381004863 active site 1232381004864 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1232381004865 Low molecular weight phosphatase family; Region: LMWPc; cl00105 1232381004866 active site 1232381004867 cysteine--1-D-myo-inosityl 2-amino-2-deoxy-alpha-D-glucopyranoside ligase; Region: mycothiol_MshC; TIGR03447 1232381004868 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1232381004869 active site 1232381004870 HIGH motif; other site 1232381004871 nucleotide binding site [chemical binding]; other site 1232381004872 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1232381004873 active site 1232381004874 KMSKS motif; other site 1232381004875 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1232381004876 tRNA binding surface [nucleotide binding]; other site 1232381004877 anticodon binding site; other site 1232381004878 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK12554 1232381004879 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 1232381004880 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1232381004881 active site 1232381004882 catalytic tetrad [active] 1232381004883 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 1232381004884 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 1232381004885 quinone interaction residues [chemical binding]; other site 1232381004886 active site 1232381004887 catalytic residues [active] 1232381004888 FMN binding site [chemical binding]; other site 1232381004889 substrate binding site [chemical binding]; other site 1232381004890 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 1232381004891 substrate binding site [chemical binding]; other site 1232381004892 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1232381004893 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1232381004894 Walker A/P-loop; other site 1232381004895 ATP binding site [chemical binding]; other site 1232381004896 Q-loop/lid; other site 1232381004897 ABC transporter signature motif; other site 1232381004898 Walker B; other site 1232381004899 D-loop; other site 1232381004900 H-loop/switch region; other site 1232381004901 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 1232381004902 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1232381004903 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1232381004904 Q-loop/lid; other site 1232381004905 ABC transporter signature motif; other site 1232381004906 Walker B; other site 1232381004907 D-loop; other site 1232381004908 H-loop/switch region; other site 1232381004909 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1232381004910 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1232381004911 Coenzyme A binding pocket [chemical binding]; other site 1232381004912 membrane ATPase/protein kinase; Provisional; Region: PRK09435 1232381004913 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 1232381004914 Walker A; other site 1232381004915 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 1232381004916 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 1232381004917 active site 1232381004918 substrate binding site [chemical binding]; other site 1232381004919 coenzyme B12 binding site [chemical binding]; other site 1232381004920 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 1232381004921 B12 binding site [chemical binding]; other site 1232381004922 cobalt ligand [ion binding]; other site 1232381004923 methylmalonyl-CoA mutase, heterodimeric type, beta chain; Region: mmCoA_mut_beta; TIGR00642 1232381004924 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Beta subunit-like subfamily; contains bacterial proteins similar to the beta subunit of MCMs from Propionbacterium shermanni and Streptomyces cinnamonensis, which are alpha/beta...; Region: MM_CoA_mutase_beta; cd03677 1232381004925 heterodimer interface [polypeptide binding]; other site 1232381004926 substrate interaction site [chemical binding]; other site 1232381004927 Methylmalonyl-CoA mutase, C-terminal domain/subunit (cobalamin-binding) [Lipid metabolism]; Region: Sbm; COG2185 1232381004928 Uncharacterized conserved protein [Function unknown]; Region: COG0398 1232381004929 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1232381004930 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1232381004931 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 1232381004932 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 1232381004933 Protein of unknown function (DUF3097); Region: DUF3097; pfam11296 1232381004934 ferrochelatase; Reviewed; Region: hemH; PRK00035 1232381004935 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 1232381004936 C-terminal domain interface [polypeptide binding]; other site 1232381004937 active site 1232381004938 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 1232381004939 active site 1232381004940 N-terminal domain interface [polypeptide binding]; other site 1232381004941 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1232381004942 NlpC/P60 family; Region: NLPC_P60; pfam00877 1232381004943 aconitate hydratase; Validated; Region: PRK09277 1232381004944 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 1232381004945 substrate binding site [chemical binding]; other site 1232381004946 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 1232381004947 ligand binding site [chemical binding]; other site 1232381004948 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 1232381004949 substrate binding site [chemical binding]; other site 1232381004950 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1232381004951 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1232381004952 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 1232381004953 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 1232381004954 catalytic triad [active] 1232381004955 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1232381004956 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1232381004957 NAD(P) binding site [chemical binding]; other site 1232381004958 active site 1232381004959 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 1232381004960 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 1232381004961 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1232381004962 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 1232381004963 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1232381004964 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1232381004965 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 1232381004966 motif II; other site 1232381004967 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1232381004968 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4762 1232381004969 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 1232381004970 metal binding triad [ion binding]; metal-binding site 1232381004971 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1232381004972 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1232381004973 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1232381004974 Walker A/P-loop; other site 1232381004975 ATP binding site [chemical binding]; other site 1232381004976 Q-loop/lid; other site 1232381004977 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1232381004978 ABC transporter signature motif; other site 1232381004979 Walker B; other site 1232381004980 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1232381004981 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 1232381004982 catalytic site [active] 1232381004983 BNR repeat-like domain; Region: BNR_2; pfam13088 1232381004984 Asp-box motif; other site 1232381004985 NPCBM-associated, NEW3 domain of alpha-galactosidase; Region: NPCBM_assoc; pfam10633 1232381004986 Arrestin (or S-antigen), C-terminal domain; Region: Arrestin_C; cl02844 1232381004987 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 1232381004988 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1232381004989 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1232381004990 trimerization site [polypeptide binding]; other site 1232381004991 active site 1232381004992 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1232381004993 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 1232381004994 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1232381004995 catalytic residue [active] 1232381004996 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 1232381004997 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 1232381004998 Walker A/P-loop; other site 1232381004999 ATP binding site [chemical binding]; other site 1232381005000 Q-loop/lid; other site 1232381005001 ABC transporter signature motif; other site 1232381005002 Walker B; other site 1232381005003 D-loop; other site 1232381005004 H-loop/switch region; other site 1232381005005 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 1232381005006 FeS assembly protein SufD; Region: sufD; TIGR01981 1232381005007 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 1232381005008 FeS assembly protein SufB; Region: sufB; TIGR01980 1232381005009 Predicted transcriptional regulator [Transcription]; Region: COG2345 1232381005010 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 1232381005011 putative DNA binding site [nucleotide binding]; other site 1232381005012 putative Zn2+ binding site [ion binding]; other site 1232381005013 carotene biosynthesis associated membrane protein; Region: crt_membr; TIGR03459 1232381005014 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1232381005015 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1232381005016 Walker A/P-loop; other site 1232381005017 ATP binding site [chemical binding]; other site 1232381005018 Q-loop/lid; other site 1232381005019 ABC transporter signature motif; other site 1232381005020 Walker B; other site 1232381005021 D-loop; other site 1232381005022 H-loop/switch region; other site 1232381005023 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1232381005024 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 1232381005025 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 1232381005026 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 1232381005027 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4951 1232381005028 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 1232381005029 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 1232381005030 ATP binding site [chemical binding]; other site 1232381005031 putative Mg++ binding site [ion binding]; other site 1232381005032 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 1232381005033 nucleotide binding region [chemical binding]; other site 1232381005034 ATP-binding site [chemical binding]; other site 1232381005035 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1232381005036 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 1232381005037 NADP binding site [chemical binding]; other site 1232381005038 dimer interface [polypeptide binding]; other site 1232381005039 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 1232381005040 UbiA prenyltransferase family; Region: UbiA; pfam01040 1232381005041 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 1232381005042 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 1232381005043 TPP-binding site [chemical binding]; other site 1232381005044 dimer interface [polypeptide binding]; other site 1232381005045 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 1232381005046 PYR/PP interface [polypeptide binding]; other site 1232381005047 dimer interface [polypeptide binding]; other site 1232381005048 TPP binding site [chemical binding]; other site 1232381005049 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 1232381005050 putative active site [active] 1232381005051 transaldolase; Provisional; Region: PRK03903 1232381005052 catalytic residue [active] 1232381005053 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1232381005054 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1232381005055 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1232381005056 glucose-6-phosphate dehydrogenase assembly protein OpcA; Region: OpcA; TIGR00534 1232381005057 Glucose-6-P dehydrogenase subunit [Carbohydrate transport and metabolism]; Region: COG3429 1232381005058 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1232381005059 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 1232381005060 putative active site [active] 1232381005061 N-methyltryptophan oxidase; Provisional; Region: solA; PRK11259 1232381005062 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1232381005063 ornithine cyclodeaminase; Validated; Region: PRK06199 1232381005064 Ornithine cyclodeaminase/mu-crystallin family; Region: OCD_Mu_crystall; pfam02423 1232381005065 ammonium transporter; Region: amt; TIGR00836 1232381005066 Preprotein translocase SecG subunit; Region: SecG; cl09123 1232381005067 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 1232381005068 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 1232381005069 triosephosphate isomerase; Provisional; Region: PRK14567 1232381005070 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 1232381005071 substrate binding site [chemical binding]; other site 1232381005072 dimer interface [polypeptide binding]; other site 1232381005073 catalytic triad [active] 1232381005074 Phosphoglycerate kinase; Region: PGK; pfam00162 1232381005075 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 1232381005076 substrate binding site [chemical binding]; other site 1232381005077 hinge regions; other site 1232381005078 ADP binding site [chemical binding]; other site 1232381005079 catalytic site [active] 1232381005080 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 1232381005081 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 1232381005082 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1232381005083 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 1232381005084 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 1232381005085 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 1232381005086 Uncharacterized protein family UPF0052; Region: UPF0052; pfam01933 1232381005087 phosphate binding site [ion binding]; other site 1232381005088 putative substrate binding pocket [chemical binding]; other site 1232381005089 dimer interface [polypeptide binding]; other site 1232381005090 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 1232381005091 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1232381005092 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1232381005093 GIY-YIG motif/motif A; other site 1232381005094 active site 1232381005095 catalytic site [active] 1232381005096 putative DNA binding site [nucleotide binding]; other site 1232381005097 metal binding site [ion binding]; metal-binding site 1232381005098 UvrB/uvrC motif; Region: UVR; pfam02151 1232381005099 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1232381005100 Protein of unknown function (DUF2581); Region: DUF2581; pfam10756 1232381005101 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 1232381005102 homopentamer interface [polypeptide binding]; other site 1232381005103 active site 1232381005104 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 1232381005105 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1232381005106 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 1232381005107 dimerization interface [polypeptide binding]; other site 1232381005108 active site 1232381005109 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 1232381005110 Lumazine binding domain; Region: Lum_binding; pfam00677 1232381005111 Lumazine binding domain; Region: Lum_binding; pfam00677 1232381005112 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 1232381005113 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 1232381005114 catalytic motif [active] 1232381005115 Zn binding site [ion binding]; other site 1232381005116 RibD C-terminal domain; Region: RibD_C; pfam01872 1232381005117 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 1232381005118 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 1232381005119 substrate binding site [chemical binding]; other site 1232381005120 hexamer interface [polypeptide binding]; other site 1232381005121 metal binding site [ion binding]; metal-binding site 1232381005122 16S rRNA methyltransferase B; Provisional; Region: PRK14902 1232381005123 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 1232381005124 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 1232381005125 S-adenosylmethionine binding site [chemical binding]; other site 1232381005126 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1232381005127 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1232381005128 putative active site [active] 1232381005129 substrate binding site [chemical binding]; other site 1232381005130 putative cosubstrate binding site; other site 1232381005131 catalytic site [active] 1232381005132 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1232381005133 substrate binding site [chemical binding]; other site 1232381005134 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 1232381005135 active site 1232381005136 catalytic residues [active] 1232381005137 metal binding site [ion binding]; metal-binding site 1232381005138 primosome assembly protein PriA; Provisional; Region: PRK14873 1232381005139 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1232381005140 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1232381005141 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1232381005142 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1232381005143 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1232381005144 Flavoprotein; Region: Flavoprotein; pfam02441 1232381005145 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1232381005146 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 1232381005147 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1232381005148 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 1232381005149 catalytic site [active] 1232381005150 G-X2-G-X-G-K; other site 1232381005151 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 1232381005152 active site 1232381005153 dimer interface [polypeptide binding]; other site 1232381005154 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1232381005155 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1232381005156 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1232381005157 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1232381005158 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1232381005159 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1232381005160 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 1232381005161 IMP binding site; other site 1232381005162 dimer interface [polypeptide binding]; other site 1232381005163 interdomain contacts; other site 1232381005164 partial ornithine binding site; other site 1232381005165 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1232381005166 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1232381005167 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1232381005168 catalytic site [active] 1232381005169 subunit interface [polypeptide binding]; other site 1232381005170 dihydroorotase; Validated; Region: pyrC; PRK09357 1232381005171 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 1232381005172 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 1232381005173 active site 1232381005174 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 1232381005175 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1232381005176 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1232381005177 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 1232381005178 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1232381005179 active site 1232381005180 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_3; cd07820 1232381005181 putative hydrophobic ligand binding site [chemical binding]; other site 1232381005182 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 1232381005183 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 1232381005184 putative NAD(P) binding site [chemical binding]; other site 1232381005185 putative active site [active] 1232381005186 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 1232381005187 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 1232381005188 Transcription termination factor [Transcription]; Region: NusB; COG0781 1232381005189 putative RNA binding site [nucleotide binding]; other site 1232381005190 elongation factor P; Validated; Region: PRK00529 1232381005191 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1232381005192 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 1232381005193 RNA binding site [nucleotide binding]; other site 1232381005194 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 1232381005195 RNA binding site [nucleotide binding]; other site 1232381005196 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1232381005197 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1232381005198 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 1232381005199 active site 1232381005200 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1232381005201 active site 1232381005202 dimer interface [polypeptide binding]; other site 1232381005203 metal binding site [ion binding]; metal-binding site 1232381005204 shikimate kinase; Reviewed; Region: aroK; PRK00131 1232381005205 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 1232381005206 ADP binding site [chemical binding]; other site 1232381005207 magnesium binding site [ion binding]; other site 1232381005208 putative shikimate binding site; other site 1232381005209 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1232381005210 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1232381005211 Tetramer interface [polypeptide binding]; other site 1232381005212 active site 1232381005213 FMN-binding site [chemical binding]; other site 1232381005214 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 1232381005215 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 1232381005216 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 1232381005217 dimerization interface [polypeptide binding]; other site 1232381005218 putative DNA binding site [nucleotide binding]; other site 1232381005219 putative Zn2+ binding site [ion binding]; other site 1232381005220 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1232381005221 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 1232381005222 ABC-ATPase subunit interface; other site 1232381005223 dimer interface [polypeptide binding]; other site 1232381005224 putative PBP binding regions; other site 1232381005225 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 1232381005226 Metal binding protein TroA_a. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and...; Region: TroA_a; cd01148 1232381005227 putative ligand binding residues [chemical binding]; other site 1232381005228 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1232381005229 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1232381005230 Walker A/P-loop; other site 1232381005231 ATP binding site [chemical binding]; other site 1232381005232 Q-loop/lid; other site 1232381005233 ABC transporter signature motif; other site 1232381005234 Walker B; other site 1232381005235 D-loop; other site 1232381005236 H-loop/switch region; other site 1232381005237 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1232381005238 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1232381005239 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1232381005240 shikimate binding site; other site 1232381005241 NAD(P) binding site [chemical binding]; other site 1232381005242 YceG-like family; Region: YceG; pfam02618 1232381005243 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1232381005244 dimerization interface [polypeptide binding]; other site 1232381005245 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 1232381005246 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1232381005247 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 1232381005248 motif 1; other site 1232381005249 active site 1232381005250 motif 2; other site 1232381005251 motif 3; other site 1232381005252 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1232381005253 recombination factor protein RarA; Reviewed; Region: PRK13342 1232381005254 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 1232381005255 Walker A motif; other site 1232381005256 ATP binding site [chemical binding]; other site 1232381005257 Walker B motif; other site 1232381005258 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1232381005259 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 1232381005260 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1232381005261 EcAspRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli aspartyl-tRNA synthetase (AspRS), the human mitochondrial (mt) AspRS-2, the discriminating (D) Thermus thermophilus AspRS-1, and the nondiscriminating (ND)...; Region: EcAspRS_like_N; cd04317 1232381005262 dimer interface [polypeptide binding]; other site 1232381005263 anticodon binding site; other site 1232381005264 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 1232381005265 homodimer interface [polypeptide binding]; other site 1232381005266 motif 1; other site 1232381005267 active site 1232381005268 motif 2; other site 1232381005269 GAD domain; Region: GAD; pfam02938 1232381005270 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 1232381005271 active site 1232381005272 motif 3; other site 1232381005273 Predicted metalloprotease [General function prediction only]; Region: COG2321 1232381005274 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 1232381005275 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1232381005276 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 1232381005277 ATP binding site [chemical binding]; other site 1232381005278 putative Mg++ binding site [ion binding]; other site 1232381005279 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 1232381005280 nucleotide binding region [chemical binding]; other site 1232381005281 ATP-binding site [chemical binding]; other site 1232381005282 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 1232381005283 Predicted membrane protein [Function unknown]; Region: COG1511 1232381005284 X-X-X-Leu-X-X-Gly heptad repeats; Region: xxxLxxG_by_4; TIGR03057 1232381005285 X-X-X-Leu-X-X-Gly heptad repeats; Region: xxxLxxG_by_4; TIGR03057 1232381005286 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 1232381005287 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1232381005288 Q-loop/lid; other site 1232381005289 ABC transporter signature motif; other site 1232381005290 Walker B; other site 1232381005291 D-loop; other site 1232381005292 H-loop/switch region; other site 1232381005293 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1232381005294 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1232381005295 Predicted transcriptional regulator with C-terminal CBS domains [Transcription]; Region: COG3620 1232381005296 putative luciferase-like monooxygenase, FMN-dependent, CE1758 family; Region: LLM_CE1758_fam; TIGR04036 1232381005297 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1232381005298 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 1232381005299 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1232381005300 LLM-partnered FMN reductase, CE1759 family; Region: LLM_duo_CE1759; TIGR04037 1232381005301 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 1232381005302 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1232381005303 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 1232381005304 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1232381005305 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 1232381005306 dimer interface [polypeptide binding]; other site 1232381005307 motif 1; other site 1232381005308 active site 1232381005309 motif 2; other site 1232381005310 motif 3; other site 1232381005311 HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: HisRS_anticodon; cd00859 1232381005312 anticodon binding site; other site 1232381005313 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1232381005314 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 1232381005315 active site 1232381005316 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1232381005317 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1232381005318 Zn2+ binding site [ion binding]; other site 1232381005319 Mg2+ binding site [ion binding]; other site 1232381005320 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1232381005321 synthetase active site [active] 1232381005322 NTP binding site [chemical binding]; other site 1232381005323 metal binding site [ion binding]; metal-binding site 1232381005324 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 1232381005325 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1232381005326 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1232381005327 active site 1232381005328 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1232381005329 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 1232381005330 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 1232381005331 Protein export membrane protein; Region: SecD_SecF; cl14618 1232381005332 Preprotein translocase subunit SecD [Intracellular trafficking and secretion]; Region: SecD; COG0342 1232381005333 Protein export membrane protein; Region: SecD_SecF; cl14618 1232381005334 Preprotein translocase subunit; Region: YajC; pfam02699 1232381005335 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1232381005336 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 1232381005337 Walker A motif; other site 1232381005338 ATP binding site [chemical binding]; other site 1232381005339 Walker B motif; other site 1232381005340 arginine finger; other site 1232381005341 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1232381005342 Holliday junction resolvasome, DNA-binding subunit [DNA replication, recombination, and repair]; Region: RuvA; COG0632 1232381005343 RuvA N terminal domain; Region: RuvA_N; pfam01330 1232381005344 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1232381005345 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 1232381005346 active site 1232381005347 putative DNA-binding cleft [nucleotide binding]; other site 1232381005348 dimer interface [polypeptide binding]; other site 1232381005349 hypothetical protein; Validated; Region: PRK00110 1232381005350 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 1232381005351 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 1232381005352 active site 1232381005353 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 1232381005354 catalytic triad [active] 1232381005355 dimer interface [polypeptide binding]; other site 1232381005356 Domain of unknown function (DUF3817); Region: DUF3817; pfam12823 1232381005357 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1232381005358 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 1232381005359 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1232381005360 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 1232381005361 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1232381005362 putative acyl-acceptor binding pocket; other site 1232381005363 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 1232381005364 FHIT (fragile histidine family): FHIT proteins, related to the HIT family carry a motif HxHxH/Qxx (x, is a hydrophobic amino acid), On the basis of sequence, substrate specificity, structure, evolution and mechanism, HIT proteins are classified into...; Region: FHIT; cd01275 1232381005365 nucleotide binding site/active site [active] 1232381005366 HIT family signature motif; other site 1232381005367 catalytic residue [active] 1232381005368 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK12305 1232381005369 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 1232381005370 Threonyl-tRNA synthetase (ThrRS) class II core catalytic domain. ThrRS is a homodimer. It is responsible for the attachment of threonine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ThrRS_core; cd00771 1232381005371 active site 1232381005372 dimer interface [polypeptide binding]; other site 1232381005373 motif 1; other site 1232381005374 motif 2; other site 1232381005375 motif 3; other site 1232381005376 ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: ThrRS_anticodon; cd00860 1232381005377 anticodon binding site; other site 1232381005378 Predicted iron-dependent peroxidase [Inorganic ion transport and metabolism]; Region: COG2837 1232381005379 Copper(I)-binding protein [Inorganic ion transport and metabolism]; Region: COG2847 1232381005380 Uncharacterized protein, homolog of Cu resistance protein CopC [General function prediction only]; Region: CopC; COG2372 1232381005381 Integrase core domain; Region: rve; pfam00665 1232381005382 Integrase core domain; Region: rve_3; pfam13683 1232381005383 hypothetical protein; Validated; Region: PRK09039 1232381005384 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1232381005385 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 1232381005386 transmembrane helices; other site 1232381005387 The 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 1232381005388 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 1232381005389 tartrate dehydrogenase; Region: TTC; TIGR02089 1232381005390 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 1232381005391 hypothetical protein; Provisional; Region: PRK14059 1232381005392 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 1232381005393 Protein of unknown function (DUF2029); Region: DUF2029; pfam09594 1232381005394 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 1232381005395 SelR domain; Region: SelR; pfam01641 1232381005396 Predicted heme peroxidase involved in anaerobic stress response [General function prediction only]; Region: ywfI; COG3253 1232381005397 Protein of unknown function (DUF3000); Region: DUF3000; pfam11452 1232381005398 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 1232381005399 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1232381005400 catalytic site [active] 1232381005401 putative active site [active] 1232381005402 putative substrate binding site [chemical binding]; other site 1232381005403 HRDC domain; Region: HRDC; pfam00570 1232381005404 Deoxyxylulose-5-phosphate synthase [Coenzyme metabolism / Lipid metabolism]; Region: Dxs; COG1154 1232381005405 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 1232381005406 TPP-binding site; other site 1232381005407 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 1232381005408 PYR/PP interface [polypeptide binding]; other site 1232381005409 dimer interface [polypeptide binding]; other site 1232381005410 TPP binding site [chemical binding]; other site 1232381005411 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1232381005412 TRAM domain; Region: TRAM; pfam01938 1232381005413 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 1232381005414 Protein of unknown function (DUF3710); Region: DUF3710; pfam12502 1232381005415 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1232381005416 trimer interface [polypeptide binding]; other site 1232381005417 active site 1232381005418 Protein of unknown function (DUF3093); Region: DUF3093; pfam11292 1232381005419 Domain of unknown function (DUF4193); Region: DUF4193; pfam13834 1232381005420 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 1232381005421 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1232381005422 active site 1232381005423 dimerization interface [polypeptide binding]; other site 1232381005424 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1232381005425 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1232381005426 RNA polymerase sigma factor SigB; Reviewed; Region: PRK07921 1232381005427 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1232381005428 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1232381005429 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1232381005430 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 1232381005431 DNA binding residues [nucleotide binding] 1232381005432 Predicted membrane protein [Function unknown]; Region: COG2311 1232381005433 Protein of unknown function (DUF418); Region: DUF418; cl12135 1232381005434 Protein of unknown function (DUF418); Region: DUF418; pfam04235 1232381005435 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 1232381005436 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 1232381005437 ATP binding site [chemical binding]; other site 1232381005438 putative Mg++ binding site [ion binding]; other site 1232381005439 Protein of unknown function (DUF3039); Region: DUF3039; pfam11238 1232381005440 Protein of unknown function (DUF3099); Region: DUF3099; pfam11298 1232381005441 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 1232381005442 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 1232381005443 S-adenosylmethionine binding site [chemical binding]; other site 1232381005444 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 1232381005445 putative active site [active] 1232381005446 dimerization interface [polypeptide binding]; other site 1232381005447 putative tRNAtyr binding site [nucleotide binding]; other site 1232381005448 RNA polymerase sigma factor SigB; Reviewed; Region: PRK07921 1232381005449 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1232381005450 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1232381005451 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1232381005452 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 1232381005453 DNA binding residues [nucleotide binding] 1232381005454 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 1232381005455 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 1232381005456 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 1232381005457 This entry represents the core domain of the ferrous iron (Fe2+) transport protein FeoA found in bacteria; Region: FeoA; smart00899 1232381005458 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 1232381005459 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1232381005460 NAD binding site [chemical binding]; other site 1232381005461 homodimer interface [polypeptide binding]; other site 1232381005462 active site 1232381005463 substrate binding site [chemical binding]; other site 1232381005464 Domain of unknown function (DUF4192); Region: DUF4192; pfam13830 1232381005465 PAC2 family; Region: PAC2; pfam09754 1232381005466 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1232381005467 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 1232381005468 ATP binding site [chemical binding]; other site 1232381005469 putative Mg++ binding site [ion binding]; other site 1232381005470 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 1232381005471 nucleotide binding region [chemical binding]; other site 1232381005472 ATP-binding site [chemical binding]; other site 1232381005473 Domain of unknown function (DUF3516); Region: DUF3516; pfam12029 1232381005474 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1232381005475 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 1232381005476 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 1232381005477 dimerization interface [polypeptide binding]; other site 1232381005478 Predicted integral membrane protein [Function unknown]; Region: COG5473 1232381005479 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 1232381005480 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 1232381005481 ATP binding site [chemical binding]; other site 1232381005482 putative Mg++ binding site [ion binding]; other site 1232381005483 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 1232381005484 nucleotide binding region [chemical binding]; other site 1232381005485 ATP-binding site [chemical binding]; other site 1232381005486 Helicase associated domain (HA2); Region: HA2; pfam04408 1232381005487 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 1232381005488 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 1232381005489 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1232381005490 ATP cone domain; Region: ATP-cone; pfam03477 1232381005491 LexA repressor; Validated; Region: PRK00215 1232381005492 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 1232381005493 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 1232381005494 Catalytic site [active] 1232381005495 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1232381005496 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1232381005497 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1232381005498 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 1232381005499 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 1232381005500 substrate binding site [chemical binding]; other site 1232381005501 ATP binding site [chemical binding]; other site 1232381005502 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 1232381005503 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1232381005504 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1232381005505 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1232381005506 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1232381005507 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1232381005508 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1232381005509 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 1232381005510 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 1232381005511 putative substrate binding site [chemical binding]; other site 1232381005512 putative ATP binding site [chemical binding]; other site 1232381005513 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 1232381005514 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 1232381005515 active site 1232381005516 phosphorylation site [posttranslational modification] 1232381005517 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 1232381005518 active site 1232381005519 P-loop; other site 1232381005520 phosphorylation site [posttranslational modification] 1232381005521 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 1232381005522 Phosphotransferase System HPr (HPr) Family; Region: PTS_HPr_family; TIGR01003 1232381005523 dimerization domain swap beta strand [polypeptide binding]; other site 1232381005524 regulatory protein interface [polypeptide binding]; other site 1232381005525 active site 1232381005526 regulatory phosphorylation site [posttranslational modification]; other site 1232381005527 Transcriptional regulator, effector-binding domain/component [Transcription / Signal transduction mechanisms]; Region: COG4978 1232381005528 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 1232381005529 GTPases [General function prediction only]; Region: HflX; COG2262 1232381005530 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1232381005531 HflX GTPase family; Region: HflX; cd01878 1232381005532 G1 box; other site 1232381005533 GTP/Mg2+ binding site [chemical binding]; other site 1232381005534 Switch I region; other site 1232381005535 G2 box; other site 1232381005536 G3 box; other site 1232381005537 Switch II region; other site 1232381005538 G4 box; other site 1232381005539 G5 box; other site 1232381005540 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1232381005541 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1232381005542 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1232381005543 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1232381005544 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1232381005545 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 1232381005546 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 1232381005547 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 1232381005548 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1232381005549 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14326 1232381005550 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1232381005551 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 1232381005552 FeS/SAM binding site; other site 1232381005553 TRAM domain; Region: TRAM; cl01282 1232381005554 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1232381005555 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1232381005556 Walker A/P-loop; other site 1232381005557 ATP binding site [chemical binding]; other site 1232381005558 Q-loop/lid; other site 1232381005559 ABC transporter signature motif; other site 1232381005560 Walker B; other site 1232381005561 D-loop; other site 1232381005562 H-loop/switch region; other site 1232381005563 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 1232381005564 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 1232381005565 substrate binding pocket [chemical binding]; other site 1232381005566 membrane-bound complex binding site; other site 1232381005567 hinge residues; other site 1232381005568 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1232381005569 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1232381005570 dimer interface [polypeptide binding]; other site 1232381005571 conserved gate region; other site 1232381005572 putative PBP binding loops; other site 1232381005573 ABC-ATPase subunit interface; other site 1232381005574 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1232381005575 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1232381005576 dimer interface [polypeptide binding]; other site 1232381005577 conserved gate region; other site 1232381005578 putative PBP binding loops; other site 1232381005579 ABC-ATPase subunit interface; other site 1232381005580 Uncharacterized protein conserved in bacteria [General function prediction only]; Region: OraA; COG2137 1232381005581 recombinase A; Provisional; Region: recA; PRK09354 1232381005582 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 1232381005583 hexamer interface [polypeptide binding]; other site 1232381005584 Walker A motif; other site 1232381005585 ATP binding site [chemical binding]; other site 1232381005586 Walker B motif; other site 1232381005587 Protein of unknown function (DUF3046); Region: DUF3046; pfam11248 1232381005588 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl17272 1232381005589 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1232381005590 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1232381005591 Walker A/P-loop; other site 1232381005592 ATP binding site [chemical binding]; other site 1232381005593 Q-loop/lid; other site 1232381005594 ABC transporter signature motif; other site 1232381005595 Walker B; other site 1232381005596 D-loop; other site 1232381005597 H-loop/switch region; other site 1232381005598 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 1232381005599 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 1232381005600 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 1232381005601 non-specific DNA binding site [nucleotide binding]; other site 1232381005602 salt bridge; other site 1232381005603 sequence-specific DNA binding site [nucleotide binding]; other site 1232381005604 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 1232381005605 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 1232381005606 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2350 1232381005607 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 1232381005608 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1232381005609 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1232381005610 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1232381005611 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1232381005612 TIGR03085 family protein; Region: TIGR03085 1232381005613 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; pfam11716 1232381005614 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1232381005615 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1232381005616 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1232381005617 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1232381005618 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1232381005619 dimer interface [polypeptide binding]; other site 1232381005620 active site 1232381005621 catalytic residue [active] 1232381005622 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 1232381005623 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1232381005624 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1232381005625 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1232381005626 guanosine pentaphosphate synthetase I/polynucleotide phosphorylase; Region: pppGpp_PNP; TIGR02696 1232381005627 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 1232381005628 oligomer interface [polypeptide binding]; other site 1232381005629 RNA binding site [nucleotide binding]; other site 1232381005630 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1232381005631 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1232381005632 RNase E interface [polypeptide binding]; other site 1232381005633 trimer interface [polypeptide binding]; other site 1232381005634 active site 1232381005635 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 1232381005636 putative nucleic acid binding region [nucleotide binding]; other site 1232381005637 G-X-X-G motif; other site 1232381005638 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 1232381005639 RNA binding site [nucleotide binding]; other site 1232381005640 domain interface; other site 1232381005641 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 1232381005642 16S/18S rRNA binding site [nucleotide binding]; other site 1232381005643 S13e-L30e interaction site [polypeptide binding]; other site 1232381005644 25S rRNA binding site [nucleotide binding]; other site 1232381005645 NH_hydro_CaPnhB: A subgroup of nucleoside hydrolases similar to Corynebacterium ammoniagenes Purine/pyrimidine nucleoside hydrolase (pnhB). Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These...; Region: nuc_hydro_CaPnhB; cd02650 1232381005646 active site 1232381005647 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1232381005648 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1232381005649 Riboflavin kinase; Region: Flavokinase; smart00904 1232381005650 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK03287 1232381005651 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1232381005652 RNA binding site [nucleotide binding]; other site 1232381005653 active site 1232381005654 tRNA Pseudouridine synthase II, C terminal; Region: TruB_C; pfam09142 1232381005655 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 1232381005656 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 1232381005657 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 1232381005658 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1232381005659 active site 1232381005660 metal binding site [ion binding]; metal-binding site 1232381005661 putative phosphoesterase; Region: acc_ester; TIGR03729 1232381005662 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1232381005663 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 1232381005664 DHH family; Region: DHH; pfam01368 1232381005665 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 1232381005666 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1232381005667 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1232381005668 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1232381005669 Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]; Region: InfB; COG0532 1232381005670 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1232381005671 G1 box; other site 1232381005672 putative GEF interaction site [polypeptide binding]; other site 1232381005673 GTP/Mg2+ binding site [chemical binding]; other site 1232381005674 Switch I region; other site 1232381005675 G2 box; other site 1232381005676 G3 box; other site 1232381005677 Switch II region; other site 1232381005678 G4 box; other site 1232381005679 G5 box; other site 1232381005680 This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell; Region: IF2_mtIF2_II; cd03702 1232381005681 Translation-initiation factor 2; Region: IF-2; pfam11987 1232381005682 mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation factor...; Region: mtIF2_IVc; cd03692 1232381005683 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cl00189 1232381005684 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 1232381005685 NusA N-terminal domain; Region: NusA_N; pfam08529 1232381005686 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 1232381005687 RNA binding site [nucleotide binding]; other site 1232381005688 homodimer interface [polypeptide binding]; other site 1232381005689 NusA-like KH domain; Region: KH_5; pfam13184 1232381005690 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 1232381005691 G-X-X-G motif; other site 1232381005692 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1232381005693 Sm and related proteins; Region: Sm_like; cl00259 1232381005694 Sm and related proteins; Region: Sm_like; cl00259 1232381005695 heptamer interface [polypeptide binding]; other site 1232381005696 Sm1 motif; other site 1232381005697 hexamer interface [polypeptide binding]; other site 1232381005698 RNA binding site [nucleotide binding]; other site 1232381005699 Sm2 motif; other site 1232381005700 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1232381005701 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 1232381005702 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1232381005703 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1232381005704 dimer interface [polypeptide binding]; other site 1232381005705 conserved gate region; other site 1232381005706 ABC-ATPase subunit interface; other site 1232381005707 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1232381005708 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1232381005709 dimer interface [polypeptide binding]; other site 1232381005710 conserved gate region; other site 1232381005711 putative PBP binding loops; other site 1232381005712 ABC-ATPase subunit interface; other site 1232381005713 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1232381005714 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1232381005715 Walker A/P-loop; other site 1232381005716 ATP binding site [chemical binding]; other site 1232381005717 Q-loop/lid; other site 1232381005718 ABC transporter signature motif; other site 1232381005719 Walker B; other site 1232381005720 D-loop; other site 1232381005721 H-loop/switch region; other site 1232381005722 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1232381005723 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1232381005724 Walker A/P-loop; other site 1232381005725 ATP binding site [chemical binding]; other site 1232381005726 Q-loop/lid; other site 1232381005727 ABC transporter signature motif; other site 1232381005728 Walker B; other site 1232381005729 D-loop; other site 1232381005730 H-loop/switch region; other site 1232381005731 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1232381005732 prolyl-tRNA synthetase; Provisional; Region: PRK09194 1232381005733 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 1232381005734 dimer interface [polypeptide binding]; other site 1232381005735 motif 1; other site 1232381005736 active site 1232381005737 motif 2; other site 1232381005738 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 1232381005739 putative deacylase active site [active] 1232381005740 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 1232381005741 active site 1232381005742 motif 3; other site 1232381005743 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 1232381005744 anticodon binding site; other site 1232381005745 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3022 1232381005746 Mg-chelatase subunit ChlD [Coenzyme metabolism]; Region: ChlD; COG1240 1232381005747 Magnesium chelatase: Mg-chelatase catalyses the insertion of Mg into protoporphyrin IX (Proto). In chlorophyll biosynthesis, insertion of Mg2+ into protoporphyrin IX is catalysed by magnesium chelatase in an ATP-dependent reaction. Magnesium chelatase is...; Region: vWA_Magnesium_chelatase; cd01451 1232381005748 metal ion-dependent adhesion site (MIDAS); other site 1232381005749 Mg-chelatase subunit ChlI [Coenzyme metabolism]; Region: ChlI; COG1239 1232381005750 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 1232381005751 Walker A motif; other site 1232381005752 ATP binding site [chemical binding]; other site 1232381005753 Walker B motif; other site 1232381005754 arginine finger; other site 1232381005755 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1232381005756 diphthine synthase; Region: dph5; TIGR00522 1232381005757 active site 1232381005758 SAM binding site [chemical binding]; other site 1232381005759 homodimer interface [polypeptide binding]; other site 1232381005760 Uncharacterized conserved protein [Function unknown]; Region: COG0397 1232381005761 hypothetical protein; Validated; Region: PRK00029 1232381005762 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 1232381005763 dimer interface [polypeptide binding]; other site 1232381005764 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 1232381005765 dimer interface [polypeptide binding]; other site 1232381005766 malate:quinone oxidoreductase; Validated; Region: PRK05257 1232381005767 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 1232381005768 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1232381005769 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1232381005770 mycothione reductase; Region: mycothione_red; TIGR03452 1232381005771 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1232381005772 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1232381005773 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 1232381005774 active site 1232381005775 NTF2-like N-terminal transpeptidase domain; Region: MecA_N; pfam05223 1232381005776 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1232381005777 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1232381005778 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1232381005779 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1232381005780 active site 1232381005781 phosphorylation site [posttranslational modification] 1232381005782 intermolecular recognition site; other site 1232381005783 dimerization interface [polypeptide binding]; other site 1232381005784 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 1232381005785 DNA binding residues [nucleotide binding] 1232381005786 dimerization interface [polypeptide binding]; other site 1232381005787 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1232381005788 Histidine kinase; Region: HisKA_3; pfam07730 1232381005789 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 1232381005790 Mg2+ binding site [ion binding]; other site 1232381005791 G-X-G motif; other site 1232381005792 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1232381005793 FtsX-like permease family; Region: FtsX; pfam02687 1232381005794 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1232381005795 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1232381005796 Walker A/P-loop; other site 1232381005797 ATP binding site [chemical binding]; other site 1232381005798 Q-loop/lid; other site 1232381005799 ABC transporter signature motif; other site 1232381005800 Walker B; other site 1232381005801 D-loop; other site 1232381005802 H-loop/switch region; other site 1232381005803 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 1232381005804 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1232381005805 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1232381005806 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 1232381005807 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 1232381005808 active site 1232381005809 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 1232381005810 protein binding site [polypeptide binding]; other site 1232381005811 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 1232381005812 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 1232381005813 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 1232381005814 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 1232381005815 Protein of unknown function (DUF2631); Region: DUF2631; pfam10939 1232381005816 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1232381005817 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1232381005818 Walker A/P-loop; other site 1232381005819 ATP binding site [chemical binding]; other site 1232381005820 Q-loop/lid; other site 1232381005821 ABC transporter signature motif; other site 1232381005822 Walker B; other site 1232381005823 D-loop; other site 1232381005824 H-loop/switch region; other site 1232381005825 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14459 1232381005826 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 1232381005827 FeS/SAM binding site; other site 1232381005828 Uncharacterized integral membrane protein [Function unknown]; Region: COG5416 1232381005829 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 1232381005830 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1232381005831 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1232381005832 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 1232381005833 hinge region; other site 1232381005834 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 1232381005835 putative nucleotide binding site [chemical binding]; other site 1232381005836 uridine monophosphate binding site [chemical binding]; other site 1232381005837 homohexameric interface [polypeptide binding]; other site 1232381005838 elongation factor Ts; Provisional; Region: tsf; PRK09377 1232381005839 UBA/TS-N domain; Region: UBA; pfam00627 1232381005840 Elongation factor TS; Region: EF_TS; pfam00889 1232381005841 Elongation factor TS; Region: EF_TS; pfam00889 1232381005842 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 1232381005843 rRNA interaction site [nucleotide binding]; other site 1232381005844 S8 interaction site; other site 1232381005845 putative laminin-1 binding site; other site 1232381005846 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1232381005847 Peptidase family M23; Region: Peptidase_M23; pfam01551 1232381005848 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1232381005849 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 1232381005850 active site 1232381005851 DNA binding site [nucleotide binding] 1232381005852 Int/Topo IB signature motif; other site 1232381005853 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 1232381005854 DNA protecting protein DprA; Region: dprA; TIGR00732 1232381005855 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 1232381005856 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1232381005857 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 1232381005858 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1232381005859 hypothetical protein; Reviewed; Region: PRK12497 1232381005860 Protein of unknown function (DUF2469); Region: DUF2469; pfam10611 1232381005861 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1232381005862 RNA/DNA hybrid binding site [nucleotide binding]; other site 1232381005863 active site 1232381005864 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1232381005865 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 1232381005866 Catalytic site [active] 1232381005867 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 1232381005868 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 1232381005869 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 1232381005870 siderophore binding site; other site 1232381005871 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1232381005872 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 1232381005873 active site 1232381005874 pyrophosphate binding site [ion binding]; other site 1232381005875 thiamine phosphate binding site [chemical binding]; other site 1232381005876 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 1232381005877 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 1232381005878 thiS-thiF/thiG interaction site; other site 1232381005879 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 1232381005880 ThiS interaction site; other site 1232381005881 putative active site [active] 1232381005882 tetramer interface [polypeptide binding]; other site 1232381005883 thiamine biosynthesis protein ThiF; Validated; Region: PRK05600 1232381005884 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 1232381005885 ATP binding site [chemical binding]; other site 1232381005886 substrate interface [chemical binding]; other site 1232381005887 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 1232381005888 active site residue [active] 1232381005889 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1232381005890 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1232381005891 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1232381005892 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 1232381005893 RNA binding site [nucleotide binding]; other site 1232381005894 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1232381005895 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1232381005896 DNA binding site [nucleotide binding] 1232381005897 domain linker motif; other site 1232381005898 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 1232381005899 dimerization interface [polypeptide binding]; other site 1232381005900 ligand binding site [chemical binding]; other site 1232381005901 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 1232381005902 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1232381005903 transmembrane helices; other site 1232381005904 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 1232381005905 potential frameshift: common BLAST hit: gi|62390884|ref|YP_226286.1| 3-carboxy-cis,cis-muconate cycloisomerase 1232381005906 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1232381005907 Helix-turn-helix domain; Region: HTH_38; pfam13936 1232381005908 Homeodomain-like domain; Region: HTH_32; pfam13565 1232381005909 Integrase core domain; Region: rve; pfam00665 1232381005910 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1232381005911 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1232381005912 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1232381005913 Protein of unknown function (DUF4232); Region: DUF4232; pfam14016 1232381005914 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1232381005915 RimM N-terminal domain; Region: RimM; pfam01782 1232381005916 PRC-barrel domain; Region: PRC; pfam05239 1232381005917 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1232381005918 30S ribosomal protein S16; Provisional; Region: rpsP; PRK14520 1232381005919 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 1232381005920 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1232381005921 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 1232381005922 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1232381005923 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1232381005924 Walker A/P-loop; other site 1232381005925 ATP binding site [chemical binding]; other site 1232381005926 Q-loop/lid; other site 1232381005927 ABC transporter signature motif; other site 1232381005928 Walker B; other site 1232381005929 D-loop; other site 1232381005930 H-loop/switch region; other site 1232381005931 signal recognition particle protein; Provisional; Region: PRK10867 1232381005932 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1232381005933 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 1232381005934 P loop; other site 1232381005935 GTP binding site [chemical binding]; other site 1232381005936 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1232381005937 PII uridylyl-transferase; Provisional; Region: glnD; PRK00227 1232381005938 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1232381005939 metal binding triad; other site 1232381005940 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1232381005941 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1232381005942 Zn2+ binding site [ion binding]; other site 1232381005943 Mg2+ binding site [ion binding]; other site 1232381005944 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1232381005945 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1232381005946 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 1232381005947 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1232381005948 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1232381005949 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 1232381005950 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 1232381005951 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1232381005952 Walker A/P-loop; other site 1232381005953 ATP binding site [chemical binding]; other site 1232381005954 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; pfam06470 1232381005955 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1232381005956 ABC transporter signature motif; other site 1232381005957 Walker B; other site 1232381005958 D-loop; other site 1232381005959 H-loop/switch region; other site 1232381005960 acylphosphatase; Provisional; Region: PRK14422 1232381005961 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 1232381005962 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1232381005963 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1232381005964 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1232381005965 DNA binding site [nucleotide binding] 1232381005966 catalytic residue [active] 1232381005967 H2TH interface [polypeptide binding]; other site 1232381005968 putative catalytic residues [active] 1232381005969 turnover-facilitating residue; other site 1232381005970 intercalation triad [nucleotide binding]; other site 1232381005971 8OG recognition residue [nucleotide binding]; other site 1232381005972 putative reading head residues; other site 1232381005973 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1232381005974 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1232381005975 ribonuclease III; Reviewed; Region: rnc; PRK00102 1232381005976 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 1232381005977 dimerization interface [polypeptide binding]; other site 1232381005978 active site 1232381005979 metal binding site [ion binding]; metal-binding site 1232381005980 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 1232381005981 dsRNA binding site [nucleotide binding]; other site 1232381005982 Predicted metal-binding, possibly nucleic acid-binding protein [General function prediction only]; Region: COG1399 1232381005983 Cell division initiation protein [Cell division and chromosome partitioning]; Region: DivIVA; COG3599 1232381005984 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 1232381005985 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1232381005986 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1232381005987 Walker A/P-loop; other site 1232381005988 ATP binding site [chemical binding]; other site 1232381005989 Q-loop/lid; other site 1232381005990 ABC transporter signature motif; other site 1232381005991 Walker B; other site 1232381005992 D-loop; other site 1232381005993 H-loop/switch region; other site 1232381005994 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1232381005995 Walker A/P-loop; other site 1232381005996 ATP binding site [chemical binding]; other site 1232381005997 ABC transporter; Region: ABC_tran; pfam00005 1232381005998 Q-loop/lid; other site 1232381005999 ABC transporter signature motif; other site 1232381006000 Walker B; other site 1232381006001 D-loop; other site 1232381006002 H-loop/switch region; other site 1232381006003 glutamate dehydrogenase; Provisional; Region: PRK09414 1232381006004 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1232381006005 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 1232381006006 NAD(P) binding site [chemical binding]; other site 1232381006007 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 1232381006008 Galactose-1-phosphate uridylyltransferase [Energy production and conversion]; Region: GalT; COG1085 1232381006009 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 1232381006010 nucleotide binding site/active site [active] 1232381006011 HIT family signature motif; other site 1232381006012 catalytic residue [active] 1232381006013 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1232381006014 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like6; cd05664 1232381006015 metal binding site [ion binding]; metal-binding site 1232381006016 putative dimer interface [polypeptide binding]; other site 1232381006017 This family is most closely related to the oligosaccharide phosphorylase domain family and other unidentified sequences. Oligosaccharide phosphorylase catalyzes the breakdown of oligosaccharides into glucose-1-phosphate units. They are important...; Region: GT1_Glycogen_Phosphorylase_like; cd04299 1232381006018 putative homodimer interface [polypeptide binding]; other site 1232381006019 putative active site pocket [active] 1232381006020 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 1232381006021 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 1232381006022 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_12; cd07255 1232381006023 putative metal binding site [ion binding]; other site 1232381006024 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 1232381006025 active site 1232381006026 pyruvate kinase; Provisional; Region: PRK06247 1232381006027 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 1232381006028 domain interfaces; other site 1232381006029 active site 1232381006030 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1232381006031 Indole-3-glycerol phosphate synthase [Amino acid transport and metabolism]; Region: TrpC; COG0134 1232381006032 phosphate binding site [ion binding]; other site 1232381006033 Tryptophan-associated transmembrane protein (Trp_oprn_chp); Region: Trp_oprn_chp; pfam09534 1232381006034 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 1232381006035 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 1232381006036 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1232381006037 substrate binding site [chemical binding]; other site 1232381006038 glutamase interaction surface [polypeptide binding]; other site 1232381006039 Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1; Region: IMPase_like; cd01637 1232381006040 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1232381006041 active site 1232381006042 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 1232381006043 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1232381006044 catalytic residues [active] 1232381006045 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 1232381006046 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1232381006047 putative active site [active] 1232381006048 oxyanion strand; other site 1232381006049 catalytic triad [active] 1232381006050 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381006051 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1232381006052 putative substrate translocation pore; other site 1232381006053 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1232381006054 putative active site pocket [active] 1232381006055 4-fold oligomerization interface [polypeptide binding]; other site 1232381006056 metal binding residues [ion binding]; metal-binding site 1232381006057 3-fold/trimer interface [polypeptide binding]; other site 1232381006058 histidinol-phosphate aminotransferase; Provisional; Region: PRK03317 1232381006059 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 1232381006060 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1232381006061 homodimer interface [polypeptide binding]; other site 1232381006062 catalytic residue [active] 1232381006063 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 1232381006064 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 1232381006065 NAD binding site [chemical binding]; other site 1232381006066 dimerization interface [polypeptide binding]; other site 1232381006067 product binding site; other site 1232381006068 substrate binding site [chemical binding]; other site 1232381006069 zinc binding site [ion binding]; other site 1232381006070 catalytic residues [active] 1232381006071 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 1232381006072 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 1232381006073 tetracycline repressor protein TetR; Provisional; Region: PRK13756 1232381006074 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1232381006075 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 1232381006076 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 1232381006077 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 1232381006078 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 1232381006079 active site 1232381006080 catalytic site [active] 1232381006081 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1232381006082 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 1232381006083 S-adenosylmethionine binding site [chemical binding]; other site 1232381006084 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 1232381006085 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 1232381006086 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1232381006087 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1232381006088 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1232381006089 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1232381006090 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1232381006091 DNA binding site [nucleotide binding] 1232381006092 domain linker motif; other site 1232381006093 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 1232381006094 dimerization interface [polypeptide binding]; other site 1232381006095 ligand binding site [chemical binding]; other site 1232381006096 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1232381006097 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1232381006098 Walker A/P-loop; other site 1232381006099 ATP binding site [chemical binding]; other site 1232381006100 Q-loop/lid; other site 1232381006101 ABC transporter signature motif; other site 1232381006102 Walker B; other site 1232381006103 D-loop; other site 1232381006104 H-loop/switch region; other site 1232381006105 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1232381006106 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 1232381006107 ABC-ATPase subunit interface; other site 1232381006108 dimer interface [polypeptide binding]; other site 1232381006109 putative PBP binding regions; other site 1232381006110 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 1232381006111 Periplasmic binding protein YvrC. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria and archaea. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct...; Region: YvrC; cd01143 1232381006112 putative binding site residues; other site 1232381006113 Predicted transcriptional regulators [Transcription]; Region: COG1733 1232381006114 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 1232381006115 dimerization interface [polypeptide binding]; other site 1232381006116 putative DNA binding site [nucleotide binding]; other site 1232381006117 putative Zn2+ binding site [ion binding]; other site 1232381006118 an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III; Region: DNA_pol_III_epsilon_like; cd06130 1232381006119 active site 1232381006120 catalytic site [active] 1232381006121 substrate binding site [chemical binding]; other site 1232381006122 Maltooligosyl trehalose synthase [Carbohydrate transport and metabolism]; Region: TreY; COG3280 1232381006123 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 1232381006124 active site 1232381006125 catalytic site [active] 1232381006126 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1232381006127 synthetase active site [active] 1232381006128 NTP binding site [chemical binding]; other site 1232381006129 metal binding site [ion binding]; metal-binding site 1232381006130 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 1232381006131 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 1232381006132 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 1232381006133 RNA binding surface [nucleotide binding]; other site 1232381006134 Uncharacterized conserved protein [Function unknown]; Region: COG1739 1232381006135 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1232381006136 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 1232381006137 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 1232381006138 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 1232381006139 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 1232381006140 catalytic site [active] 1232381006141 active site 1232381006142 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 1232381006143 threonine dehydratase; Validated; Region: PRK08639 1232381006144 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 1232381006145 tetramer interface [polypeptide binding]; other site 1232381006146 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1232381006147 catalytic residue [active] 1232381006148 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 1232381006149 putative Ile/Val binding site [chemical binding]; other site 1232381006150 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 1232381006151 substrate binding site [chemical binding]; other site 1232381006152 THF binding site; other site 1232381006153 zinc-binding site [ion binding]; other site 1232381006154 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1232381006155 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 1232381006156 active site 1232381006157 PHP Thumb interface [polypeptide binding]; other site 1232381006158 metal binding site [ion binding]; metal-binding site 1232381006159 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 1232381006160 generic binding surface II; other site 1232381006161 generic binding surface I; other site 1232381006162 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1232381006163 EamA-like transporter family; Region: EamA; cl17759 1232381006164 EamA-like transporter family; Region: EamA; cl17759 1232381006165 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 1232381006166 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1232381006167 Cation efflux family; Region: Cation_efflux; pfam01545 1232381006168 oxidoreductase; Provisional; Region: PRK06128 1232381006169 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1232381006170 NAD(P) binding site [chemical binding]; other site 1232381006171 active site 1232381006172 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 1232381006173 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 1232381006174 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 1232381006175 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Y4yA; Region: PLPDE_III_Y4yA_like; cd06842 1232381006176 dimer interface [polypeptide binding]; other site 1232381006177 active site 1232381006178 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1232381006179 catalytic residues [active] 1232381006180 substrate binding site [chemical binding]; other site 1232381006181 2,3-diaminopropionate biosynthesis protein SbnA; Region: PLP_SbnA_fam; TIGR03945 1232381006182 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 1232381006183 dimer interface [polypeptide binding]; other site 1232381006184 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1232381006185 catalytic residue [active] 1232381006186 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1232381006187 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1232381006188 active site 1232381006189 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 1232381006190 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1232381006191 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1232381006192 Walker A/P-loop; other site 1232381006193 ATP binding site [chemical binding]; other site 1232381006194 Q-loop/lid; other site 1232381006195 ABC transporter signature motif; other site 1232381006196 Walker B; other site 1232381006197 D-loop; other site 1232381006198 H-loop/switch region; other site 1232381006199 ABC transporter; Region: ABC_tran_2; pfam12848 1232381006200 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1232381006201 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 1232381006202 active site 1232381006203 homotetramer interface [polypeptide binding]; other site 1232381006204 homodimer interface [polypeptide binding]; other site 1232381006205 DNA polymerase IV; Provisional; Region: PRK03348 1232381006206 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1232381006207 active site 1232381006208 DNA binding site [nucleotide binding] 1232381006209 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 1232381006210 Helix-Turn-Helix DNA binding domain of the transcription regulators NolA and AlbR; Region: HTH_NolA-AlbR; cd04788 1232381006211 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1232381006212 DNA binding residues [nucleotide binding] 1232381006213 putative dimer interface [polypeptide binding]; other site 1232381006214 HEAT repeats; Region: HEAT_2; pfam13646 1232381006215 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 1232381006216 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1232381006217 HIGH motif; other site 1232381006218 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1232381006219 active site 1232381006220 KMSKS motif; other site 1232381006221 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 1232381006222 tRNA binding surface [nucleotide binding]; other site 1232381006223 anticodon binding site; other site 1232381006224 DivIVA protein; Region: DivIVA; pfam05103 1232381006225 DivIVA domain; Region: DivI1A_domain; TIGR03544 1232381006226 Cell division initiation protein [Cell division and chromosome partitioning]; Region: DivIVA; COG3599 1232381006227 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 1232381006228 Predicted integral membrane protein [Function unknown]; Region: COG0762 1232381006229 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1799 1232381006230 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 1232381006231 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1232381006232 catalytic residue [active] 1232381006233 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1232381006234 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 1232381006235 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 1232381006236 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 1232381006237 nucleotide binding site [chemical binding]; other site 1232381006238 SulA interaction site; other site 1232381006239 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 1232381006240 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1232381006241 Cell division protein FtsQ; Region: FtsQ; pfam03799 1232381006242 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1232381006243 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1232381006244 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1232381006245 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1232381006246 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1232381006247 MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl pentapeptide...; Region: GT1_MurG; cd03785 1232381006248 active site 1232381006249 homodimer interface [polypeptide binding]; other site 1232381006250 cell division protein FtsW; Region: ftsW; TIGR02614 1232381006251 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK00141 1232381006252 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1232381006253 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1232381006254 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1232381006255 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of...; Region: GT_MraY; cd06852 1232381006256 Mg++ binding site [ion binding]; other site 1232381006257 putative catalytic motif [active] 1232381006258 putative substrate binding site [chemical binding]; other site 1232381006259 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 1232381006260 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1232381006261 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1232381006262 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1232381006263 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1232381006264 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1232381006265 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1232381006266 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1232381006267 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1232381006268 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1232381006269 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1232381006270 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 1232381006271 MraW methylase family; Region: Methyltransf_5; cl17771 1232381006272 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2001 1232381006273 MraZ protein; Region: MraZ; pfam02381 1232381006274 MraZ protein; Region: MraZ; pfam02381 1232381006275 Protein of unknown function (DUF3040); Region: DUF3040; pfam11239 1232381006276 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1232381006277 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1232381006278 Coenzyme A binding pocket [chemical binding]; other site 1232381006279 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 1232381006280 FAD binding site [chemical binding]; other site 1232381006281 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1232381006282 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1232381006283 substrate binding pocket [chemical binding]; other site 1232381006284 chain length determination region; other site 1232381006285 substrate-Mg2+ binding site; other site 1232381006286 catalytic residues [active] 1232381006287 aspartate-rich region 1; other site 1232381006288 active site lid residues [active] 1232381006289 aspartate-rich region 2; other site 1232381006290 carotene biosynthesis associated membrane protein; Region: crt_membr; TIGR03459 1232381006291 Helix-turn-helix domain; Region: HTH_17; pfam12728 1232381006292 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1232381006293 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1232381006294 active site 1232381006295 ATP binding site [chemical binding]; other site 1232381006296 substrate binding site [chemical binding]; other site 1232381006297 activation loop (A-loop); other site 1232381006298 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 1232381006299 PASTA domain; Region: PASTA; pfam03793 1232381006300 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 1232381006301 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 1232381006302 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 1232381006303 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 1232381006304 Protein of unknown function (DUF2029); Region: DUF2029; cl09812 1232381006305 Protein of unknown function (DUF2029); Region: DUF2029; pfam09594 1232381006306 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 1232381006307 Protein of unknown function (DUF2029); Region: DUF2029; cl09812 1232381006308 Putative esterase; Region: Esterase; pfam00756 1232381006309 Predicted membrane protein [Function unknown]; Region: COG4763 1232381006310 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1232381006311 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1232381006312 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1232381006313 putative acyl-acceptor binding pocket; other site 1232381006314 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 1232381006315 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1232381006316 nucleotide binding site [chemical binding]; other site 1232381006317 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1232381006318 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 1232381006319 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 1232381006320 Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; Region: SPEC; cl02488 1232381006321 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1232381006322 NlpC/P60 family; Region: NLPC_P60; pfam00877 1232381006323 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1232381006324 NlpC/P60 family; Region: NLPC_P60; pfam00877 1232381006325 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 1232381006326 heme bH binding site [chemical binding]; other site 1232381006327 intrachain domain interface; other site 1232381006328 heme bL binding site [chemical binding]; other site 1232381006329 interchain domain interface [polypeptide binding]; other site 1232381006330 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N_2; pfam13631 1232381006331 Qo binding site; other site 1232381006332 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 1232381006333 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 1232381006334 iron-sulfur cluster [ion binding]; other site 1232381006335 [2Fe-2S] cluster binding site [ion binding]; other site 1232381006336 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1232381006337 Cytochrome c; Region: Cytochrom_C; pfam00034 1232381006338 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1232381006339 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cd00386 1232381006340 Subunit I/III interface [polypeptide binding]; other site 1232381006341 Cytochrome c oxidase subunit IV; Region: Cyt_c_ox_IV; pfam12270 1232381006342 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 1232381006343 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1232381006344 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 1232381006345 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 1232381006346 active site 1232381006347 dimer interface [polypeptide binding]; other site 1232381006348 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 1232381006349 Ligand Binding Site [chemical binding]; other site 1232381006350 Molecular Tunnel; other site 1232381006351 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 1232381006352 Protein of unknown function (DUF3043); Region: DUF3043; pfam11241 1232381006353 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 1232381006354 homotrimer interface [polypeptide binding]; other site 1232381006355 Walker A motif; other site 1232381006356 GTP binding site [chemical binding]; other site 1232381006357 Walker B motif; other site 1232381006358 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 1232381006359 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 1232381006360 putative dimer interface [polypeptide binding]; other site 1232381006361 active site pocket [active] 1232381006362 putative cataytic base [active] 1232381006363 cobalamin synthase; Reviewed; Region: cobS; PRK00235 1232381006364 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1232381006365 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1232381006366 NAD(P) binding site [chemical binding]; other site 1232381006367 active site 1232381006368 Branched-chain amino acid aminotransferase; Region: DUF3665; pfam12427 1232381006369 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 1232381006370 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 1232381006371 homodimer interface [polypeptide binding]; other site 1232381006372 substrate-cofactor binding pocket; other site 1232381006373 catalytic residue [active] 1232381006374 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 1232381006375 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1232381006376 interface (dimer of trimers) [polypeptide binding]; other site 1232381006377 Substrate-binding/catalytic site; other site 1232381006378 Zn-binding sites [ion binding]; other site 1232381006379 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 1232381006380 E3 interaction surface; other site 1232381006381 lipoyl attachment site [posttranslational modification]; other site 1232381006382 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 1232381006383 E3 interaction surface; other site 1232381006384 lipoyl attachment site [posttranslational modification]; other site 1232381006385 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 1232381006386 E3 interaction surface; other site 1232381006387 lipoyl attachment site [posttranslational modification]; other site 1232381006388 e3 binding domain; Region: E3_binding; pfam02817 1232381006389 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11857 1232381006390 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1232381006391 lipoate-protein ligase B; Provisional; Region: PRK14345 1232381006392 lipoyl synthase; Provisional; Region: PRK05481 1232381006393 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 1232381006394 FeS/SAM binding site; other site 1232381006395 Domain of unknown function (DUF4191); Region: DUF4191; pfam13829 1232381006396 Predicted permease [General function prediction only]; Region: COG2985 1232381006397 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 1232381006398 TrkA-C domain; Region: TrkA_C; pfam02080 1232381006399 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 1232381006400 hypothetical protein; Validated; Region: PRK09039 1232381006401 Integrase core domain; Region: rve; pfam00665 1232381006402 Integrase core domain; Region: rve_3; pfam13683 1232381006403 RDD family; Region: RDD; pfam06271 1232381006404 glutamine synthetase, type I; Region: GlnA; TIGR00653 1232381006405 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1232381006406 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1232381006407 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1232381006408 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_17; cd04676 1232381006409 nudix motif; other site 1232381006410 luciferase-type oxidoreductase, BA3436 family; Region: lucif_BA3436; TIGR03571 1232381006411 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1232381006412 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 1232381006413 homotrimer interaction site [polypeptide binding]; other site 1232381006414 putative active site [active] 1232381006415 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1232381006416 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 1232381006417 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1232381006418 catalytic residue [active] 1232381006419 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381006420 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1232381006421 putative substrate translocation pore; other site 1232381006422 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381006423 D-galactonate transporter; Region: 2A0114; TIGR00893 1232381006424 putative substrate translocation pore; other site 1232381006425 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cd00232 1232381006426 heme binding pocket [chemical binding]; other site 1232381006427 heme ligand [chemical binding]; other site 1232381006428 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14109 1232381006429 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1232381006430 metal binding triad; other site 1232381006431 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1232381006432 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1232381006433 metal binding triad; other site 1232381006434 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1232381006435 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1232381006436 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1232381006437 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1232381006438 CYTH-like (also known as triphosphate tunnel metalloenzyme (TTM)-like) Phosphatases; Region: CYTH-like_Pase; cd07374 1232381006439 putative active site; other site 1232381006440 putative metal binding residues [ion binding]; other site 1232381006441 signature motif; other site 1232381006442 putative triphosphate binding site [ion binding]; other site 1232381006443 CHAD domain; Region: CHAD; pfam05235 1232381006444 CHAD domain; Region: CHAD; pfam05235 1232381006445 Galactokinase [Carbohydrate transport and metabolism]; Region: GalK; COG0153 1232381006446 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 1232381006447 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1232381006448 RNB domain; Region: RNB; pfam00773 1232381006449 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 1232381006450 bifunctional RNase H/acid phosphatase; Provisional; Region: PRK07238 1232381006451 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 1232381006452 RNA/DNA hybrid binding site [nucleotide binding]; other site 1232381006453 active site 1232381006454 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 1232381006455 catalytic core [active] 1232381006456 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 1232381006457 Putative zinc ribbon domain; Region: DUF164; pfam02591 1232381006458 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1232381006459 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 1232381006460 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 1232381006461 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 1232381006462 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1232381006463 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 1232381006464 motif II; other site 1232381006465 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1232381006466 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1232381006467 active site 1232381006468 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 1232381006469 Protein of unknown function (DUF3052); Region: DUF3052; pfam11253 1232381006470 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 1232381006471 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 1232381006472 dimer interface [polypeptide binding]; other site 1232381006473 TPP-binding site [chemical binding]; other site 1232381006474 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 1232381006475 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1232381006476 Walker A/P-loop; other site 1232381006477 ATP binding site [chemical binding]; other site 1232381006478 Q-loop/lid; other site 1232381006479 ABC transporter signature motif; other site 1232381006480 Walker B; other site 1232381006481 D-loop; other site 1232381006482 H-loop/switch region; other site 1232381006483 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; cd06574 1232381006484 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1232381006485 TM-ABC transporter signature motif; other site 1232381006486 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 1232381006487 zinc binding site [ion binding]; other site 1232381006488 putative ligand binding site [chemical binding]; other site 1232381006489 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1232381006490 Serine hydrolase; Region: Ser_hydrolase; cl17834 1232381006491 acyl carrier protein; Provisional; Region: acpP; PRK00982 1232381006492 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 1232381006493 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 1232381006494 active site 1232381006495 motif I; other site 1232381006496 motif II; other site 1232381006497 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 1232381006498 Uncharacterized conserved protein [Function unknown]; Region: COG4850 1232381006499 Uncharacterized conserved protein (DUF2183); Region: DUF2183; pfam09949 1232381006500 Beta-lactamase; Region: Beta-lactamase; pfam00144 1232381006501 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1232381006502 Phosphodiesterase/alkaline phosphatase D [Inorganic ion transport and metabolism]; Region: PhoD; COG3540 1232381006503 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 1232381006504 putative active site [active] 1232381006505 putative metal binding site [ion binding]; other site 1232381006506 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1232381006507 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 1232381006508 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 1232381006509 DNA primase; Validated; Region: dnaG; PRK05667 1232381006510 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1232381006511 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1232381006512 TOPRIM_DnaG_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of proteins similar to Escherichia coli DnaG. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_DnaG_primases; cd03364 1232381006513 active site 1232381006514 metal binding site [ion binding]; metal-binding site 1232381006515 interdomain interaction site; other site 1232381006516 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1232381006517 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; smart00766 1232381006518 RNase_Sa. Ribonucleases first isolated from Streptomyces aureofaciens. In general, ribonucleases cleave phosphodiester bonds in RNA and are essential for both non-specific RNA degradation and for numerous forms of RNA processing. RNAse Sa is a guanylate...; Region: RNase_Sa; cd00607 1232381006519 active site 1232381006520 barstar interaction site; other site 1232381006521 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1232381006522 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 1232381006523 glutaminase active site [active] 1232381006524 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 1232381006525 dimer interface [polypeptide binding]; other site 1232381006526 active site 1232381006527 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 1232381006528 dimer interface [polypeptide binding]; other site 1232381006529 active site 1232381006530 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK03007 1232381006531 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1232381006532 Zn2+ binding site [ion binding]; other site 1232381006533 Mg2+ binding site [ion binding]; other site 1232381006534 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1232381006535 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 1232381006536 putative active site [active] 1232381006537 Repair protein; Region: Repair_PSII; pfam04536 1232381006538 glycyl-tRNA synthetase; Provisional; Region: PRK04173 1232381006539 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 1232381006540 motif 1; other site 1232381006541 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3...; Region: GlyRS-like_core; cd00774 1232381006542 active site 1232381006543 motif 2; other site 1232381006544 motif 3; other site 1232381006545 GlyRS Glycyl-anticodon binding domain. GlyRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: GlyRS_anticodon; cd00858 1232381006546 anticodon binding site; other site 1232381006547 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 1232381006548 dimerization interface [polypeptide binding]; other site 1232381006549 putative DNA binding site [nucleotide binding]; other site 1232381006550 putative Zn2+ binding site [ion binding]; other site 1232381006551 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1232381006552 metal binding site 2 [ion binding]; metal-binding site 1232381006553 putative DNA binding helix; other site 1232381006554 metal binding site 1 [ion binding]; metal-binding site 1232381006555 dimer interface [polypeptide binding]; other site 1232381006556 structural Zn2+ binding site [ion binding]; other site 1232381006557 Domain of unknown function (DUF222); Region: DUF222; pfam02720 1232381006558 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 1232381006559 active site 1232381006560 Ferritin-CCC1, N-terminal ferritin-like diiron-binding domain; Region: Ferritin_CCC1_N; cd01044 1232381006561 diiron binding motif [ion binding]; other site 1232381006562 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_2; cd02433 1232381006563 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14829 1232381006564 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 1232381006565 catalytic residue [active] 1232381006566 putative FPP diphosphate binding site; other site 1232381006567 putative FPP binding hydrophobic cleft; other site 1232381006568 dimer interface [polypeptide binding]; other site 1232381006569 putative IPP diphosphate binding site; other site 1232381006570 Recombination protein O N terminal; Region: RecO_N; pfam11967 1232381006571 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 1232381006572 Recombination protein O C terminal; Region: RecO_C; pfam02565 1232381006573 GTPase Era; Reviewed; Region: era; PRK00089 1232381006574 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1232381006575 G1 box; other site 1232381006576 GTP/Mg2+ binding site [chemical binding]; other site 1232381006577 Switch I region; other site 1232381006578 G2 box; other site 1232381006579 Switch II region; other site 1232381006580 G3 box; other site 1232381006581 G4 box; other site 1232381006582 G5 box; other site 1232381006583 KH domain; Region: KH_2; pfam07650 1232381006584 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1232381006585 Domain of unknown function DUF21; Region: DUF21; pfam01595 1232381006586 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 1232381006587 Transporter associated domain; Region: CorC_HlyC; smart01091 1232381006588 metal-binding heat shock protein; Provisional; Region: PRK00016 1232381006589 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1232381006590 PhoH-like protein; Region: PhoH; pfam02562 1232381006591 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 1232381006592 RNA methyltransferase, RsmE family; Region: TIGR00046 1232381006593 chaperone protein DnaJ; Provisional; Region: PRK14278 1232381006594 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 1232381006595 HSP70 interaction site [polypeptide binding]; other site 1232381006596 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1232381006597 Zn binding sites [ion binding]; other site 1232381006598 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1232381006599 dimer interface [polypeptide binding]; other site 1232381006600 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 1232381006601 coproporphyrinogen III oxidase; Validated; Region: PRK05628 1232381006602 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 1232381006603 FeS/SAM binding site; other site 1232381006604 HemN C-terminal domain; Region: HemN_C; pfam06969 1232381006605 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 1232381006606 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 1232381006607 acyl-activating enzyme (AAE) consensus motif; other site 1232381006608 putative AMP binding site [chemical binding]; other site 1232381006609 putative active site [active] 1232381006610 putative CoA binding site [chemical binding]; other site 1232381006611 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 1232381006612 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 1232381006613 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1232381006614 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 1232381006615 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1232381006616 Walker A/P-loop; other site 1232381006617 ATP binding site [chemical binding]; other site 1232381006618 Q-loop/lid; other site 1232381006619 ABC transporter signature motif; other site 1232381006620 Walker B; other site 1232381006621 D-loop; other site 1232381006622 H-loop/switch region; other site 1232381006623 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 1232381006624 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1232381006625 active site 1232381006626 Zn binding site [ion binding]; other site 1232381006627 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 1232381006628 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 1232381006629 substrate binding pocket [chemical binding]; other site 1232381006630 catalytic triad [active] 1232381006631 trehalose synthase; Region: treS_nterm; TIGR02456 1232381006632 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 1232381006633 active site 1232381006634 catalytic site [active] 1232381006635 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 1232381006636 Isopentenyldiphosphate isomerase [Lipid metabolism]; Region: Idi; COG1443 1232381006637 Isopentenyl diphosphate (IPP) isomerase, a member of the Nudix hydrolase superfamily, is a key enzyme in the isoprenoid biosynthetic pathway. Isoprenoids comprise a large family of natural products including sterols, carotenoids, dolichols and prenylated...; Region: IPP_Isomerase; cd02885 1232381006638 active site 1232381006639 metal binding site [ion binding]; metal-binding site 1232381006640 nudix motif; other site 1232381006641 Protein of unknown function (DUF3558); Region: DUF3558; pfam12079 1232381006642 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 1232381006643 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 1232381006644 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1232381006645 homodimer interface [polypeptide binding]; other site 1232381006646 catalytic residue [active] 1232381006647 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 1232381006648 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1232381006649 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1232381006650 choline/carnitine/betaine transport; Region: bcct; TIGR00842 1232381006651 potential frameshift: common BLAST hit: gi|25026970|ref|NP_737024.1| TnpC protein 1232381006652 Hypothetical enzyme TM0436 resembles the zinc-dependent alcohol dehydrogenases (ADH); Region: MDR_TM0436_like; cd08231 1232381006653 catalytic Zn binding site [ion binding]; other site 1232381006654 putative phosphonate catabolism associated alcohol dehydrogenase; Region: HpnZ_proposed; TIGR03366 1232381006655 structural Zn binding site [ion binding]; other site 1232381006656 tetramer interface [polypeptide binding]; other site 1232381006657 phosphonatase-like hydrolase; Region: PhnX-like; TIGR03351 1232381006658 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 1232381006659 motif II; other site 1232381006660 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 1232381006661 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 1232381006662 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1232381006663 dimer interface [polypeptide binding]; other site 1232381006664 conserved gate region; other site 1232381006665 ABC-ATPase subunit interface; other site 1232381006666 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 1232381006667 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 1232381006668 Q-loop/lid; other site 1232381006669 ABC transporter signature motif; other site 1232381006670 Walker B; other site 1232381006671 D-loop; other site 1232381006672 H-loop/switch region; other site 1232381006673 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 1232381006674 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 1232381006675 substrate binding pocket [chemical binding]; other site 1232381006676 membrane-bound complex binding site; other site 1232381006677 hinge residues; other site 1232381006678 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1232381006679 FAD dependent oxidoreductase TIGR03364; Region: HpnW_proposed 1232381006680 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1232381006681 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1232381006682 DNA-binding site [nucleotide binding]; DNA binding site 1232381006683 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1232381006684 Predicted permeases [General function prediction only]; Region: COG0679 1232381006685 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1232381006686 FAD binding domain; Region: FAD_binding_4; pfam01565 1232381006687 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1232381006688 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1232381006689 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1232381006690 DNA-binding site [nucleotide binding]; DNA binding site 1232381006691 FCD domain; Region: FCD; pfam07729 1232381006692 DctM-like transporters; Region: DctM; pfam06808 1232381006693 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1232381006694 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1232381006695 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_6; cd08494 1232381006696 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1232381006697 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1232381006698 dimer interface [polypeptide binding]; other site 1232381006699 conserved gate region; other site 1232381006700 putative PBP binding loops; other site 1232381006701 ABC-ATPase subunit interface; other site 1232381006702 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1232381006703 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1232381006704 dimer interface [polypeptide binding]; other site 1232381006705 conserved gate region; other site 1232381006706 putative PBP binding loops; other site 1232381006707 ABC-ATPase subunit interface; other site 1232381006708 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1232381006709 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1232381006710 Walker A/P-loop; other site 1232381006711 ATP binding site [chemical binding]; other site 1232381006712 Q-loop/lid; other site 1232381006713 ABC transporter signature motif; other site 1232381006714 Walker B; other site 1232381006715 D-loop; other site 1232381006716 H-loop/switch region; other site 1232381006717 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1232381006718 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1232381006719 Walker A/P-loop; other site 1232381006720 ATP binding site [chemical binding]; other site 1232381006721 Q-loop/lid; other site 1232381006722 ABC transporter signature motif; other site 1232381006723 Walker B; other site 1232381006724 D-loop; other site 1232381006725 H-loop/switch region; other site 1232381006726 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1232381006727 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 1232381006728 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 1232381006729 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1232381006730 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 1232381006731 substrate binding site [chemical binding]; other site 1232381006732 dimer interface [polypeptide binding]; other site 1232381006733 ATP binding site [chemical binding]; other site 1232381006734 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1232381006735 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 1232381006736 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1232381006737 bile acid transporter; Region: bass; TIGR00841 1232381006738 Sodium Bile acid symporter family; Region: SBF; pfam01758 1232381006739 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 1232381006740 active site 1232381006741 phosphate binding residues; other site 1232381006742 catalytic residues [active] 1232381006743 malate synthase G; Provisional; Region: PRK02999 1232381006744 active site 1232381006745 isocitrate lyase; Provisional; Region: PRK15063 1232381006746 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 1232381006747 tetramer interface [polypeptide binding]; other site 1232381006748 active site 1232381006749 Mg2+/Mn2+ binding site [ion binding]; other site 1232381006750 Aquifex aeolicus AQ1575 and related proteins, metallophosphatase domain; Region: MPP_AQ1575; cd07390 1232381006751 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1232381006752 putative active site [active] 1232381006753 putative metal binding site [ion binding]; other site 1232381006754 Choline-glycine betaine transporter [Cell envelope biogenesis, outer membrane]; Region: BetT; COG1292 1232381006755 Lamin Tail Domain; Region: LTD; pfam00932 1232381006756 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 1232381006757 DctM-like transporters; Region: DctM; pfam06808 1232381006758 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1232381006759 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1232381006760 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1232381006761 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1232381006762 GTP-binding protein LepA; Provisional; Region: PRK05433 1232381006763 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1232381006764 G1 box; other site 1232381006765 putative GEF interaction site [polypeptide binding]; other site 1232381006766 GTP/Mg2+ binding site [chemical binding]; other site 1232381006767 Switch I region; other site 1232381006768 G2 box; other site 1232381006769 G3 box; other site 1232381006770 Switch II region; other site 1232381006771 G4 box; other site 1232381006772 G5 box; other site 1232381006773 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 1232381006774 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 1232381006775 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1232381006776 PemK-like protein; Region: PemK; pfam02452 1232381006777 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1232381006778 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1232381006779 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 1232381006780 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 1232381006781 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 1232381006782 hypothetical protein; Validated; Region: PRK05629 1232381006783 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1232381006784 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 1232381006785 Competence protein; Region: Competence; pfam03772 1232381006786 SLBB domain; Region: SLBB; pfam10531 1232381006787 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 1232381006788 Helix-hairpin-helix motif; Region: HHH; pfam00633 1232381006789 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DegV; COG1307 1232381006790 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 1232381006791 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 1232381006792 catalytic core [active] 1232381006793 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 1232381006794 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1232381006795 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1232381006796 active site 1232381006797 (T/H)XGH motif; other site 1232381006798 Cutinase; Region: Cutinase; pfam01083 1232381006799 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1232381006800 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1232381006801 putative catalytic cysteine [active] 1232381006802 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_2; cd12159 1232381006803 glycerate dehydrogenase; Provisional; Region: PRK06436 1232381006804 putative ligand binding site [chemical binding]; other site 1232381006805 putative NAD binding site [chemical binding]; other site 1232381006806 catalytic site [active] 1232381006807 glutamate 5-kinase; Region: proB; TIGR01027 1232381006808 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 1232381006809 nucleotide binding site [chemical binding]; other site 1232381006810 homotetrameric interface [polypeptide binding]; other site 1232381006811 putative phosphate binding site [ion binding]; other site 1232381006812 putative allosteric binding site; other site 1232381006813 PUA domain; Region: PUA; pfam01472 1232381006814 GTPase CgtA; Reviewed; Region: obgE; PRK12296 1232381006815 GTP1/OBG; Region: GTP1_OBG; pfam01018 1232381006816 Obg GTPase; Region: Obg; cd01898 1232381006817 G1 box; other site 1232381006818 GTP/Mg2+ binding site [chemical binding]; other site 1232381006819 Switch I region; other site 1232381006820 G2 box; other site 1232381006821 G3 box; other site 1232381006822 Switch II region; other site 1232381006823 G4 box; other site 1232381006824 G5 box; other site 1232381006825 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 1232381006826 xanthine permease; Region: pbuX; TIGR03173 1232381006827 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3195 1232381006828 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 1232381006829 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1232381006830 active site 1232381006831 catalytic tetrad [active] 1232381006832 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 1232381006833 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1232381006834 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1232381006835 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 1232381006836 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1232381006837 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 1232381006838 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 1232381006839 homodimer interface [polypeptide binding]; other site 1232381006840 oligonucleotide binding site [chemical binding]; other site 1232381006841 Pirin-related protein [General function prediction only]; Region: COG1741 1232381006842 Pirin; Region: Pirin; pfam02678 1232381006843 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1232381006844 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1232381006845 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1232381006846 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 1232381006847 active site 1232381006848 multimer interface [polypeptide binding]; other site 1232381006849 Predicted acetyltransferase [General function prediction only]; Region: COG2388 1232381006850 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 1232381006851 hydrophobic ligand binding site; other site 1232381006852 Protein of unknown function (DUF4233); Region: DUF4233; pfam14017 1232381006853 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 1232381006854 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1232381006855 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1232381006856 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1232381006857 active site 1232381006858 HIGH motif; other site 1232381006859 nucleotide binding site [chemical binding]; other site 1232381006860 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1232381006861 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1232381006862 active site 1232381006863 KMSKS motif; other site 1232381006864 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1232381006865 tRNA binding surface [nucleotide binding]; other site 1232381006866 anticodon binding site; other site 1232381006867 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1232381006868 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1232381006869 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 1232381006870 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 1232381006871 Actin-like ATPase involved in cell morphogenesis [Cell division and chromosome partitioning]; Region: MreB; COG1077 1232381006872 nucleotide binding site [chemical binding]; other site 1232381006873 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1232381006874 SBD interface [polypeptide binding]; other site 1232381006875 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 1232381006876 malate dehydrogenase; Provisional; Region: PRK05442 1232381006877 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 1232381006878 NAD(P) binding site [chemical binding]; other site 1232381006879 dimer interface [polypeptide binding]; other site 1232381006880 malate binding site [chemical binding]; other site 1232381006881 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1232381006882 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1232381006883 Predicted transcriptional regulators [Transcription]; Region: COG1695 1232381006884 Transcriptional regulator PadR-like family; Region: PadR; cl17335 1232381006885 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1232381006886 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 1232381006887 iron-sulfur cluster [ion binding]; other site 1232381006888 [2Fe-2S] cluster binding site [ion binding]; other site 1232381006889 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 1232381006890 alpha subunit interface [polypeptide binding]; other site 1232381006891 active site 1232381006892 substrate binding site [chemical binding]; other site 1232381006893 Fe binding site [ion binding]; other site 1232381006894 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1232381006895 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 1232381006896 FMN-binding pocket [chemical binding]; other site 1232381006897 flavin binding motif; other site 1232381006898 phosphate binding motif [ion binding]; other site 1232381006899 beta-alpha-beta structure motif; other site 1232381006900 NAD binding pocket [chemical binding]; other site 1232381006901 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 1232381006902 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1232381006903 catalytic loop [active] 1232381006904 iron binding site [ion binding]; other site 1232381006905 benzoate transport; Region: 2A0115; TIGR00895 1232381006906 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381006907 putative substrate translocation pore; other site 1232381006908 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381006909 Predicted permeases [General function prediction only]; Region: COG0679 1232381006910 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1232381006911 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 1232381006912 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 1232381006913 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 1232381006914 Walker A motif; other site 1232381006915 ATP binding site [chemical binding]; other site 1232381006916 Walker B motif; other site 1232381006917 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1232381006918 SGNH_hydrolase subfamily. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site...; Region: SGNH_hydrolase_like_6; cd01844 1232381006919 active site 1232381006920 catalytic triad [active] 1232381006921 oxyanion hole [active] 1232381006922 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 1232381006923 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 1232381006924 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 1232381006925 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1232381006926 Bacterial transcriptional regulator; Region: IclR; pfam01614 1232381006927 acetyl-CoA acetyltransferase; Provisional; Region: PRK06205 1232381006928 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 1232381006929 dimer interface [polypeptide binding]; other site 1232381006930 active site 1232381006931 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 1232381006932 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1232381006933 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 1232381006934 DNA binding residues [nucleotide binding] 1232381006935 dimerization interface [polypeptide binding]; other site 1232381006936 4-carboxymuconolactone decarboxylase; Region: decarb_PcaC; TIGR02425 1232381006937 3-carboxy-cis,cis-muconate cycloisomerase; Region: protocat_pcaB; TIGR02426 1232381006938 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 1232381006939 tetramer interface [polypeptide binding]; other site 1232381006940 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 1232381006941 protocatechuate 3,4-dioxygenase, alpha subunit; Region: protocat_alph; TIGR02423 1232381006942 active site 1232381006943 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 1232381006944 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 1232381006945 active site 1232381006946 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 1232381006947 active site 1232381006948 Muconolactone delta-isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CatC1; COG4829 1232381006949 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 1232381006950 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 1232381006951 metal binding site [ion binding]; metal-binding site 1232381006952 substrate binding pocket [chemical binding]; other site 1232381006953 catechol 1,2-dioxygenase, Actinobacterial; Region: catachol_actin; TIGR02438 1232381006954 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 1232381006955 active site 1232381006956 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 1232381006957 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 1232381006958 iron-sulfur cluster [ion binding]; other site 1232381006959 [2Fe-2S] cluster binding site [ion binding]; other site 1232381006960 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 1232381006961 putative alpha subunit interface [polypeptide binding]; other site 1232381006962 putative active site [active] 1232381006963 putative substrate binding site [chemical binding]; other site 1232381006964 Fe binding site [ion binding]; other site 1232381006965 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 1232381006966 inter-subunit interface; other site 1232381006967 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 1232381006968 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 1232381006969 catalytic loop [active] 1232381006970 iron binding site [ion binding]; other site 1232381006971 Benzoate dioxygenase reductase (BenDO) FAD/NAD binding domain. Oxygenases oxidize hydrocarbons using dioxygen as the oxidant. As a Class I bacterial dioxygenases, benzoate dioxygenase like proteins combine an [2Fe-2S] cluster containing N-terminal...; Region: BenDO_FAD_NAD; cd06209 1232381006972 FAD binding pocket [chemical binding]; other site 1232381006973 FAD binding motif [chemical binding]; other site 1232381006974 phosphate binding motif [ion binding]; other site 1232381006975 beta-alpha-beta structure motif; other site 1232381006976 NAD binding pocket [chemical binding]; other site 1232381006977 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1232381006978 FCD domain; Region: FCD; pfam07729 1232381006979 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase; Provisional; Region: benD; PRK12823 1232381006980 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1232381006981 NAD(P) binding site [chemical binding]; other site 1232381006982 active site 1232381006983 AAA ATPase domain; Region: AAA_16; pfam13191 1232381006984 AAA domain; Region: AAA_22; pfam13401 1232381006985 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1232381006986 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 1232381006987 DNA binding residues [nucleotide binding] 1232381006988 dimerization interface [polypeptide binding]; other site 1232381006989 benzoate transport; Region: 2A0115; TIGR00895 1232381006990 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381006991 putative substrate translocation pore; other site 1232381006992 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381006993 Uncharacterized protein involved in benzoate metabolism [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BenE; COG3135 1232381006994 benzoate transporter; Region: benE; TIGR00843 1232381006995 PAS domain; Region: PAS; smart00091 1232381006996 PAS domain; Region: PAS_9; pfam13426 1232381006997 putative active site [active] 1232381006998 heme pocket [chemical binding]; other site 1232381006999 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1232381007000 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 1232381007001 dimer interface [polypeptide binding]; other site 1232381007002 phosphorylation site [posttranslational modification] 1232381007003 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1232381007004 ATP binding site [chemical binding]; other site 1232381007005 Mg2+ binding site [ion binding]; other site 1232381007006 G-X-G motif; other site 1232381007007 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 1232381007008 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1232381007009 active site 1232381007010 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 1232381007011 [2Fe-2S] cluster binding site [ion binding]; other site 1232381007012 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 1232381007013 putative alpha subunit interface [polypeptide binding]; other site 1232381007014 putative active site [active] 1232381007015 putative substrate binding site [chemical binding]; other site 1232381007016 Fe binding site [ion binding]; other site 1232381007017 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 1232381007018 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1232381007019 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1232381007020 NAD(P) binding site [chemical binding]; other site 1232381007021 active site 1232381007022 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1232381007023 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 1232381007024 FMN-binding pocket [chemical binding]; other site 1232381007025 flavin binding motif; other site 1232381007026 phosphate binding motif [ion binding]; other site 1232381007027 beta-alpha-beta structure motif; other site 1232381007028 NAD binding pocket [chemical binding]; other site 1232381007029 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 1232381007030 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1232381007031 catalytic loop [active] 1232381007032 iron binding site [ion binding]; other site 1232381007033 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1232381007034 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 1232381007035 active site 1232381007036 phosphorylation site [posttranslational modification] 1232381007037 intermolecular recognition site; other site 1232381007038 dimerization interface [polypeptide binding]; other site 1232381007039 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 1232381007040 DNA binding residues [nucleotide binding] 1232381007041 dimerization interface [polypeptide binding]; other site 1232381007042 Amidase; Region: Amidase; cl11426 1232381007043 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381007044 putative substrate translocation pore; other site 1232381007045 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1232381007046 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 1232381007047 SnoaL-like domain; Region: SnoaL_4; pfam13577 1232381007048 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1232381007049 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 1232381007050 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 1232381007051 ATP-dependent Clp protease proteolytic subunit; Reviewed; Region: PRK12553 1232381007052 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1232381007053 oligomer interface [polypeptide binding]; other site 1232381007054 active site residues [active] 1232381007055 Clp protease; Region: CLP_protease; pfam00574 1232381007056 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1232381007057 oligomer interface [polypeptide binding]; other site 1232381007058 active site residues [active] 1232381007059 trigger factor; Provisional; Region: tig; PRK01490 1232381007060 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1232381007061 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1232381007062 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 1232381007063 dimerization interface [polypeptide binding]; other site 1232381007064 putative DNA binding site [nucleotide binding]; other site 1232381007065 putative Zn2+ binding site [ion binding]; other site 1232381007066 Beta-lactamase; Region: Beta-lactamase; pfam00144 1232381007067 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1232381007068 RDD family; Region: RDD; pfam06271 1232381007069 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 1232381007070 potential frameshift: common BLAST hit: gi|227833069|ref|YP_002834776.1| transposase 1232381007071 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 1232381007072 Protein of unknown function (DUF418); Region: DUF418; pfam04235 1232381007073 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1232381007074 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1232381007075 aminopeptidase N, Streptomyces lividans type; Region: pepN_strep_liv; TIGR02412 1232381007076 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_3; cd09602 1232381007077 Zn binding site [ion binding]; other site 1232381007078 HTH-like domain; Region: HTH_21; pfam13276 1232381007079 Integrase core domain; Region: rve; pfam00665 1232381007080 Integrase core domain; Region: rve_3; pfam13683 1232381007081 Transposase; Region: HTH_Tnp_1; cl17663 1232381007082 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1232381007083 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 1232381007084 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381007085 metabolite-proton symporter; Region: 2A0106; TIGR00883 1232381007086 putative substrate translocation pore; other site 1232381007087 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1232381007088 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 1232381007089 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 1232381007090 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 1232381007091 Benzyl alcohol dehydrogenase; Region: benzyl_alcohol_DH; cd08278 1232381007092 catalytic Zn binding site [ion binding]; other site 1232381007093 NAD binding site [chemical binding]; other site 1232381007094 structural Zn binding site [ion binding]; other site 1232381007095 NADP+-dependent p-hydroxybenzaldehyde dehydrogenase-like; Region: ALDH_HBenzADH; cd07151 1232381007096 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1232381007097 NAD(P) binding site [chemical binding]; other site 1232381007098 catalytic residues [active] 1232381007099 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1232381007100 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: PRK12745 1232381007101 NAD(P) binding site [chemical binding]; other site 1232381007102 active site 1232381007103 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 1232381007104 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1232381007105 NAD(P) binding site [chemical binding]; other site 1232381007106 active site 1232381007107 Putative cyclase; Region: Cyclase; pfam04199 1232381007108 phytoene desaturase; Region: crtI_fam; TIGR02734 1232381007109 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381007110 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1232381007111 putative substrate translocation pore; other site 1232381007112 CMD domain protein, Avi_7170 family; Region: CMD_Avi_7170; TIGR04029 1232381007113 alkylhydroperoxidase domain protein, Avi_7169 family; Region: perox_Avi_7169; TIGR04030 1232381007114 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 1232381007115 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1232381007116 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1232381007117 Walker A/P-loop; other site 1232381007118 ATP binding site [chemical binding]; other site 1232381007119 Q-loop/lid; other site 1232381007120 ABC transporter signature motif; other site 1232381007121 Walker B; other site 1232381007122 D-loop; other site 1232381007123 H-loop/switch region; other site 1232381007124 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1232381007125 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1232381007126 Walker A/P-loop; other site 1232381007127 ATP binding site [chemical binding]; other site 1232381007128 Q-loop/lid; other site 1232381007129 ABC transporter signature motif; other site 1232381007130 Walker B; other site 1232381007131 D-loop; other site 1232381007132 H-loop/switch region; other site 1232381007133 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1232381007134 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1232381007135 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1232381007136 putative PBP binding loops; other site 1232381007137 dimer interface [polypeptide binding]; other site 1232381007138 ABC-ATPase subunit interface; other site 1232381007139 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1232381007140 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1232381007141 dimer interface [polypeptide binding]; other site 1232381007142 conserved gate region; other site 1232381007143 putative PBP binding loops; other site 1232381007144 ABC-ATPase subunit interface; other site 1232381007145 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1232381007146 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_15; cd08492 1232381007147 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 1232381007148 hypothetical protein; Provisional; Region: PRK06062 1232381007149 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 1232381007150 inhibitor-cofactor binding pocket; inhibition site 1232381007151 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1232381007152 catalytic residue [active] 1232381007153 Protein of unknown function (DUF1541); Region: DUF1541; pfam07563 1232381007154 Protein of unknown function (DUF1541); Region: DUF1541; pfam07563 1232381007155 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 1232381007156 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1232381007157 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 1232381007158 motif II; other site 1232381007159 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1232381007160 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1232381007161 short chain dehydrogenase; Provisional; Region: PRK08219 1232381007162 HetN oxidoreductase-like, classical (c) SDR; Region: HetN_like_SDR_c; cd08932 1232381007163 putative NAD(P) binding site [chemical binding]; other site 1232381007164 active site 1232381007165 tetracycline repressor protein TetR; Provisional; Region: PRK13756 1232381007166 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1232381007167 cystathionine gamma-synthase; Provisional; Region: PRK07811 1232381007168 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 1232381007169 homodimer interface [polypeptide binding]; other site 1232381007170 substrate-cofactor binding pocket; other site 1232381007171 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1232381007172 catalytic residue [active] 1232381007173 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 1232381007174 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1232381007175 Walker A/P-loop; other site 1232381007176 ATP binding site [chemical binding]; other site 1232381007177 Q-loop/lid; other site 1232381007178 ABC transporter signature motif; other site 1232381007179 Walker B; other site 1232381007180 D-loop; other site 1232381007181 H-loop/switch region; other site 1232381007182 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1232381007183 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1232381007184 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 1232381007185 apolar tunnel; other site 1232381007186 heme binding site [chemical binding]; other site 1232381007187 dimerization interface [polypeptide binding]; other site 1232381007188 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 1232381007189 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 1232381007190 Chromate transporter; Region: Chromate_transp; pfam02417 1232381007191 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 1232381007192 active site 1232381007193 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 1232381007194 Sulfatase; Region: Sulfatase; cl17466 1232381007195 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 1232381007196 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 1232381007197 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1232381007198 Walker A/P-loop; other site 1232381007199 ATP binding site [chemical binding]; other site 1232381007200 Q-loop/lid; other site 1232381007201 ABC transporter signature motif; other site 1232381007202 Walker B; other site 1232381007203 D-loop; other site 1232381007204 H-loop/switch region; other site 1232381007205 ABC transporter; Region: ABC_tran_2; pfam12848 1232381007206 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1232381007207 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1232381007208 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 1232381007209 dimer interface [polypeptide binding]; other site 1232381007210 ssDNA binding site [nucleotide binding]; other site 1232381007211 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1232381007212 Copper resistance protein D; Region: CopD; pfam05425 1232381007213 Predicted membrane protein [Function unknown]; Region: COG3336 1232381007214 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 1232381007215 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 1232381007216 active site 1232381007217 dimer interface [polypeptide binding]; other site 1232381007218 Domain of unknown function (DUF4109); Region: DUF4109; pfam13397 1232381007219 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1232381007220 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1232381007221 dimer interface [polypeptide binding]; other site 1232381007222 conserved gate region; other site 1232381007223 putative PBP binding loops; other site 1232381007224 ABC-ATPase subunit interface; other site 1232381007225 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1232381007226 dimer interface [polypeptide binding]; other site 1232381007227 conserved gate region; other site 1232381007228 putative PBP binding loops; other site 1232381007229 ABC-ATPase subunit interface; other site 1232381007230 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1232381007231 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1232381007232 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 1232381007233 Domain of unknown function (DUF4032); Region: DUF4032; pfam13224 1232381007234 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1232381007235 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1232381007236 Walker A/P-loop; other site 1232381007237 ATP binding site [chemical binding]; other site 1232381007238 Q-loop/lid; other site 1232381007239 ABC transporter signature motif; other site 1232381007240 Walker B; other site 1232381007241 D-loop; other site 1232381007242 H-loop/switch region; other site 1232381007243 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 1232381007244 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1232381007245 catalytic residues [active] 1232381007246 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 1232381007247 Benzyl alcohol dehydrogenase; Region: benzyl_alcohol_DH; cd08278 1232381007248 catalytic Zn binding site [ion binding]; other site 1232381007249 NAD binding site [chemical binding]; other site 1232381007250 structural Zn binding site [ion binding]; other site 1232381007251 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 1232381007252 Isochorismatase family; Region: Isochorismatase; pfam00857 1232381007253 catalytic triad [active] 1232381007254 conserved cis-peptide bond; other site 1232381007255 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1232381007256 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1232381007257 Protein of unknown function (DUF1470); Region: DUF1470; pfam07336 1232381007258 CGNR zinc finger; Region: zf-CGNR; pfam11706 1232381007259 Domain of unknown function (DUF2088); Region: DUF2088; pfam09861 1232381007260 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 1232381007261 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily. Adenine 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_I; cd01990 1232381007262 Ligand Binding Site [chemical binding]; other site 1232381007263 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 1232381007264 AIR carboxylase; Region: AIRC; smart01001 1232381007265 Uncharacterized conserved protein [Function unknown]; Region: COG1641 1232381007266 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 1232381007267 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1232381007268 classical (c) SDRs; Region: SDR_c; cd05233 1232381007269 NAD(P) binding site [chemical binding]; other site 1232381007270 active site 1232381007271 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1232381007272 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 1232381007273 catalytic site [active] 1232381007274 putative active site [active] 1232381007275 putative substrate binding site [chemical binding]; other site 1232381007276 dimer interface [polypeptide binding]; other site 1232381007277 Domain of unknown function (DUF3327); Region: DUF3327; pfam11806 1232381007278 Enterochelin esterase and related enzymes [Inorganic ion transport and metabolism]; Region: Fes; COG2382 1232381007279 IgD-like repeat domain of mycobacterial L,D-transpeptidases; Region: LDT_IgD_like; cl17506 1232381007280 IgD-like repeat domain of mycobacterial L,D-transpeptidases; Region: LDT_IgD_like_2; cd13432 1232381007281 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1232381007282 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1232381007283 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 1232381007284 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 1232381007285 BCCT family transporter; Region: BCCT; cl00569 1232381007286 SdpI/YhfL protein family; Region: SdpI; pfam13630 1232381007287 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 1232381007288 glutaminase; Provisional; Region: PRK00971 1232381007289 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 1232381007290 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 1232381007291 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 1232381007292 dimerization interface [polypeptide binding]; other site 1232381007293 ligand binding site [chemical binding]; other site 1232381007294 glucuronate isomerase; Reviewed; Region: PRK02925 1232381007295 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 1232381007296 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 1232381007297 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1232381007298 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1232381007299 glucuronide transporter; Provisional; Region: PRK09848 1232381007300 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381007301 putative substrate translocation pore; other site 1232381007302 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 1232381007303 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 1232381007304 ATP-binding site [chemical binding]; other site 1232381007305 Gluconate-6-phosphate binding site [chemical binding]; other site 1232381007306 Shikimate kinase; Region: SKI; pfam01202 1232381007307 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 1232381007308 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 1232381007309 active site 1232381007310 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 1232381007311 Isochorismatase family; Region: Isochorismatase; pfam00857 1232381007312 catalytic triad [active] 1232381007313 metal binding site [ion binding]; metal-binding site 1232381007314 conserved cis-peptide bond; other site 1232381007315 Protein of unknown function (DUF3618); Region: DUF3618; pfam12277 1232381007316 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 1232381007317 catalytic triad [active] 1232381007318 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1232381007319 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1232381007320 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 1232381007321 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381007322 putative substrate translocation pore; other site 1232381007323 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1232381007324 Enoyl reductase domain of yeast-type FAS1 [Lipid metabolism]; Region: COG4981 1232381007325 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 1232381007326 phosphate binding site [ion binding]; other site 1232381007327 Domain of unknown function (DUF1729); Region: DUF1729; pfam08354 1232381007328 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 1232381007329 active site 2 [active] 1232381007330 active site 1 [active] 1232381007331 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1232381007332 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1232381007333 3-oxoacyl-[acyl-carrier protein]; Region: COG4982 1232381007334 ketoacyl reductase (KR) domain of fungal-type fatty acid synthase (fFAS), classical (c)-like SDRs; Region: KR_fFAS_SDR_c_like; cd08950 1232381007335 putative NAD(P) binding site [chemical binding]; other site 1232381007336 active site 1232381007337 "elongating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type I and II and polyketide synthases.They are characterized by the utlization of acyl carrier protein (ACP)...; Region: elong_cond_enzymes; cd00828 1232381007338 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 1232381007339 active site 1232381007340 potential frameshift: common BLAST hit: gi|62391336|ref|YP_226738.1| sugar diacid utilization regulator 1232381007341 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1232381007342 Peptidase family M23; Region: Peptidase_M23; pfam01551 1232381007343 hypothetical protein; Validated; Region: PRK09039 1232381007344 Integrase core domain; Region: rve; pfam00665 1232381007345 Integrase core domain; Region: rve_3; pfam13683 1232381007346 Protein of unknown function, DUF258; Region: DUF258; pfam03193 1232381007347 Glucitol operon activator [Transcription]; Region: GutM; COG4578 1232381007348 Domain of unknown function (DUF3817); Region: DUF3817; pfam12823 1232381007349 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 1232381007350 active site 1232381007351 dimerization interface [polypeptide binding]; other site 1232381007352 ribonuclease PH; Reviewed; Region: rph; PRK00173 1232381007353 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1232381007354 hexamer interface [polypeptide binding]; other site 1232381007355 active site 1232381007356 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 1232381007357 glutamate racemase; Provisional; Region: PRK00865 1232381007358 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1232381007359 MarR family; Region: MarR; pfam01047 1232381007360 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 1232381007361 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of...; Region: nylC_like; cd02252 1232381007362 putative active site pocket [active] 1232381007363 cleavage site 1232381007364 Domain of unknown function (DUF2017); Region: DUF2017; pfam09438 1232381007365 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 1232381007366 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 1232381007367 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 1232381007368 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 1232381007369 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_A; cd01570 1232381007370 active site 1232381007371 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 1232381007372 DEAD/DEAH box helicase; Region: DEAD; pfam00270 1232381007373 DEAD_2; Region: DEAD_2; pfam06733 1232381007374 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1232381007375 Peptidyl-tRNA hydrolase [Translation, ribosomal structure and biogenesis]; Region: pth2; COG1990 1232381007376 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_1; cd04870 1232381007377 ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_2; cd04871 1232381007378 phosphoserine phosphatase SerB; Region: serB; TIGR00338 1232381007379 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 1232381007380 motif II; other site 1232381007381 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1232381007382 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 1232381007383 D-pathway; other site 1232381007384 Putative ubiquinol binding site [chemical binding]; other site 1232381007385 Low-spin heme (heme b) binding site [chemical binding]; other site 1232381007386 Putative water exit pathway; other site 1232381007387 Binuclear center (heme o3/CuB) [ion binding]; other site 1232381007388 K-pathway; other site 1232381007389 Putative proton exit pathway; other site 1232381007390 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 1232381007391 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1232381007392 dimer interface [polypeptide binding]; other site 1232381007393 putative radical transfer pathway; other site 1232381007394 diiron center [ion binding]; other site 1232381007395 tyrosyl radical; other site 1232381007396 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 1232381007397 Ferritin-like domain; Region: Ferritin; pfam00210 1232381007398 ferroxidase diiron center [ion binding]; other site 1232381007399 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1232381007400 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1232381007401 DNA-binding site [nucleotide binding]; DNA binding site 1232381007402 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1232381007403 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 1232381007404 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 1232381007405 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 1232381007406 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 1232381007407 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1232381007408 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08188 1232381007409 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 1232381007410 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1232381007411 active site 1232381007412 dimer interface [polypeptide binding]; other site 1232381007413 catalytic residues [active] 1232381007414 effector binding site; other site 1232381007415 R2 peptide binding site; other site 1232381007416 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 1232381007417 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 1232381007418 catalytic residues [active] 1232381007419 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 1232381007420 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 1232381007421 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 1232381007422 homodimer interface [polypeptide binding]; other site 1232381007423 NAD binding pocket [chemical binding]; other site 1232381007424 ATP binding pocket [chemical binding]; other site 1232381007425 Mg binding site [ion binding]; other site 1232381007426 active-site loop [active] 1232381007427 Fructosamine kinase; Region: Fructosamin_kin; cl17579 1232381007428 Phosphotransferase enzyme family; Region: APH; pfam01636 1232381007429 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; pfam12900 1232381007430 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 1232381007431 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 1232381007432 NADP binding site [chemical binding]; other site 1232381007433 dimer interface [polypeptide binding]; other site 1232381007434 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 1232381007435 DsbA family; consists of DsbA and DsbA-like proteins, including DsbC, DsbG, glutathione (GSH) S-transferase kappa (GSTK), 2-hydroxychromene-2-carboxylate (HCCA) isomerase, an oxidoreductase (FrnE) presumed to be involved in frenolicin biosynthesis, a...; Region: DsbA_family; cd02972 1232381007436 catalytic residues [active] 1232381007437 phosphoglucomutase; Validated; Region: PRK07564 1232381007438 This bacterial PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl...; Region: PGM_like3; cd05801 1232381007439 active site 1232381007440 substrate binding site [chemical binding]; other site 1232381007441 metal binding site [ion binding]; metal-binding site 1232381007442 camphor resistance protein CrcB; Provisional; Region: ccrB; PRK00134 1232381007443 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 1232381007444 hypothetical protein; Provisional; Region: PRK05463 1232381007445 Predicted membrane protein [General function prediction only]; Region: COG4194 1232381007446 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 1232381007447 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 1232381007448 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1232381007449 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1232381007450 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 1232381007451 FtsX-like permease family; Region: FtsX; pfam02687 1232381007452 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1232381007453 FtsX-like permease family; Region: FtsX; pfam02687 1232381007454 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1232381007455 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1232381007456 Walker A/P-loop; other site 1232381007457 ATP binding site [chemical binding]; other site 1232381007458 Q-loop/lid; other site 1232381007459 ABC transporter signature motif; other site 1232381007460 Walker B; other site 1232381007461 D-loop; other site 1232381007462 H-loop/switch region; other site 1232381007463 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1232381007464 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1232381007465 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1232381007466 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1232381007467 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1232381007468 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1232381007469 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1232381007470 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1232381007471 MFS/sugar transport protein; Region: MFS_2; pfam13347 1232381007472 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 1232381007473 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1232381007474 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 1232381007475 S-adenosylmethionine binding site [chemical binding]; other site 1232381007476 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1232381007477 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 1232381007478 hinge; other site 1232381007479 active site 1232381007480 cob(I)alamin adenosyltransferase [Coenzyme transport and metabolism]; Region: COG2096 1232381007481 GAF domain; Region: GAF_2; pfam13185 1232381007482 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1232381007483 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 1232381007484 DNA binding residues [nucleotide binding] 1232381007485 dimerization interface [polypeptide binding]; other site 1232381007486 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1232381007487 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 1232381007488 dimer interface [polypeptide binding]; other site 1232381007489 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1232381007490 catalytic residue [active] 1232381007491 serine O-acetyltransferase; Region: cysE; TIGR01172 1232381007492 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 1232381007493 trimer interface [polypeptide binding]; other site 1232381007494 active site 1232381007495 substrate binding site [chemical binding]; other site 1232381007496 CoA binding site [chemical binding]; other site 1232381007497 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1232381007498 Coenzyme A binding pocket [chemical binding]; other site 1232381007499 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1232381007500 CoA binding domain; Region: CoA_binding; smart00881 1232381007501 CoA-ligase; Region: Ligase_CoA; pfam00549 1232381007502 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1232381007503 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1232381007504 CoA-ligase; Region: Ligase_CoA; pfam00549 1232381007505 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 1232381007506 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 1232381007507 catalytic residues [active] 1232381007508 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 1232381007509 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1232381007510 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 1232381007511 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 1232381007512 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 1232381007513 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 1232381007514 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 1232381007515 FMN binding site [chemical binding]; other site 1232381007516 active site 1232381007517 catalytic residues [active] 1232381007518 substrate binding site [chemical binding]; other site 1232381007519 Phosphate uptake regulator [Inorganic ion transport and metabolism]; Region: PhoU; COG0704 1232381007520 PhoU domain; Region: PhoU; pfam01895 1232381007521 phosphate transporter ATP-binding protein; Provisional; Region: PRK14241 1232381007522 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1232381007523 Walker A/P-loop; other site 1232381007524 ATP binding site [chemical binding]; other site 1232381007525 Q-loop/lid; other site 1232381007526 ABC transporter signature motif; other site 1232381007527 Walker B; other site 1232381007528 D-loop; other site 1232381007529 H-loop/switch region; other site 1232381007530 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 1232381007531 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1232381007532 dimer interface [polypeptide binding]; other site 1232381007533 conserved gate region; other site 1232381007534 putative PBP binding loops; other site 1232381007535 ABC-ATPase subunit interface; other site 1232381007536 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 1232381007537 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1232381007538 dimer interface [polypeptide binding]; other site 1232381007539 conserved gate region; other site 1232381007540 putative PBP binding loops; other site 1232381007541 ABC-ATPase subunit interface; other site 1232381007542 PBP superfamily domain; Region: PBP_like_2; cl17296 1232381007543 mycothiol synthase; Region: mycothiol_MshD; TIGR03448 1232381007544 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1232381007545 Coenzyme A binding pocket [chemical binding]; other site 1232381007546 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1232381007547 Coenzyme A binding pocket [chemical binding]; other site 1232381007548 Protein of unknown function (DUF2993); Region: DUF2993; pfam11209 1232381007549 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 1232381007550 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1232381007551 nitrobindin heme-binding domain; Region: nitrobindin; cd07828 1232381007552 heme-binding site [chemical binding]; other site 1232381007553 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1232381007554 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 1232381007555 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1232381007556 catalytic residue [active] 1232381007557 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 1232381007558 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 1232381007559 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1232381007560 Protein of unknown function (DUF3073); Region: DUF3073; pfam11273 1232381007561 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1232381007562 Helix-turn-helix domain; Region: HTH_38; pfam13936 1232381007563 Homeodomain-like domain; Region: HTH_32; pfam13565 1232381007564 Integrase core domain; Region: rve; pfam00665 1232381007565 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1232381007566 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 1232381007567 dimerization interface [polypeptide binding]; other site 1232381007568 putative ATP binding site [chemical binding]; other site 1232381007569 amidophosphoribosyltransferase; Provisional; Region: PRK07847 1232381007570 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 1232381007571 active site 1232381007572 tetramer interface [polypeptide binding]; other site 1232381007573 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1232381007574 active site 1232381007575 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 1232381007576 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 1232381007577 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 1232381007578 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 1232381007579 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 1232381007580 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), first repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat1; cd02203 1232381007581 dimerization interface [polypeptide binding]; other site 1232381007582 ATP binding site [chemical binding]; other site 1232381007583 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat2; cd02204 1232381007584 dimerization interface [polypeptide binding]; other site 1232381007585 ATP binding site [chemical binding]; other site 1232381007586 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 1232381007587 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1232381007588 putative active site [active] 1232381007589 catalytic triad [active] 1232381007590 phosphoribosylformylglycinamidine synthase subunit PurS; Reviewed; Region: PRK05974 1232381007591 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 1232381007592 catalytic residues [active] 1232381007593 dimer interface [polypeptide binding]; other site 1232381007594 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 1232381007595 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 1232381007596 generic binding surface II; other site 1232381007597 generic binding surface I; other site 1232381007598 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 1232381007599 putative active site [active] 1232381007600 putative catalytic site [active] 1232381007601 putative Mg binding site IVb [ion binding]; other site 1232381007602 putative phosphate binding site [ion binding]; other site 1232381007603 putative DNA binding site [nucleotide binding]; other site 1232381007604 putative Mg binding site IVa [ion binding]; other site 1232381007605 Predicted deacetylase [General function prediction only]; Region: COG3233 1232381007606 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u10; cd11374 1232381007607 putative active site [active] 1232381007608 putative Zn binding site [ion binding]; other site 1232381007609 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 1232381007610 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1232381007611 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 1232381007612 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1232381007613 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 1232381007614 ATP binding site [chemical binding]; other site 1232381007615 active site 1232381007616 substrate binding site [chemical binding]; other site 1232381007617 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 1232381007618 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 1232381007619 tetramer interface [polypeptide binding]; other site 1232381007620 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 1232381007621 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 1232381007622 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1232381007623 homodimer interface [polypeptide binding]; other site 1232381007624 catalytic residue [active] 1232381007625 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1232381007626 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1232381007627 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1232381007628 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1232381007629 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 1232381007630 nucleotide binding site/active site [active] 1232381007631 HIT family signature motif; other site 1232381007632 catalytic residue [active] 1232381007633 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1232381007634 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 1232381007635 S-adenosylmethionine binding site [chemical binding]; other site 1232381007636 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 1232381007637 POT family; Region: PTR2; cl17359 1232381007638 POT family; Region: PTR2; cl17359 1232381007639 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05630 1232381007640 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 1232381007641 inhibitor-cofactor binding pocket; inhibition site 1232381007642 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1232381007643 catalytic residue [active] 1232381007644 AAA domain; Region: AAA_26; pfam13500 1232381007645 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 1232381007646 Dethiobiotin synthetase (DTBS) is the penultimate enzyme in the biotin biosynthesis pathway in Escherichia coli and other microorganisms. The enzyme catalyzes formation of the ureido ring of dethiobiotin from (7R,8S)-7,8-diaminononanoic acid (DAPA) and...; Region: DTBS; cd03109 1232381007647 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1232381007648 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 1232381007649 dimerization interface [polypeptide binding]; other site 1232381007650 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 1232381007651 dimer interface [polypeptide binding]; other site 1232381007652 phosphorylation site [posttranslational modification] 1232381007653 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1232381007654 ATP binding site [chemical binding]; other site 1232381007655 Mg2+ binding site [ion binding]; other site 1232381007656 G-X-G motif; other site 1232381007657 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1232381007658 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1232381007659 active site 1232381007660 phosphorylation site [posttranslational modification] 1232381007661 intermolecular recognition site; other site 1232381007662 dimerization interface [polypeptide binding]; other site 1232381007663 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 1232381007664 DNA binding site [nucleotide binding] 1232381007665 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1232381007666 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 1232381007667 DNA binding residues [nucleotide binding] 1232381007668 dimer interface [polypeptide binding]; other site 1232381007669 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 1232381007670 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 1232381007671 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Low Specificity D-Threonine Aldolase-like; Region: PLPDE_III_LS_D-TA_like; cd06820 1232381007672 dimer interface [polypeptide binding]; other site 1232381007673 active site 1232381007674 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1232381007675 substrate binding site [chemical binding]; other site 1232381007676 catalytic residue [active] 1232381007677 pyruvate dehydrogenase; Provisional; Region: PRK06546 1232381007678 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 1232381007679 PYR/PP interface [polypeptide binding]; other site 1232381007680 dimer interface [polypeptide binding]; other site 1232381007681 tetramer interface [polypeptide binding]; other site 1232381007682 TPP binding site [chemical binding]; other site 1232381007683 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1232381007684 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 1232381007685 TPP-binding site [chemical binding]; other site 1232381007686 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381007687 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1232381007688 putative substrate translocation pore; other site 1232381007689 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381007690 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1232381007691 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1232381007692 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 1232381007693 Ion channel regulatory protein UNC-93; Region: UNC-93; pfam05978 1232381007694 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 1232381007695 active site 1232381007696 catalytic residues [active] 1232381007697 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 1232381007698 active site 1232381007699 catalytic residues [active] 1232381007700 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12843 1232381007701 putative succinate dehydrogenase; Reviewed; Region: PRK12842 1232381007702 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1232381007703 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1232381007704 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1232381007705 NAD(P) binding site [chemical binding]; other site 1232381007706 YCII-related domain; Region: YCII; cl00999 1232381007707 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381007708 metabolite-proton symporter; Region: 2A0106; TIGR00883 1232381007709 putative substrate translocation pore; other site 1232381007710 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 1232381007711 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1232381007712 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 1232381007713 dimerization interface [polypeptide binding]; other site 1232381007714 substrate binding pocket [chemical binding]; other site 1232381007715 diaminopimelate dehydrogenase; Region: DAP-DH; TIGR01921 1232381007716 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl17742 1232381007717 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 1232381007718 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 1232381007719 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 1232381007720 active site 1232381007721 motif I; other site 1232381007722 motif II; other site 1232381007723 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1232381007724 Uncharacterized conserved protein [Function unknown]; Region: COG5646 1232381007725 Helix-turn-helix XRE-family like proteins; Region: HTH_XRE; smart00530 1232381007726 non-specific DNA binding site [nucleotide binding]; other site 1232381007727 salt bridge; other site 1232381007728 sequence-specific DNA binding site [nucleotide binding]; other site 1232381007729 Uncharacterized conserved protein [Function unknown]; Region: COG2966 1232381007730 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 1232381007731 Uncharacterized conserved protein [Function unknown]; Region: COG3610 1232381007732 Trehalose-6-phosphate synthase [Carbohydrate transport and metabolism]; Region: OtsA; COG0380 1232381007733 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 1232381007734 active site 1232381007735 homotetramer interface [polypeptide binding]; other site 1232381007736 Trehalose-6-phosphatase [Carbohydrate transport and metabolism]; Region: OtsB; COG1877 1232381007737 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 1232381007738 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1232381007739 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1232381007740 DNA binding site [nucleotide binding] 1232381007741 domain linker motif; other site 1232381007742 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_3; cd06279 1232381007743 putative dimerization interface [polypeptide binding]; other site 1232381007744 putative ligand binding site [chemical binding]; other site 1232381007745 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 1232381007746 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 1232381007747 intersubunit interface [polypeptide binding]; other site 1232381007748 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1232381007749 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1232381007750 Walker A/P-loop; other site 1232381007751 ATP binding site [chemical binding]; other site 1232381007752 Q-loop/lid; other site 1232381007753 ABC transporter signature motif; other site 1232381007754 Walker B; other site 1232381007755 D-loop; other site 1232381007756 H-loop/switch region; other site 1232381007757 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1232381007758 dimer interface [polypeptide binding]; other site 1232381007759 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 1232381007760 putative PBP binding regions; other site 1232381007761 ABC-ATPase subunit interface; other site 1232381007762 hypothetical protein; Provisional; Region: PRK12839 1232381007763 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1232381007764 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1232381007765 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1232381007766 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1232381007767 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1232381007768 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381007769 metabolite-proton symporter; Region: 2A0106; TIGR00883 1232381007770 putative substrate translocation pore; other site 1232381007771 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1232381007772 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 1232381007773 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1232381007774 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1232381007775 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1232381007776 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1232381007777 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1232381007778 active site 1232381007779 HIGH motif; other site 1232381007780 nucleotide binding site [chemical binding]; other site 1232381007781 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1232381007782 KMSKS motif; other site 1232381007783 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1232381007784 tRNA binding surface [nucleotide binding]; other site 1232381007785 anticodon binding site; other site 1232381007786 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 1232381007787 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 1232381007788 active site turn [active] 1232381007789 phosphorylation site [posttranslational modification] 1232381007790 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1232381007791 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 1232381007792 HPr interaction site; other site 1232381007793 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1232381007794 active site 1232381007795 phosphorylation site [posttranslational modification] 1232381007796 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 1232381007797 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 1232381007798 substrate binding [chemical binding]; other site 1232381007799 active site 1232381007800 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1232381007801 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 1232381007802 active site 1232381007803 trimer interface [polypeptide binding]; other site 1232381007804 allosteric site; other site 1232381007805 active site lid [active] 1232381007806 hexamer (dimer of trimers) interface [polypeptide binding]; other site 1232381007807 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 1232381007808 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 1232381007809 active site 1232381007810 dimer interface [polypeptide binding]; other site 1232381007811 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1232381007812 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1232381007813 inhibitor site; inhibition site 1232381007814 active site 1232381007815 dimer interface [polypeptide binding]; other site 1232381007816 catalytic residue [active] 1232381007817 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1232381007818 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1232381007819 nucleotide binding site [chemical binding]; other site 1232381007820 Putative N-acetylmannosamine-6-phosphate epimerase [Carbohydrate transport and metabolism]; Region: NanE; COG3010 1232381007821 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of...; Region: NanE; cd04729 1232381007822 putative active site cavity [active] 1232381007823 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 1232381007824 catalytic site [active] 1232381007825 Asp-box motif; other site 1232381007826 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1232381007827 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1232381007828 DNA-binding site [nucleotide binding]; DNA binding site 1232381007829 FCD domain; Region: FCD; pfam07729 1232381007830 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1232381007831 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 1232381007832 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1232381007833 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1232381007834 dimer interface [polypeptide binding]; other site 1232381007835 conserved gate region; other site 1232381007836 putative PBP binding loops; other site 1232381007837 ABC-ATPase subunit interface; other site 1232381007838 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1232381007839 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1232381007840 dimer interface [polypeptide binding]; other site 1232381007841 conserved gate region; other site 1232381007842 putative PBP binding loops; other site 1232381007843 ABC-ATPase subunit interface; other site 1232381007844 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1232381007845 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1232381007846 Walker A/P-loop; other site 1232381007847 ATP binding site [chemical binding]; other site 1232381007848 Q-loop/lid; other site 1232381007849 ABC transporter signature motif; other site 1232381007850 Walker B; other site 1232381007851 D-loop; other site 1232381007852 H-loop/switch region; other site 1232381007853 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1232381007854 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1232381007855 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1232381007856 Walker A/P-loop; other site 1232381007857 ATP binding site [chemical binding]; other site 1232381007858 Q-loop/lid; other site 1232381007859 ABC transporter signature motif; other site 1232381007860 Walker B; other site 1232381007861 D-loop; other site 1232381007862 H-loop/switch region; other site 1232381007863 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1232381007864 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1232381007865 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1232381007866 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 1232381007867 putative DNA binding site [nucleotide binding]; other site 1232381007868 putative Zn2+ binding site [ion binding]; other site 1232381007869 AsnC family; Region: AsnC_trans_reg; pfam01037 1232381007870 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 1232381007871 homotrimer interaction site [polypeptide binding]; other site 1232381007872 zinc binding site [ion binding]; other site 1232381007873 CDP-binding sites; other site 1232381007874 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1232381007875 substrate binding site; other site 1232381007876 dimer interface; other site 1232381007877 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 1232381007878 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1232381007879 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1232381007880 active site 1232381007881 phosphorylation site [posttranslational modification] 1232381007882 intermolecular recognition site; other site 1232381007883 dimerization interface [polypeptide binding]; other site 1232381007884 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 1232381007885 DNA binding site [nucleotide binding] 1232381007886 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1232381007887 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 1232381007888 dimerization interface [polypeptide binding]; other site 1232381007889 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 1232381007890 dimer interface [polypeptide binding]; other site 1232381007891 phosphorylation site [posttranslational modification] 1232381007892 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1232381007893 ATP binding site [chemical binding]; other site 1232381007894 Mg2+ binding site [ion binding]; other site 1232381007895 G-X-G motif; other site 1232381007896 DNA repair protein RadA; Provisional; Region: PRK11823 1232381007897 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 1232381007898 Walker A motif; other site 1232381007899 ATP binding site [chemical binding]; other site 1232381007900 Walker B motif; other site 1232381007901 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1232381007902 Predicted nucleic-acid-binding protein (contains the HHH domain) [General function prediction only]; Region: COG1623 1232381007903 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 1232381007904 DisA bacterial checkpoint controller linker region; Region: DisA-linker; pfam10635 1232381007905 NADP+-dependent p-hydroxybenzaldehyde dehydrogenase-like; Region: ALDH_HBenzADH; cd07151 1232381007906 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1232381007907 NAD(P) binding site [chemical binding]; other site 1232381007908 catalytic residues [active] 1232381007909 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_cladeC; cd03378 1232381007910 active site clefts [active] 1232381007911 zinc binding site [ion binding]; other site 1232381007912 dimer interface [polypeptide binding]; other site 1232381007913 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1232381007914 endonuclease III; Region: ENDO3c; smart00478 1232381007915 minor groove reading motif; other site 1232381007916 helix-hairpin-helix signature motif; other site 1232381007917 substrate binding pocket [chemical binding]; other site 1232381007918 active site 1232381007919 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 1232381007920 Mono-functional DNA-alkylating methyl methanesulfonate N-term; Region: MMS1_N; pfam10433 1232381007921 Protein of unknown function (DUF4236); Region: DUF4236; pfam14020 1232381007922 meso-2,3-butanediol dehydrogenase-like, classical (c) SDRs; Region: meso-BDH-like_SDR_c; cd05366 1232381007923 acetoin reductases; Region: 23BDH; TIGR02415 1232381007924 NAD binding site [chemical binding]; other site 1232381007925 homotetramer interface [polypeptide binding]; other site 1232381007926 homodimer interface [polypeptide binding]; other site 1232381007927 active site 1232381007928 substrate binding site [chemical binding]; other site 1232381007929 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 1232381007930 Clp amino terminal domain; Region: Clp_N; pfam02861 1232381007931 Clp amino terminal domain; Region: Clp_N; pfam02861 1232381007932 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 1232381007933 Walker A motif; other site 1232381007934 ATP binding site [chemical binding]; other site 1232381007935 Walker B motif; other site 1232381007936 arginine finger; other site 1232381007937 UvrB/uvrC motif; Region: UVR; pfam02151 1232381007938 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 1232381007939 Walker A motif; other site 1232381007940 ATP binding site [chemical binding]; other site 1232381007941 Walker B motif; other site 1232381007942 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1232381007943 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK07807 1232381007944 IMP dehydrogenase/GMP reductase [Nucleotide transport and metabolism]; Region: GuaB; COG0516 1232381007945 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 1232381007946 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 1232381007947 active site 1232381007948 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1232381007949 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1232381007950 phenol 2-monooxygenase; Provisional; Region: PRK08294 1232381007951 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1232381007952 FAD-dependent Phenol hydoxylase (PHOX) family, C-terminal TRX-fold domain; composed of proteins similar to PHOX from the aerobic topsoil yeast Trichosporon cutaneum. PHOX is a flavoprotein monooxygenase that catalyzes the hydroxylation of phenol and...; Region: PHOX_C; cd02979 1232381007953 dimer interface [polypeptide binding]; other site 1232381007954 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1232381007955 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381007956 putative substrate translocation pore; other site 1232381007957 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1232381007958 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 1232381007959 dimer interface [polypeptide binding]; other site 1232381007960 putative anticodon binding site; other site 1232381007961 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 1232381007962 motif 1; other site 1232381007963 dimer interface [polypeptide binding]; other site 1232381007964 active site 1232381007965 motif 2; other site 1232381007966 motif 3; other site 1232381007967 Panthothenate synthetase [Coenzyme metabolism]; Region: PanC; COG0414 1232381007968 pantoate--beta-alanine ligase; Region: panC; TIGR00018 1232381007969 active site 1232381007970 nucleotide binding site [chemical binding]; other site 1232381007971 HIGH motif; other site 1232381007972 KMSKS motif; other site 1232381007973 Rossmann-like domain; Region: Rossmann-like; pfam10727 1232381007974 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 1232381007975 Protein of unknown function (DUF3180); Region: DUF3180; pfam11377 1232381007976 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 1232381007977 catalytic center binding site [active] 1232381007978 ATP binding site [chemical binding]; other site 1232381007979 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 1232381007980 homooctamer interface [polypeptide binding]; other site 1232381007981 active site 1232381007982 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 1232381007983 dihydropteroate synthase; Region: DHPS; TIGR01496 1232381007984 substrate binding pocket [chemical binding]; other site 1232381007985 dimer interface [polypeptide binding]; other site 1232381007986 inhibitor binding site; inhibition site 1232381007987 GTP cyclohydrolase I; Provisional; Region: PLN03044 1232381007988 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 1232381007989 homodecamer interface [polypeptide binding]; other site 1232381007990 active site 1232381007991 putative catalytic site residues [active] 1232381007992 zinc binding site [ion binding]; other site 1232381007993 GTP-CH-I/GFRP interaction surface; other site 1232381007994 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1232381007995 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 1232381007996 Walker A motif; other site 1232381007997 ATP binding site [chemical binding]; other site 1232381007998 Walker B motif; other site 1232381007999 arginine finger; other site 1232381008000 Peptidase family M41; Region: Peptidase_M41; pfam01434 1232381008001 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1232381008002 active site 1232381008003 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 1232381008004 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 1232381008005 Ligand Binding Site [chemical binding]; other site 1232381008006 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 1232381008007 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 1232381008008 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 1232381008009 dimer interface [polypeptide binding]; other site 1232381008010 substrate binding site [chemical binding]; other site 1232381008011 metal binding sites [ion binding]; metal-binding site 1232381008012 Predicted spermidine synthase with an N-terminal membrane domain [General function prediction only]; Region: COG4262 1232381008013 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 1232381008014 S-adenosylmethionine binding site [chemical binding]; other site 1232381008015 Predicted membrane protein [Function unknown]; Region: COG3766 1232381008016 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 1232381008017 Domain of unknown function (DUF4247); Region: DUF4247; pfam14042 1232381008018 Protein of unknown function DUF2617; Region: DUF2617; pfam10936 1232381008019 Domain of unknown function (DUF4178); Region: DUF4178; pfam13785 1232381008020 CAT RNA binding domain; Region: CAT_RBD; smart01061 1232381008021 transcriptional antiterminator BglG; Provisional; Region: PRK09772 1232381008022 PRD domain; Region: PRD; pfam00874 1232381008023 PRD domain; Region: PRD; pfam00874 1232381008024 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 1232381008025 beta-galactosidase; Region: BGL; TIGR03356 1232381008026 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 1232381008027 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 1232381008028 active site turn [active] 1232381008029 phosphorylation site [posttranslational modification] 1232381008030 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1232381008031 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 1232381008032 HPr interaction site; other site 1232381008033 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1232381008034 active site 1232381008035 phosphorylation site [posttranslational modification] 1232381008036 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 1232381008037 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1232381008038 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1232381008039 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 1232381008040 active site residue [active] 1232381008041 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1232381008042 MarR family; Region: MarR; pfam01047 1232381008043 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1232381008044 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1232381008045 acyl-activating enzyme (AAE) consensus motif; other site 1232381008046 AMP binding site [chemical binding]; other site 1232381008047 active site 1232381008048 CoA binding site [chemical binding]; other site 1232381008049 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1232381008050 non-ribosomal peptide synthetase terminal domain of unknown function; Region: NRPS_term_dom; TIGR02353 1232381008051 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 1232381008052 putative CoA binding site [chemical binding]; other site 1232381008053 putative trimer interface [polypeptide binding]; other site 1232381008054 Protein of unknown function (DUF3754); Region: DUF3754; pfam12576 1232381008055 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 1232381008056 putative trimer interface [polypeptide binding]; other site 1232381008057 putative CoA binding site [chemical binding]; other site 1232381008058 succinic semialdehyde dehydrogenase; Reviewed; Region: gabD2; PRK09407 1232381008059 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 2-like; Region: ALDH_SSADH2_GabD2; cd07101 1232381008060 NAD(P) binding site [chemical binding]; other site 1232381008061 catalytic residues [active] 1232381008062 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 1232381008063 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1232381008064 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 1232381008065 ring oligomerisation interface [polypeptide binding]; other site 1232381008066 ATP/Mg binding site [chemical binding]; other site 1232381008067 stacking interactions; other site 1232381008068 hinge regions; other site 1232381008069 Tubulin like; Region: Tubulin_2; pfam13809 1232381008070 von Willebrand factor (vWF) type A domain; Region: VWA; smart00327 1232381008071 metal ion-dependent adhesion site (MIDAS); other site 1232381008072 hypothetical protein; Provisional; Region: PRK07907 1232381008073 M20 Dipeptidases; Region: M20_Dipept_like; cd03893 1232381008074 active site 1232381008075 metal binding site [ion binding]; metal-binding site 1232381008076 dimer interface [polypeptide binding]; other site 1232381008077 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 1232381008078 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12644 1232381008079 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1232381008080 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 1232381008081 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 1232381008082 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK07946 1232381008083 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12665 1232381008084 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1232381008085 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 1232381008086 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK07948 1232381008087 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12592 1232381008088 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1232381008089 carboxylate-amine ligase; Provisional; Region: PRK13517 1232381008090 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 1232381008091 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 1232381008092 Protein of unknown function (DUF3263); Region: DUF3263; pfam11662 1232381008093 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 1232381008094 active site 1232381008095 catalytic residues [active] 1232381008096 metal binding site [ion binding]; metal-binding site 1232381008097 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1232381008098 Coenzyme A binding pocket [chemical binding]; other site 1232381008099 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 1232381008100 putative catalytic site [active] 1232381008101 putative phosphate binding site [ion binding]; other site 1232381008102 active site 1232381008103 metal binding site A [ion binding]; metal-binding site 1232381008104 DNA binding site [nucleotide binding] 1232381008105 putative AP binding site [nucleotide binding]; other site 1232381008106 putative metal binding site B [ion binding]; other site 1232381008107 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 1232381008108 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1232381008109 putative active site [active] 1232381008110 catalytic site [active] 1232381008111 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1232381008112 putative active site [active] 1232381008113 catalytic site [active] 1232381008114 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 1232381008115 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381008116 putative substrate translocation pore; other site 1232381008117 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 1232381008118 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1232381008119 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1232381008120 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1232381008121 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 1232381008122 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 1232381008123 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1232381008124 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1232381008125 Walker A/P-loop; other site 1232381008126 ATP binding site [chemical binding]; other site 1232381008127 Q-loop/lid; other site 1232381008128 ABC transporter signature motif; other site 1232381008129 Walker B; other site 1232381008130 D-loop; other site 1232381008131 H-loop/switch region; other site 1232381008132 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 1232381008133 nudix motif; other site 1232381008134 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1232381008135 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 1232381008136 substrate binding pocket [chemical binding]; other site 1232381008137 membrane-bound complex binding site; other site 1232381008138 hinge residues; other site 1232381008139 Protein tyrosine kinase; Region: Pkinase_Tyr; pfam07714 1232381008140 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1232381008141 active site 1232381008142 ATP binding site [chemical binding]; other site 1232381008143 substrate binding site [chemical binding]; other site 1232381008144 activation loop (A-loop); other site 1232381008145 propionate/acetate kinase; Provisional; Region: PRK12379 1232381008146 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 1232381008147 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 1232381008148 ferredoxin-NADP+ reductase; Region: PLN02852 1232381008149 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1232381008150 Predicted acyltransferase [General function prediction only]; Region: ElaA; COG2153 1232381008151 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 1232381008152 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1232381008153 ATP-grasp domain; Region: ATP-grasp; pfam02222 1232381008154 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1232381008155 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 1232381008156 GDP-binding site [chemical binding]; other site 1232381008157 ACT binding site; other site 1232381008158 IMP binding site; other site 1232381008159 cardiolipin synthetase; Reviewed; Region: PRK12452 1232381008160 Predicted membrane protein [Function unknown]; Region: COG4129 1232381008161 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1232381008162 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1232381008163 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 1232381008164 active site 1232381008165 intersubunit interface [polypeptide binding]; other site 1232381008166 zinc binding site [ion binding]; other site 1232381008167 Na+ binding site [ion binding]; other site 1232381008168 Glycosyl hydrolase family 76; Region: Glyco_hydro_76; cl01996 1232381008169 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1232381008170 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1232381008171 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1232381008172 active site 1232381008173 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 1232381008174 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 1232381008175 active site residue [active] 1232381008176 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 1232381008177 active site residue [active] 1232381008178 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 1232381008179 sequence-specific DNA binding site [nucleotide binding]; other site 1232381008180 salt bridge; other site 1232381008181 H+ Antiporter protein; Region: 2A0121; TIGR00900 1232381008182 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381008183 putative substrate translocation pore; other site 1232381008184 Domain of unknown function (DUF4265); Region: DUF4265; pfam14085 1232381008185 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1232381008186 Clp amino terminal domain; Region: Clp_N; pfam02861 1232381008187 Clp amino terminal domain; Region: Clp_N; pfam02861 1232381008188 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 1232381008189 Walker A motif; other site 1232381008190 ATP binding site [chemical binding]; other site 1232381008191 Walker B motif; other site 1232381008192 arginine finger; other site 1232381008193 Protein of unknown function (DUF2730); Region: DUF2730; pfam10805 1232381008194 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 1232381008195 Walker A motif; other site 1232381008196 ATP binding site [chemical binding]; other site 1232381008197 Walker B motif; other site 1232381008198 arginine finger; other site 1232381008199 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1232381008200 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 1232381008201 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 1232381008202 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1232381008203 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1232381008204 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 1232381008205 Uncharacterized conserved protein [Function unknown]; Region: COG4127 1232381008206 Restriction endonuclease; Region: Mrr_cat; pfam04471 1232381008207 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1232381008208 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 1232381008209 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1232381008210 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1232381008211 Coenzyme A binding pocket [chemical binding]; other site 1232381008212 Rifampin ADP-ribosyl transferase; Region: Arr-ms; pfam12120 1232381008213 2-polyprenylphenol hydroxylase and related flavodoxin oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiB; COG0543 1232381008214 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 1232381008215 FAD binding pocket [chemical binding]; other site 1232381008216 conserved FAD binding motif [chemical binding]; other site 1232381008217 phosphate binding motif [ion binding]; other site 1232381008218 beta-alpha-beta structure motif; other site 1232381008219 NAD binding pocket [chemical binding]; other site 1232381008220 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1232381008221 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_3; cd07581 1232381008222 putative active site [active] 1232381008223 catalytic triad [active] 1232381008224 putative dimer interface [polypeptide binding]; other site 1232381008225 Alpha/beta hydrolase; Region: Abhydrolase_8; pfam06259 1232381008226 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1232381008227 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1232381008228 NAD(P) binding site [chemical binding]; other site 1232381008229 catalytic residues [active] 1232381008230 Helix-Turn-Helix DNA binding domain of the HspR transcription regulator; Region: HTH_HspR; cd04766 1232381008231 DNA binding residues [nucleotide binding] 1232381008232 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1232381008233 putative dimer interface [polypeptide binding]; other site 1232381008234 chaperone protein DnaJ; Provisional; Region: PRK14279 1232381008235 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 1232381008236 HSP70 interaction site [polypeptide binding]; other site 1232381008237 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1232381008238 Zn binding sites [ion binding]; other site 1232381008239 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1232381008240 dimer interface [polypeptide binding]; other site 1232381008241 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 1232381008242 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 1232381008243 dimer interface [polypeptide binding]; other site 1232381008244 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1232381008245 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1232381008246 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 1232381008247 nucleotide binding site [chemical binding]; other site 1232381008248 NEF interaction site [polypeptide binding]; other site 1232381008249 SBD interface [polypeptide binding]; other site 1232381008250 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1232381008251 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1232381008252 nucleosidase; Provisional; Region: PRK05634 1232381008253 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 1232381008254 Uncharacterized protein conserved in bacteria C-term(DUF2220); Region: DUF2220; pfam09983 1232381008255 Protein of unknown function (DUF3375); Region: DUF3375; pfam11855 1232381008256 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1232381008257 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 1232381008258 NAD binding site [chemical binding]; other site 1232381008259 substrate binding site [chemical binding]; other site 1232381008260 catalytic Zn binding site [ion binding]; other site 1232381008261 tetramer interface [polypeptide binding]; other site 1232381008262 structural Zn binding site [ion binding]; other site 1232381008263 Restriction endonuclease [Defense mechanisms]; Region: Mrr; COG1715 1232381008264 Mrr N-terminal domain; Region: Mrr_N; pfam14338 1232381008265 Restriction endonuclease; Region: Mrr_cat; pfam04471 1232381008266 Abi-like protein; Region: Abi_2; pfam07751 1232381008267 EcoEI R protein C-terminal; Region: EcoEI_R_C; pfam08463 1232381008268 putative monooxygenase; Provisional; Region: PRK11118 1232381008269 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 1232381008270 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1232381008271 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 1232381008272 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 1232381008273 putative active site [active] 1232381008274 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 1232381008275 active site 1232381008276 sulfate adenylyltransferase, large subunit; Region: CysN; TIGR02034 1232381008277 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 1232381008278 CysD dimerization site [polypeptide binding]; other site 1232381008279 G1 box; other site 1232381008280 putative GEF interaction site [polypeptide binding]; other site 1232381008281 GTP/Mg2+ binding site [chemical binding]; other site 1232381008282 Switch I region; other site 1232381008283 G2 box; other site 1232381008284 G3 box; other site 1232381008285 Switch II region; other site 1232381008286 G4 box; other site 1232381008287 G5 box; other site 1232381008288 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 1232381008289 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 1232381008290 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 1232381008291 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 1232381008292 Active Sites [active] 1232381008293 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 1232381008294 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 1232381008295 Active Sites [active] 1232381008296 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 1232381008297 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1232381008298 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1232381008299 ferredoxin-NADP+ reductase; Region: PLN02852 1232381008300 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1232381008301 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 1232381008302 dimer interface [polypeptide binding]; other site 1232381008303 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1232381008304 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 1232381008305 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 1232381008306 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1232381008307 Predicted ATPase [General function prediction only]; Region: COG3910 1232381008308 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 1232381008309 Walker A/P-loop; other site 1232381008310 ATP binding site [chemical binding]; other site 1232381008311 Q-loop/lid; other site 1232381008312 ABC transporter signature motif; other site 1232381008313 Walker B; other site 1232381008314 D-loop; other site 1232381008315 H-loop/switch region; other site 1232381008316 Predicted ATPase [General function prediction only]; Region: COG3910 1232381008317 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 1232381008318 Walker A/P-loop; other site 1232381008319 ATP binding site [chemical binding]; other site 1232381008320 Q-loop/lid; other site 1232381008321 ABC transporter signature motif; other site 1232381008322 Walker B; other site 1232381008323 D-loop; other site 1232381008324 H-loop/switch region; other site 1232381008325 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381008326 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1232381008327 putative substrate translocation pore; other site 1232381008328 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 1232381008329 M20 Peptidase, carboxypeptidase yscS-like; Region: M20_yscS_like; cd05675 1232381008330 putative metal binding site [ion binding]; other site 1232381008331 Thiosulfate reductase cytochrome B subunit (membrane anchoring protein) [Energy production and conversion]; Region: COG4117 1232381008332 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1232381008333 Walker A/P-loop; other site 1232381008334 ATP binding site [chemical binding]; other site 1232381008335 Q-loop/lid; other site 1232381008336 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1232381008337 ABC transporter signature motif; other site 1232381008338 Walker B; other site 1232381008339 D-loop; other site 1232381008340 H-loop/switch region; other site 1232381008341 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 1232381008342 Walker A/P-loop; other site 1232381008343 ATP binding site [chemical binding]; other site 1232381008344 Q-loop/lid; other site 1232381008345 ABC transporter signature motif; other site 1232381008346 Walker B; other site 1232381008347 D-loop; other site 1232381008348 H-loop/switch region; other site 1232381008349 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 1232381008350 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 1232381008351 dimer interface [polypeptide binding]; other site 1232381008352 FMN binding site [chemical binding]; other site 1232381008353 NADPH bind site [chemical binding]; other site 1232381008354 Inosine-uridine nucleoside N-ribohydrolase [Nucleotide transport and metabolism]; Region: URH1; COG1957 1232381008355 active site 1232381008356 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1232381008357 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_2; cd03402 1232381008358 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4877 1232381008359 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 1232381008360 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 1232381008361 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 1232381008362 heme-binding site [chemical binding]; other site 1232381008363 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 1232381008364 FAD binding pocket [chemical binding]; other site 1232381008365 FAD binding motif [chemical binding]; other site 1232381008366 phosphate binding motif [ion binding]; other site 1232381008367 beta-alpha-beta structure motif; other site 1232381008368 NAD binding pocket [chemical binding]; other site 1232381008369 Heme binding pocket [chemical binding]; other site 1232381008370 Domain of unknown function (DUF1707); Region: DUF1707; pfam08044 1232381008371 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 1232381008372 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 1232381008373 CAT RNA binding domain; Region: CAT_RBD; smart01061 1232381008374 transcriptional antiterminator BglG; Provisional; Region: PRK09772 1232381008375 PRD domain; Region: PRD; pfam00874 1232381008376 PRD domain; Region: PRD; pfam00874 1232381008377 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 1232381008378 beta-galactosidase; Region: BGL; TIGR03356 1232381008379 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 1232381008380 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 1232381008381 active site turn [active] 1232381008382 phosphorylation site [posttranslational modification] 1232381008383 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1232381008384 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 1232381008385 HPr interaction site; other site 1232381008386 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1232381008387 active site 1232381008388 phosphorylation site [posttranslational modification] 1232381008389 iron-enterobactin transporter periplasmic binding protein; Provisional; Region: PRK10957 1232381008390 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 1232381008391 intersubunit interface [polypeptide binding]; other site 1232381008392 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1232381008393 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 1232381008394 ABC-ATPase subunit interface; other site 1232381008395 dimer interface [polypeptide binding]; other site 1232381008396 putative PBP binding regions; other site 1232381008397 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 1232381008398 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 1232381008399 ABC-ATPase subunit interface; other site 1232381008400 dimer interface [polypeptide binding]; other site 1232381008401 putative PBP binding regions; other site 1232381008402 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1232381008403 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1232381008404 Walker A/P-loop; other site 1232381008405 ATP binding site [chemical binding]; other site 1232381008406 Q-loop/lid; other site 1232381008407 ABC transporter signature motif; other site 1232381008408 Walker B; other site 1232381008409 D-loop; other site 1232381008410 H-loop/switch region; other site 1232381008411 aminotransferase AlaT; Validated; Region: PRK09265 1232381008412 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 1232381008413 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1232381008414 homodimer interface [polypeptide binding]; other site 1232381008415 catalytic residue [active] 1232381008416 Predicted multitransmembrane protein [Function unknown]; Region: COG5438 1232381008417 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 1232381008418 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1232381008419 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1232381008420 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1232381008421 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1232381008422 trimer interface [polypeptide binding]; other site 1232381008423 active site 1232381008424 Htaa; Region: HtaA; pfam04213 1232381008425 Uncharacterized vancomycin resistance protein [Defense mechanisms]; Region: COG2720 1232381008426 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 1232381008427 VanW like protein; Region: VanW; pfam04294 1232381008428 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1232381008429 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 1232381008430 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 1232381008431 Ligand Binding Site [chemical binding]; other site 1232381008432 Protein of unknown function (DUF2613); Region: DUF2613; pfam11021 1232381008433 Domain of unknown function (DUF3367); Region: DUF3367; pfam11847 1232381008434 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1232381008435 Helix-turn-helix domain; Region: HTH_38; pfam13936 1232381008436 Homeodomain-like domain; Region: HTH_32; pfam13565 1232381008437 Integrase core domain; Region: rve; pfam00665 1232381008438 hypothetical protein; Validated; Region: PRK09039 1232381008439 Integrase core domain; Region: rve; pfam00665 1232381008440 Integrase core domain; Region: rve_3; pfam13683 1232381008441 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1232381008442 Protein of unknown function (DUF3068); Region: DUF3068; pfam11271 1232381008443 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1232381008444 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 1232381008445 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 1232381008446 S-adenosylmethionine binding site [chemical binding]; other site 1232381008447 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 1232381008448 active site 1232381008449 substrate-binding site [chemical binding]; other site 1232381008450 metal-binding site [ion binding] 1232381008451 GTP binding site [chemical binding]; other site 1232381008452 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 1232381008453 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_like_2; cd09320 1232381008454 gating phenylalanine in ion channel; other site 1232381008455 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 1232381008456 S-adenosylmethionine binding site [chemical binding]; other site 1232381008457 LabA_like proteins; Region: LabA_like; cd06167 1232381008458 putative metal binding site [ion binding]; other site 1232381008459 MMPL family; Region: MMPL; pfam03176 1232381008460 MMPL family; Region: MMPL; pfam03176 1232381008461 Predicted integral membrane protein [Function unknown]; Region: COG0392 1232381008462 Protein of unknown function (DUF3054); Region: DUF3054; pfam11255 1232381008463 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 1232381008464 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1232381008465 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1232381008466 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 1232381008467 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 1232381008468 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 1232381008469 active site 1232381008470 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 1232381008471 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 1232381008472 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 1232381008473 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07769 1232381008474 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 1232381008475 acyl-activating enzyme (AAE) consensus motif; other site 1232381008476 active site 1232381008477 Cutinase; Region: Cutinase; pfam01083 1232381008478 Putative esterase; Region: Esterase; pfam00756 1232381008479 S-formylglutathione hydrolase; Region: PLN02442 1232381008480 Uncharacterized protein potentially involved in peptidoglycan biosynthesis [Cell envelope biogenesis, outer membrane]; Region: COG5479 1232381008481 LGFP repeat; Region: LGFP; pfam08310 1232381008482 LGFP repeat; Region: LGFP; pfam08310 1232381008483 LGFP repeat; Region: LGFP; pfam08310 1232381008484 Domain of unknown function (DUF222); Region: DUF222; pfam02720 1232381008485 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 1232381008486 active site 1232381008487 Putative esterase; Region: Esterase; pfam00756 1232381008488 S-formylglutathione hydrolase; Region: PLN02442 1232381008489 phosphoribose diphosphate:decaprenyl-phosphate phosphoribosyltransferase; Provisional; Region: PRK12324 1232381008490 UbiA prenyltransferase family; Region: UbiA; pfam01040 1232381008491 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1232381008492 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 1232381008493 active site 1232381008494 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1232381008495 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 1232381008496 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 1232381008497 active site 1232381008498 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1232381008499 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 1232381008500 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1232381008501 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 1232381008502 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1232381008503 UDP-galactopyranose mutase; Region: GLF; pfam03275 1232381008504 Uncharacterized protein potentially involved in peptidoglycan biosynthesis [Cell envelope biogenesis, outer membrane]; Region: COG5479 1232381008505 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 1232381008506 amidase catalytic site [active] 1232381008507 Zn binding residues [ion binding]; other site 1232381008508 substrate binding site [chemical binding]; other site 1232381008509 LGFP repeat; Region: LGFP; pfam08310 1232381008510 glycerol kinase; Provisional; Region: glpK; PRK00047 1232381008511 Cellulomonas sp. glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_CsGK_like; cd07789 1232381008512 N- and C-terminal domain interface [polypeptide binding]; other site 1232381008513 active site 1232381008514 MgATP binding site [chemical binding]; other site 1232381008515 catalytic site [active] 1232381008516 metal binding site [ion binding]; metal-binding site 1232381008517 putative homotetramer interface [polypeptide binding]; other site 1232381008518 glycerol binding site [chemical binding]; other site 1232381008519 homodimer interface [polypeptide binding]; other site 1232381008520 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 1232381008521 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1232381008522 active site 1232381008523 motif I; other site 1232381008524 motif II; other site 1232381008525 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 1232381008526 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1232381008527 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1232381008528 putative acyl-acceptor binding pocket; other site 1232381008529 seryl-tRNA synthetase; Provisional; Region: PRK05431 1232381008530 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1232381008531 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 1232381008532 dimer interface [polypeptide binding]; other site 1232381008533 active site 1232381008534 motif 1; other site 1232381008535 motif 2; other site 1232381008536 motif 3; other site 1232381008537 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1232381008538 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1232381008539 DNA-binding site [nucleotide binding]; DNA binding site 1232381008540 UTRA domain; Region: UTRA; pfam07702 1232381008541 Septum formation; Region: Septum_form; pfam13845 1232381008542 Septum formation; Region: Septum_form; pfam13845 1232381008543 Minimal MMP-like domain found in Acidothermus cellulolyticus hypothetical protein ACEL2062 and similar protein; Region: MMP_ACEL2062; cd12952 1232381008544 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 1232381008545 catalytic core [active] 1232381008546 prephenate dehydratase; Provisional; Region: PRK11898 1232381008547 Prephenate dehydratase; Region: PDT; pfam00800 1232381008548 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 1232381008549 putative L-Phe binding site [chemical binding]; other site 1232381008550 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1232381008551 Amidase; Region: Amidase; cl11426 1232381008552 CAAX protease self-immunity; Region: Abi; pfam02517 1232381008553 fimbrial isopeptide formation D2 domain; Region: RrgB_K2N_iso_D2; TIGR04226 1232381008554 Sortase C (SrtC) or subfamily-3 sortases are membrane cysteine transpeptidases found in Gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_C_3; cd05827 1232381008555 active site 1232381008556 catalytic site [active] 1232381008557 fimbrial isopeptide formation D2 domain; Region: RrgB_K2N_iso_D2; TIGR04226 1232381008558 LPXTG-motif cell wall anchor domain; Region: LPXTG_anchor; TIGR01167 1232381008559 Sortase C (SrtC) or subfamily-3 sortases are membrane cysteine transpeptidases found in Gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_C_3; cd05827 1232381008560 active site 1232381008561 catalytic site [active] 1232381008562 Transcriptional regulator [Transcription]; Region: LytR; COG1316 1232381008563 Protein of unknown function (DUF3500); Region: DUF3500; pfam12006 1232381008564 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1232381008565 Protein of unknown function (DUF3500); Region: DUF3500; pfam12006 1232381008566 Winged helix-turn helix; Region: HTH_29; pfam13551 1232381008567 Helix-turn-helix domain; Region: HTH_28; pfam13518 1232381008568 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1232381008569 Integrase core domain; Region: rve; pfam00665 1232381008570 Integrase core domain; Region: rve_3; pfam13683 1232381008571 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1232381008572 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_like_2; cd08582 1232381008573 putative active site [active] 1232381008574 catalytic site [active] 1232381008575 putative metal binding site [ion binding]; other site 1232381008576 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 1232381008577 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1232381008578 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1232381008579 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1232381008580 DNA-binding site [nucleotide binding]; DNA binding site 1232381008581 FCD domain; Region: FCD; pfam07729 1232381008582 L-asparaginase II; Region: Asparaginase_II; pfam06089 1232381008583 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 1232381008584 Aspartase; Region: Aspartase; cd01357 1232381008585 active sites [active] 1232381008586 tetramer interface [polypeptide binding]; other site 1232381008587 L-asparagine permease; Provisional; Region: PRK15049 1232381008588 pyruvate kinase; Provisional; Region: PRK14725 1232381008589 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 1232381008590 active site 1232381008591 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 1232381008592 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 1232381008593 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1232381008594 NAD binding site [chemical binding]; other site 1232381008595 dimer interface [polypeptide binding]; other site 1232381008596 substrate binding site [chemical binding]; other site 1232381008597 Predicted membrane protein [Function unknown]; Region: COG4425 1232381008598 Predicted membrane protein (DUF2319); Region: DUF2319; pfam10081 1232381008599 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 1232381008600 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 1232381008601 motif II; other site 1232381008602 Predicted flavoprotein [General function prediction only]; Region: COG0431 1232381008603 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1232381008604 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1232381008605 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1232381008606 DNA-binding site [nucleotide binding]; DNA binding site 1232381008607 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1232381008608 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1232381008609 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1232381008610 active site 1232381008611 metal binding site [ion binding]; metal-binding site 1232381008612 Protein of unknown function (DUF4238); Region: DUF4238; pfam14022 1232381008613 metabolite-proton symporter; Region: 2A0106; TIGR00883 1232381008614 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381008615 putative substrate translocation pore; other site 1232381008616 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 1232381008617 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 1232381008618 active site 1232381008619 substrate binding site [chemical binding]; other site 1232381008620 FMN binding site [chemical binding]; other site 1232381008621 putative catalytic residues [active] 1232381008622 Pleckstrin homology (PH)-like domains in bacteria (PHb); Region: PH-like_bacteria; cd13225 1232381008623 pentamer interface [polypeptide binding]; other site 1232381008624 dodecaamer interface [polypeptide binding]; other site 1232381008625 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1232381008626 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 1232381008627 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 1232381008628 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1232381008629 DNA-binding site [nucleotide binding]; DNA binding site 1232381008630 FCD domain; Region: FCD; pfam07729 1232381008631 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1232381008632 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1232381008633 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 1232381008634 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5383 1232381008635 aldehyde dehydrogenase family 7 member; Region: PLN02315 1232381008636 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 1232381008637 tetrameric interface [polypeptide binding]; other site 1232381008638 NAD binding site [chemical binding]; other site 1232381008639 catalytic residues [active] 1232381008640 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 1232381008641 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1232381008642 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 1232381008643 NAD(P) binding site [chemical binding]; other site 1232381008644 Tubby C 2; Region: Tub_2; cl02043 1232381008645 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like6; cd05664 1232381008646 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1232381008647 metal binding site [ion binding]; metal-binding site 1232381008648 putative dimer interface [polypeptide binding]; other site 1232381008649 methionine sulfoxide reductase A; Provisional; Region: PRK00058 1232381008650 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 1232381008651 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1232381008652 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1232381008653 Integrase core domain; Region: rve; pfam00665 1232381008654 Integrase core domain; Region: rve_3; pfam13683 1232381008655 hypothetical protein; Validated; Region: PRK09039 1232381008656 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1232381008657 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1232381008658 The substrate binding domain of LysR-type transcriptional regulator GltC, which activates gltA expression of glutamate synthase operon, contains type 2 periplasmic binding fold; Region: PBP2_GltC_like; cd08434 1232381008659 putative dimerization interface [polypeptide binding]; other site 1232381008660 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381008661 putative substrate translocation pore; other site 1232381008662 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1232381008663 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 1232381008664 Predicted nuclease (RecB family) [General function prediction only]; Region: COG2251 1232381008665 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 1232381008666 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1232381008667 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1232381008668 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1232381008669 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1232381008670 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1232381008671 classical (c) SDRs; Region: SDR_c; cd05233 1232381008672 NAD(P) binding site [chemical binding]; other site 1232381008673 active site 1232381008674 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381008675 putative substrate translocation pore; other site 1232381008676 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1232381008677 MarR family; Region: MarR_2; pfam12802 1232381008678 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1232381008679 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1232381008680 active site 1232381008681 phosphorylation site [posttranslational modification] 1232381008682 intermolecular recognition site; other site 1232381008683 dimerization interface [polypeptide binding]; other site 1232381008684 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 1232381008685 DNA binding residues [nucleotide binding] 1232381008686 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1232381008687 Histidine kinase; Region: HisKA_3; pfam07730 1232381008688 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1232381008689 ATP binding site [chemical binding]; other site 1232381008690 Mg2+ binding site [ion binding]; other site 1232381008691 G-X-G motif; other site 1232381008692 Domain of unknown function (DUF2020); Region: DUF2020; pfam09449 1232381008693 Sortase D (SrtD) is a membrane transpeptidase found in gram-positive bacteria that anchors surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the surface protein substrate is cleaved...; Region: Sortase_D_5; cd05830 1232381008694 active site 1232381008695 catalytic site [active] 1232381008696 putative inner membrane protein translocase component YidC; Validated; Region: PRK00247 1232381008697 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 1232381008698 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 1232381008699 Ligand Binding Site [chemical binding]; other site 1232381008700 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 1232381008701 Ligand Binding Site [chemical binding]; other site 1232381008702 potential frameshift: common BLAST hit: gi|62391782|ref|YP_227184.1| alkanal monooxygenase subunit alpha 1232381008703 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 1232381008704 Pseudouridine synthase, a subgroup of the RluA family; Region: PSRA_1; cd02558 1232381008705 probable active site [active] 1232381008706 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1232381008707 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1232381008708 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 1232381008709 Type I periplasmic-binding protein of the nitrile hydratase (NHase) system that selectively converts nitriles to corresponding amides; Region: PBP1_NHase; cd06358 1232381008710 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1232381008711 putative ligand binding site [chemical binding]; other site 1232381008712 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1232381008713 MarR family; Region: MarR_2; pfam12802 1232381008714 Predicted transcriptional regulators [Transcription]; Region: COG1725 1232381008715 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1232381008716 DNA-binding site [nucleotide binding]; DNA binding site 1232381008717 LabA_like proteins; Region: LabA_like; cd06167 1232381008718 putative metal binding site [ion binding]; other site 1232381008719 Uncharacterized conserved protein [Function unknown]; Region: COG1432 1232381008720 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 1232381008721 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 1232381008722 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1232381008723 catalytic residues [active] 1232381008724 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 1232381008725 metal-binding site [ion binding] 1232381008726 benzoate transport; Region: 2A0115; TIGR00895 1232381008727 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381008728 putative substrate translocation pore; other site 1232381008729 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381008730 Predicted transcriptional regulators [Transcription]; Region: COG1695 1232381008731 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1232381008732 replicative DNA helicase; Provisional; Region: PRK05636 1232381008733 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1232381008734 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 1232381008735 Walker A motif; other site 1232381008736 ATP binding site [chemical binding]; other site 1232381008737 Walker B motif; other site 1232381008738 DNA binding loops [nucleotide binding] 1232381008739 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1232381008740 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1232381008741 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1232381008742 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1232381008743 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 1232381008744 dimer interface [polypeptide binding]; other site 1232381008745 ssDNA binding site [nucleotide binding]; other site 1232381008746 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1232381008747 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1232381008748 Predicted integral membrane protein [Function unknown]; Region: COG5650 1232381008749 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 1232381008750 Transglycosylase; Region: Transgly; pfam00912 1232381008751 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1232381008752 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1232381008753 MarR family; Region: MarR; pfam01047 1232381008754 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 1232381008755 Ligand Binding Site [chemical binding]; other site 1232381008756 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 1232381008757 Ligand Binding Site [chemical binding]; other site 1232381008758 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 1232381008759 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 1232381008760 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 1232381008761 active site residue [active] 1232381008762 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1232381008763 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1232381008764 FtsX-like permease family; Region: FtsX; pfam02687 1232381008765 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1232381008766 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1232381008767 Walker A/P-loop; other site 1232381008768 ATP binding site [chemical binding]; other site 1232381008769 Q-loop/lid; other site 1232381008770 ABC transporter signature motif; other site 1232381008771 Walker B; other site 1232381008772 D-loop; other site 1232381008773 H-loop/switch region; other site 1232381008774 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 1232381008775 HlyD family secretion protein; Region: HlyD_3; pfam13437 1232381008776 Myo-inositol-1-phosphate synthase [Lipid metabolism]; Region: INO1; COG1260 1232381008777 inositol 1-phosphate synthase, Actinobacterial type; Region: mycothiol_INO1; TIGR03450 1232381008778 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4868 1232381008779 hypothetical protein; Provisional; Region: PRK13663 1232381008780 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1232381008781 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1232381008782 dimerization interface [polypeptide binding]; other site 1232381008783 DPS ferroxidase diiron center [ion binding]; other site 1232381008784 ion pore; other site 1232381008785 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 1232381008786 N-terminal domain of the actinomycetal Nei1 and related DNA glycosylases; Region: AcNei1_N; cd08970 1232381008787 putative DNA binding site [nucleotide binding]; other site 1232381008788 catalytic residue [active] 1232381008789 putative H2TH interface [polypeptide binding]; other site 1232381008790 putative catalytic residues [active] 1232381008791 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1232381008792 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 1232381008793 hypothetical protein; Reviewed; Region: PRK09588 1232381008794 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1232381008795 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1232381008796 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 1232381008797 DNA binding site [nucleotide binding] 1232381008798 active site 1232381008799 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 1232381008800 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 1232381008801 putative NAD(P) binding site [chemical binding]; other site 1232381008802 dimer interface [polypeptide binding]; other site 1232381008803 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 1232381008804 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 1232381008805 intersubunit interface [polypeptide binding]; other site 1232381008806 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1232381008807 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381008808 putative substrate translocation pore; other site 1232381008809 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 1232381008810 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1232381008811 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1232381008812 putative NAD(P) binding site [chemical binding]; other site 1232381008813 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1232381008814 Gluconate kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_GntK; cd07770 1232381008815 N- and C-terminal domain interface [polypeptide binding]; other site 1232381008816 active site 1232381008817 catalytic site [active] 1232381008818 metal binding site [ion binding]; metal-binding site 1232381008819 carbohydrate binding site [chemical binding]; other site 1232381008820 ATP binding site [chemical binding]; other site 1232381008821 Glycopeptide antibiotics resistance protein [Defense mechanisms]; Region: VanZ; COG4767 1232381008822 Glycopeptide antibiotics resistance protein [Defense mechanisms]; Region: VanZ; COG4767 1232381008823 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1232381008824 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK07251 1232381008825 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1232381008826 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1232381008827 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1232381008828 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1232381008829 Nitroreductase-like family 5. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_5; cd02148 1232381008830 putative FMN binding site [chemical binding]; other site 1232381008831 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1232381008832 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1232381008833 HIGH motif; other site 1232381008834 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1232381008835 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1232381008836 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1232381008837 active site 1232381008838 KMSKS motif; other site 1232381008839 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1232381008840 tRNA binding surface [nucleotide binding]; other site 1232381008841 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 1232381008842 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 1232381008843 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 1232381008844 non-specific DNA binding site [nucleotide binding]; other site 1232381008845 salt bridge; other site 1232381008846 sequence-specific DNA binding site [nucleotide binding]; other site 1232381008847 mycothiol-dependent maleylpyruvate isomerase; Reviewed; Region: PRK09583 1232381008848 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; pfam11716 1232381008849 MDMPI C-terminal domain; Region: MDMPI_C; pfam07398 1232381008850 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 1232381008851 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1232381008852 Gentisate 1,2-dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3435 1232381008853 Cupin domain; Region: Cupin_2; pfam07883 1232381008854 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1232381008855 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 1232381008856 Bacterial transcriptional regulator; Region: IclR; pfam01614 1232381008857 benzoate transport; Region: 2A0115; TIGR00895 1232381008858 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381008859 putative substrate translocation pore; other site 1232381008860 salicylate hydroxylase; Provisional; Region: PRK08163 1232381008861 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1232381008862 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1232381008863 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 1232381008864 SdpI/YhfL protein family; Region: SdpI; pfam13630 1232381008865 Predicted integral membrane protein [Function unknown]; Region: COG5658 1232381008866 anthranilate synthase component I; Provisional; Region: PRK13564 1232381008867 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1232381008868 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1232381008869 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1232381008870 Glutamine amidotransferase class-I; Region: GATase; pfam00117 1232381008871 glutamine binding [chemical binding]; other site 1232381008872 catalytic triad [active] 1232381008873 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 1232381008874 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1232381008875 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1232381008876 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 1232381008877 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 1232381008878 active site 1232381008879 ribulose/triose binding site [chemical binding]; other site 1232381008880 phosphate binding site [ion binding]; other site 1232381008881 substrate (anthranilate) binding pocket [chemical binding]; other site 1232381008882 product (indole) binding pocket [chemical binding]; other site 1232381008883 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 1232381008884 active site 1232381008885 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1232381008886 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 1232381008887 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1232381008888 catalytic residue [active] 1232381008889 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 1232381008890 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 1232381008891 substrate binding site [chemical binding]; other site 1232381008892 active site 1232381008893 catalytic residues [active] 1232381008894 heterodimer interface [polypeptide binding]; other site 1232381008895 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK09410 1232381008896 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 1232381008897 active site 1232381008898 phosphorylation site [posttranslational modification] 1232381008899 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 1232381008900 active site 1232381008901 P-loop; other site 1232381008902 phosphorylation site [posttranslational modification] 1232381008903 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1232381008904 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1232381008905 Walker A/P-loop; other site 1232381008906 ATP binding site [chemical binding]; other site 1232381008907 Q-loop/lid; other site 1232381008908 ABC transporter signature motif; other site 1232381008909 Walker B; other site 1232381008910 D-loop; other site 1232381008911 H-loop/switch region; other site 1232381008912 Putative exporter of polyketide antibiotics [Cell envelope biogenesis, outer membrane]; Region: TnrB3; COG3559 1232381008913 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 1232381008914 iron-sulfur cluster [ion binding]; other site 1232381008915 [2Fe-2S] cluster binding site [ion binding]; other site 1232381008916 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1232381008917 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 1232381008918 active site 1232381008919 FMN binding site [chemical binding]; other site 1232381008920 substrate binding site [chemical binding]; other site 1232381008921 homotetramer interface [polypeptide binding]; other site 1232381008922 catalytic residue [active] 1232381008923 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1232381008924 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 1232381008925 Uncharacterized conserved protein [Function unknown]; Region: COG3358 1232381008926 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 1232381008927 putative DNA binding site [nucleotide binding]; other site 1232381008928 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1232381008929 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 1232381008930 active site 1232381008931 FMN binding site [chemical binding]; other site 1232381008932 substrate binding site [chemical binding]; other site 1232381008933 homotetramer interface [polypeptide binding]; other site 1232381008934 catalytic residue [active] 1232381008935 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 1232381008936 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1232381008937 NAD(P) binding site [chemical binding]; other site 1232381008938 putative active site [active] 1232381008939 short chain dehydrogenase; Provisional; Region: PRK08267 1232381008940 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1232381008941 NAD(P) binding site [chemical binding]; other site 1232381008942 active site 1232381008943 mttA/Hcf106 family; Region: MttA_Hcf106; pfam02416 1232381008944 twin arginine translocase protein A; Provisional; Region: tatA; PRK00575 1232381008945 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 1232381008946 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381008947 putative substrate translocation pore; other site 1232381008948 POT family; Region: PTR2; cl17359 1232381008949 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1232381008950 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 1232381008951 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 1232381008952 active site 1232381008953 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1232381008954 Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes; Region: MAR; cd08177 1232381008955 active site 1232381008956 dimer interface [polypeptide binding]; other site 1232381008957 metal binding site [ion binding]; metal-binding site 1232381008958 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 1232381008959 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381008960 putative substrate translocation pore; other site 1232381008961 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381008962 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1232381008963 Sugar-specific transcriptional regulator TrmB; Region: TrmB; cl17775 1232381008964 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1232381008965 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1232381008966 Bacterial transcriptional regulator; Region: IclR; pfam01614 1232381008967 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1232381008968 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1232381008969 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1232381008970 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1232381008971 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1232381008972 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1232381008973 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1232381008974 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1232381008975 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1232381008976 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1232381008977 Lamin Tail Domain; Region: LTD; pfam00932 1232381008978 Bacillus subtilis YvnB and related proteins, metallophosphatase domain; Region: MPP_YvnB; cd07399 1232381008979 putative active site [active] 1232381008980 putative metal binding site [ion binding]; other site 1232381008981 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 1232381008982 classical (c) SDRs; Region: SDR_c; cd05233 1232381008983 NAD(P) binding site [chemical binding]; other site 1232381008984 active site 1232381008985 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 1232381008986 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 1232381008987 acyl-activating enzyme (AAE) consensus motif; other site 1232381008988 putative AMP binding site [chemical binding]; other site 1232381008989 putative active site [active] 1232381008990 putative CoA binding site [chemical binding]; other site 1232381008991 benzoate transport; Region: 2A0115; TIGR00895 1232381008992 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381008993 putative substrate translocation pore; other site 1232381008994 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381008995 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1232381008996 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 1232381008997 Bacterial transcriptional regulator; Region: IclR; pfam01614 1232381008998 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 1232381008999 active site 1232381009000 proline/glycine betaine transporter; Provisional; Region: PRK10642 1232381009001 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381009002 putative substrate translocation pore; other site 1232381009003 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 1232381009004 active site 1232381009005 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1232381009006 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1232381009007 DNA-binding site [nucleotide binding]; DNA binding site 1232381009008 FCD domain; Region: FCD; pfam07729 1232381009009 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1232381009010 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1232381009011 NAD(P) binding site [chemical binding]; other site 1232381009012 homotetramer interface [polypeptide binding]; other site 1232381009013 homodimer interface [polypeptide binding]; other site 1232381009014 active site 1232381009015 acyl-CoA synthetase; Validated; Region: PRK06178 1232381009016 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1232381009017 acyl-activating enzyme (AAE) consensus motif; other site 1232381009018 AMP binding site [chemical binding]; other site 1232381009019 active site 1232381009020 CoA binding site [chemical binding]; other site 1232381009021 (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 1232381009022 active site 1232381009023 catalytic site [active] 1232381009024 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 1232381009025 putative active site [active] 1232381009026 putative catalytic site [active] 1232381009027 acetyl-CoA acetyltransferase; Provisional; Region: PRK07851 1232381009028 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 1232381009029 dimer interface [polypeptide binding]; other site 1232381009030 active site 1232381009031 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1232381009032 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1232381009033 putative substrate translocation pore; other site 1232381009034 short chain dehydrogenase; Provisional; Region: PRK07577 1232381009035 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1232381009036 NAD(P) binding site [chemical binding]; other site 1232381009037 active site 1232381009038 3-hydroxyacyl-CoA dehydrogenase; Validated; Region: PRK06129 1232381009039 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1232381009040 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1232381009041 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 1232381009042 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1232381009043 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 1232381009044 homodimer interface [polypeptide binding]; other site 1232381009045 chemical substrate binding site [chemical binding]; other site 1232381009046 oligomer interface [polypeptide binding]; other site 1232381009047 metal binding site [ion binding]; metal-binding site 1232381009048 GIY-YIG domain of uncharacterized bacterial protein structurally related to COG3410; Region: GIY-YIG_COG3410; cd10439 1232381009049 GIY-YIG motif/motif A; other site 1232381009050 putative active site [active] 1232381009051 putative metal binding site [ion binding]; other site 1232381009052 AAA ATPase domain; Region: AAA_16; pfam13191 1232381009053 Uncharacterized conserved protein (DUF2075); Region: DUF2075; pfam09848 1232381009054 Uncharacterized conserved protein [Function unknown]; Region: COG3410 1232381009055 ABC-type Fe3+-citrate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FecB; COG4594 1232381009056 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 1232381009057 siderophore binding site; other site 1232381009058 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1232381009059 2-enoyl thioester reductase (ETR) like proteins, child 2; Region: ETR_like_2; cd08292 1232381009060 putative NAD(P) binding site [chemical binding]; other site 1232381009061 putative dimer interface [polypeptide binding]; other site 1232381009062 Protein of unknown function (DUF1304); Region: DUF1304; cl01533 1232381009063 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 1232381009064 substrate binding site [chemical binding]; other site 1232381009065 dimer interface [polypeptide binding]; other site 1232381009066 ATP binding site [chemical binding]; other site 1232381009067 Copper chaperone [Inorganic ion transport and metabolism]; Region: CopZ; COG2608 1232381009068 metal-binding site [ion binding] 1232381009069 Predicted branched-chain amino acid permeases (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlD; COG1687 1232381009070 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 1232381009071 hypothetical protein; Validated; Region: PRK00228 1232381009072 tRNA adenylyltransferase; Region: tRNA_CCA_actino; TIGR02692 1232381009073 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1232381009074 active site 1232381009075 NTP binding site [chemical binding]; other site 1232381009076 metal binding triad [ion binding]; metal-binding site 1232381009077 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1232381009078 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1232381009079 Zn2+ binding site [ion binding]; other site 1232381009080 Mg2+ binding site [ion binding]; other site 1232381009081 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 1232381009082 Diadenosine hexaphosphate (Ap6A) hydrolase is a member of the Nudix hydrolase superfamily. Ap6A hydrolase specifically hydrolyzes diadenosine polyphosphates, but not ATP or diadenosine triphosphate, and it generates ATP as the product. Ap6A, the most...; Region: Ap6A_hydrolase; cd03673 1232381009083 active site 1232381009084 Ap6A binding site [chemical binding]; other site 1232381009085 nudix motif; other site 1232381009086 metal binding site [ion binding]; metal-binding site 1232381009087 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 1232381009088 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1232381009089 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1232381009090 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1232381009091 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 1232381009092 DNA binding residues [nucleotide binding] 1232381009093 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 1232381009094 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1232381009095 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1232381009096 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 1232381009097 catalytic residues [active] 1232381009098 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 1232381009099 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1232381009100 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1232381009101 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1232381009102 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 1232381009103 active site 1232381009104 metal binding site [ion binding]; metal-binding site 1232381009105 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 1232381009106 ParB-like nuclease domain; Region: ParB; smart00470 1232381009107 KorB domain; Region: KorB; pfam08535 1232381009108 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1232381009109 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 1232381009110 P-loop; other site 1232381009111 Magnesium ion binding site [ion binding]; other site 1232381009112 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 1232381009113 Magnesium ion binding site [ion binding]; other site 1232381009114 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 1232381009115 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 1232381009116 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 1232381009117 putative inner membrane protein translocase component YidC; Provisional; Region: PRK03449 1232381009118 Haemolytic domain; Region: Haemolytic; pfam01809 1232381009119 ribonuclease P; Reviewed; Region: rnpA; PRK03459